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Conserved domains on  [gi|974129579|gb|ALY06492|]
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ATP-dependent protease ATP-binding subunit ClpX, partial [Limosilactobacillus fermentum]

Protein Classification

ATP-dependent Clp protease ATP-binding subunit ClpX( domain architecture ID 1021634)

ATP-dependent Clp protease ATP-binding subunit ClpX is an ATP-dependent specificity component of the Clp protease that uses cycles of ATP-binding and hydrolysis to unfold proteins and translocate them to the ClpP protease

CATH:  1.10.8.60
Gene Ontology:  GO:0005524|GO:0016887|GO:0006457
SCOP:  4000283

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ClpX super family cl34188
ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein ...
 1-150 3.22e-128

ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein turnover, chaperones];


The actual alignment was detected with superfamily member COG1219:

Pssm-ID: 440832 [Multi-domain]  Cd Length: 409  Bit Score: 364.37  E-value: 3.22e-128
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   1 KRVNAMVTgDNNDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDID 80
Cdd:COG1219   93 KRLNSGSK-DDDDVELEKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 171

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  81 RAEKGIIYIDEIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:COG1219  172 KAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVANVPPQGGRKHPQQEFIQIDTTNIL 241
 
Name Accession Description Interval E-value
ClpX COG1219
ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein ...
 1-150 3.22e-128

ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440832 [Multi-domain]  Cd Length: 409  Bit Score: 364.37  E-value: 3.22e-128
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   1 KRVNAMVTgDNNDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDID 80
Cdd:COG1219   93 KRLNSGSK-DDDDVELEKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 171

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  81 RAEKGIIYIDEIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:COG1219  172 KAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVANVPPQGGRKHPQQEFIQIDTTNIL 241
clpX PRK05342
ATP-dependent Clp protease ATP-binding subunit ClpX;
1-150 1.93e-121

ATP-dependent Clp protease ATP-binding subunit ClpX;


Pssm-ID: 235422 [Multi-domain]  Cd Length: 412  Bit Score: 347.53  E-value: 1.93e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   1 KRVNAMVTGDNnDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDID 80
Cdd:PRK05342  92 KRLRHGDKKDD-DVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 170

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  81 RAEKGIIYIDEIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:PRK05342 171 KAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKHPQQEFIQVDTTNIL 240
RecA-like_ClpX cd19497
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ...
 1-150 3.40e-108

ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent protease ClpXP. In ClpXP, ClpX ATPase serves to specifically recognize, unfold, and translocate protein substrates into the chamber of ClpP protease for degradation. This RecA-like_ClpX domain subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410905 [Multi-domain]  Cd Length: 251  Bit Score: 307.99  E-value: 3.40e-108
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   1 KRVNAMVTGDNNDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDID 80
Cdd:cd19497   33 KRIRNNLKQKDDDVELEKSNILLIGPTGSGKTLLAQTLAKILDVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 112

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  81 RAEKGIIYIDEIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:cd19497  113 RAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVANVPPQGGRKHPQQEFIQVDTTNIL 182
clpX TIGR00382
endopeptidase Clp ATP-binding regulatory subunit (clpX); A member of the ATP-dependent ...
 11-150 3.68e-92

endopeptidase Clp ATP-binding regulatory subunit (clpX); A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction. [Protein fate, Protein folding and stabilization, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273047 [Multi-domain]  Cd Length: 413  Bit Score: 273.18  E-value: 3.68e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   11 NNDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDIDRAEKGIIYID 90
Cdd:TIGR00382 109 DNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVEKAQKGIIYID 188

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   91 EIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:TIGR00382 189 EIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPYQEFIQIDTSNIL 248
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 18-150 2.63e-28

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 102.27  E-value: 2.63e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   18 KSNIAVIGPTGSGKTYLAQSLARILNV---PFAIADATTLTEagyvgedvENIILKLLQAADFDIDRAEKG--------- 85
Cdd:pfam07724   3 IGSFLFLGPTGVGKTELAKALAELLFGderALIRIDMSEYME--------EHSVSRLIGAPPGYVGYEEGGqlteavrrk 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 974129579   86 ---IIYIDEIDKIAKksenvsitrdvsgeGVQQALLKILEGTIANvpPQGGRkhpqqefiQVDTKNIL 150
Cdd:pfam07724  75 pysIVLIDEIEKAHP--------------GVQNDLLQILEGGTLT--DKQGR--------TVDFKNTL 118
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 17-104 1.90e-07

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 47.37  E-value: 1.90e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579    17 QKSNIAVIGPTGSGKTYLAQSLARILNVP---FAIADATTLTEAGYVGEDVENIILKLL-----QAADFDIDRAEK---G 85
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILEEVLDQLLLIIVGGKKAsgsgeLRLRLALALARKlkpD 80

                           90
                   ....*....|....*....
gi 974129579    86 IIYIDEIDKIAKKSENVSI 104
Cdd:smart00382  81 VLILDEITSLLDAEQEALL 99
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 17-40 9.48e-04

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 37.84  E-value: 9.48e-04
                         10        20
                 ....*....|....*....|....
gi 974129579  17 QKSNIAVIGPTGSGKTYLAQSLAR 40
Cdd:NF038214  89 RAENVLLLGPPGTGKTHLAIALGY 112
 
Name Accession Description Interval E-value
ClpX COG1219
ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein ...
 1-150 3.22e-128

ATP-dependent protease Clp, ATPase subunit ClpX [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440832 [Multi-domain]  Cd Length: 409  Bit Score: 364.37  E-value: 3.22e-128
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   1 KRVNAMVTgDNNDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDID 80
Cdd:COG1219   93 KRLNSGSK-DDDDVELEKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 171

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  81 RAEKGIIYIDEIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:COG1219  172 KAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVANVPPQGGRKHPQQEFIQIDTTNIL 241
clpX PRK05342
ATP-dependent Clp protease ATP-binding subunit ClpX;
1-150 1.93e-121

ATP-dependent Clp protease ATP-binding subunit ClpX;


Pssm-ID: 235422 [Multi-domain]  Cd Length: 412  Bit Score: 347.53  E-value: 1.93e-121
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   1 KRVNAMVTGDNnDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDID 80
Cdd:PRK05342  92 KRLRHGDKKDD-DVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 170

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  81 RAEKGIIYIDEIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:PRK05342 171 KAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKHPQQEFIQVDTTNIL 240
RecA-like_ClpX cd19497
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ...
 1-150 3.40e-108

ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent protease ClpXP. In ClpXP, ClpX ATPase serves to specifically recognize, unfold, and translocate protein substrates into the chamber of ClpP protease for degradation. This RecA-like_ClpX domain subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410905 [Multi-domain]  Cd Length: 251  Bit Score: 307.99  E-value: 3.40e-108
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   1 KRVNAMVTGDNNDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDID 80
Cdd:cd19497   33 KRIRNNLKQKDDDVELEKSNILLIGPTGSGKTLLAQTLAKILDVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVE 112

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  81 RAEKGIIYIDEIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:cd19497  113 RAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVANVPPQGGRKHPQQEFIQVDTTNIL 182
clpX TIGR00382
endopeptidase Clp ATP-binding regulatory subunit (clpX); A member of the ATP-dependent ...
 11-150 3.68e-92

endopeptidase Clp ATP-binding regulatory subunit (clpX); A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction. [Protein fate, Protein folding and stabilization, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273047 [Multi-domain]  Cd Length: 413  Bit Score: 273.18  E-value: 3.68e-92
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   11 NNDTELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLQAADFDIDRAEKGIIYID 90
Cdd:TIGR00382 109 DNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVEKAQKGIIYID 188

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   91 EIDKIAKKSENVSITRDVSGEGVQQALLKILEGTIANVPPQGGRKHPQQEFIQVDTKNIL 150
Cdd:TIGR00382 189 EIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGRKHPYQEFIQIDTSNIL 248
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 15-127 2.20e-30

ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410906 [Multi-domain]  Cd Length: 183  Bit Score: 108.24  E-value: 2.20e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  15 ELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENIILKLLqaadfdidraeKGIIYIDEIDK 94
Cdd:cd19498   43 EVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVGYVGRDVESIIRDLV-----------EGIVFIDEIDK 111

                         90       100       110
                 ....*....|....*....|....*....|...
gi 974129579  95 IAKKSENVSitRDVSGEGVQQALLKILEGTIAN 127
Cdd:cd19498  112 IAKRGGSSG--PDVSREGVQRDLLPIVEGSTVS 142
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 18-150 2.63e-28

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 102.27  E-value: 2.63e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   18 KSNIAVIGPTGSGKTYLAQSLARILNV---PFAIADATTLTEagyvgedvENIILKLLQAADFDIDRAEKG--------- 85
Cdd:pfam07724   3 IGSFLFLGPTGVGKTELAKALAELLFGderALIRIDMSEYME--------EHSVSRLIGAPPGYVGYEEGGqlteavrrk 74

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 974129579   86 ---IIYIDEIDKIAKksenvsitrdvsgeGVQQALLKILEGTIANvpPQGGRkhpqqefiQVDTKNIL 150
Cdd:pfam07724  75 pysIVLIDEIEKAHP--------------GVQNDLLQILEGGTLT--DKQGR--------TVDFKNTL 118
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 15-123 2.52e-17

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 73.86  E-value: 2.52e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  15 ELQKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAgYVGEDVENiILKLLQAAdfdiDRAEKGIIYIDEIDK 94
Cdd:cd19481   23 LGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSK-YVGESEKN-LRKIFERA----RRLAPCILFIDEIDA 96

                         90       100
                 ....*....|....*....|....*....
gi 974129579  95 IAKKSENVSITRDVSgeGVQQALLKILEG 123
Cdd:cd19481   97 IGRKRDSSGESGELR--RVLNQLLTELDG 123
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 23-123 1.97e-14

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 65.31  E-value: 1.97e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   23 VIGPTGSGKTYLAQSLARILNVPFAIADATTLTEaGYVGEDVENIIlKLLQAAdfdiDRAEKGIIYIDEIDKIAKKSENv 102
Cdd:pfam00004   3 LYGPPGTGKTTLAKAVAKELGAPFIEISGSELVS-KYVGESEKRLR-ELFEAA----KKLAPCVIFIDEIDALAGSRGS- 75

                          90       100
                  ....*....|....*....|.
gi 974129579  103 siTRDVSGEGVQQALLKILEG 123
Cdd:pfam00004  76 --GGDSESRRVVNQLLTELDG 94
hslU PRK05201
ATP-dependent protease ATPase subunit HslU;
20-124 2.08e-14

ATP-dependent protease ATPase subunit HslU;


Pssm-ID: 235364 [Multi-domain]  Cd Length: 443  Bit Score: 68.95  E-value: 2.08e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  20 NIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENII------------------------------- 68
Cdd:PRK05201  52 NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDVESIIrdlveiavkmvreekrekvrekaeeaaeeri 131

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  69 ----------------------------LKLLQAADFD------------------------------------------ 78
Cdd:PRK05201 132 ldallppaknnwgeeeekeeisatrqkfRKKLREGELDdkeieievaeaapmmeimgppgmeemtiqlqdmfgnlgpkkk 211

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 974129579  79 --------------------------------IDRAEK-GIIYIDEIDKIAKKSENVSitRDVSGEGVQQALLKILEGT 124
Cdd:PRK05201 212 kkrklkvkearkilieeeaaklidmeeikqeaIERVEQnGIVFIDEIDKIAARGGSSG--PDVSREGVQRDLLPLVEGS 288
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 17-122 2.33e-13

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 63.32  E-value: 2.33e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  17 QKSNIAVIGPTGSGKTYLAQSLARIL---NVPFAIADATTLTEAGYVGEDVENIILKLLQAAdfdIDRAEKGIIYIDEID 93
Cdd:cd00009   18 PPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELFGHFLVRLLFEL---AEKAKPGVLFIDEID 94

                         90       100
                 ....*....|....*....|....*....
gi 974129579  94 KIakksenvsitrdvsGEGVQQALLKILE 122
Cdd:cd00009   95 SL--------------SRGAQNALLRVLE 109
HslU COG1220
ATP-dependent protease HslVU (ClpYQ), ATPase subunit HslU [Posttranslational modification, ...
 20-124 5.17e-13

ATP-dependent protease HslVU (ClpYQ), ATPase subunit HslU [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440833 [Multi-domain]  Cd Length: 454  Bit Score: 65.07  E-value: 5.17e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  20 NIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYVGEDVENII------------------------------- 68
Cdd:COG1220   52 NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDVESMIrdlveiavkmvreekmekvrekaeeaaeeri 131

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579     --------------------------------------------------------------------------------
Cdd:COG1220  132 ldlllpppkkkagsnnpfeeeeeeeeeeeeisrtrekfrkklregelddreieieveessspgveimgppgmeemgmnlq 211

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  69 ---------------------LKLLQ---AA---DFD------IDRAEK-GIIYIDEIDKIAKKSENVSItrDVSGEGVQ 114
Cdd:COG1220  212 dmfgnlmpkkkkkrkvkvkeaRKILTqeeAAkliDMDevkqeaIERAEQnGIIFIDEIDKIASRGGGSGP--DVSREGVQ 289

                        250
                 ....*....|
gi 974129579 115 QALLKILEGT 124
Cdd:COG1220  290 RDLLPIVEGS 299
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 25-128 6.33e-12

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 61.85  E-value: 6.33e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  25 GPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDVENiILKLLQAAdfdiDRAEKGIIYIDEIDKIAKKSENVsi 104
Cdd:COG0464  198 GPPGTGKTLLARALAGELGLPLIEVDLSDLV-SKYVGETEKN-LREVFDKA----RGLAPCVLFIDEADALAGKRGEV-- 269

                         90       100
                 ....*....|....*....|....
gi 974129579 105 tRDVSGEGVQQALLKILEGTIANV 128
Cdd:COG0464  270 -GDGVGRRVVNTLLTEMEELRSDV 292
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 25-117 2.01e-08

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 50.48  E-value: 2.01e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  25 GPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDVENIILKLLQAAdfdidRAEKGIIYIDEIDKIAKKSENVSi 104
Cdd:cd19518   41 GPPGCGKTMLANAIAGELKVPFLKISATEIV-SGVSGESEEKIRELFDQAI-----SNAPCIVFIDEIDAITPKRESAQ- 113

                         90
                 ....*....|...
gi 974129579 105 tRDVSGEGVQQAL 117
Cdd:cd19518  114 -REMERRIVSQLL 125
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 24-123 5.56e-08

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 49.21  E-value: 5.56e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  24 IGPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDVENiILKLLQAAdfdiDRAEKGIIYIDEIDKIAKKSENVS 103
Cdd:cd19503   40 HGPPGTGKTLLARAVANEAGANFLSISGPSIV-SKYLGESEKN-LREIFEEA----RSHAPSIIFIDEIDALAPKREEDQ 113

                         90       100
                 ....*....|....*....|
gi 974129579 104 itRDVSGEGVQQaLLKILEG 123
Cdd:cd19503  114 --REVERRVVAQ-LLTLMDG 130
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 17-104 1.90e-07

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 47.37  E-value: 1.90e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579    17 QKSNIAVIGPTGSGKTYLAQSLARILNVP---FAIADATTLTEAGYVGEDVENIILKLL-----QAADFDIDRAEK---G 85
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILEEVLDQLLLIIVGGKKAsgsgeLRLRLALALARKlkpD 80

                           90
                   ....*....|....*....
gi 974129579    86 IIYIDEIDKIAKKSENVSI 104
Cdd:smart00382  81 VLILDEITSLLDAEQEALL 99
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 21-123 1.92e-06

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 46.05  E-value: 1.92e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   21 IAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDVENIiLKLLQAADfdidRAEKGIIYIDEIDKIAKKSE 100
Cdd:TIGR01243 215 VLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIM-SKYYGESEERL-REIFKEAE----ENAPSIIFIDEIDAIAPKRE 288

                          90       100
                  ....*....|....*....|...
gi 974129579  101 NVsiTRDVSGEGVQQaLLKILEG 123
Cdd:TIGR01243 289 EV--TGEVEKRVVAQ-LLTLMDG 308
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 25-115 3.53e-06

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 44.27  E-value: 3.53e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  25 GPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDvENIILKLlqaadFDIDRAEK-GIIYIDEIDKIAKK--SEN 101
Cdd:cd19509   39 GPPGTGKTLLARAVASESGSTFFSISASSLV-SKWVGES-EKIVRAL-----FALARELQpSIIFIDEIDSLLSErgSGE 111

                         90
                 ....*....|....
gi 974129579 102 VSITRDVSGEGVQQ 115
Cdd:cd19509  112 HEASRRVKTEFLVQ 125
NadR3 COG3172
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ...
 21-90 9.32e-06

Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase is part of the Pathway/BioSystem: NAD biosynthesis


Pssm-ID: 442405 [Multi-domain]  Cd Length: 178  Bit Score: 43.27  E-value: 9.32e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPFA--------IADATTLTEagyvgEDVENIILKLLQAADFDIDRAEKGIIyID 90
Cdd:COG3172   11 IVLLGAESTGKTTLARALAAHYNTPWVpeygreylEEKGRALTY-----DDLLAIARGQLALEDAAAKRANKLLF-CD 82
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 20-97 1.91e-05

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 41.89  E-value: 1.91e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   20 NIAVIGPTGSGKTYLAQSLARIL-NVPFAIADATTLTEAgyvgEDVE---NIILKLLQAADFDIDRA--EKGIIYIDEID 93
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAAALsNRPVFYVQLTRDTTE----EDLFgrrNIDPGGASWVDGPLVRAarEGEIAVLDEIN 76


                  ....
gi 974129579   94 KIAK 97
Cdd:pfam07728  77 RANP 80
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 21-120 2.75e-05

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 42.09  E-value: 2.75e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNV--PFAIADATTLTEagYVGEDVENiILKLLqaADFDIDRAEKG------IIYIDEI 92
Cdd:cd19504   38 ILLYGPPGTGKTLMARQIGKMLNArePKIVNGPEILNK--YVGESEAN-IRKLF--ADAEEEQRRLGansglhIIIFDEI 112

                         90       100
                 ....*....|....*....|....*...
gi 974129579  93 DKIAKKSENVSITRDVSGEGVQQALLKI 120
Cdd:cd19504  113 DAICKQRGSMAGSTGVHDTVVNQLLSKI 140
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 25-101 2.84e-05

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 41.76  E-value: 2.84e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 974129579  25 GPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDvENIILKLLQAAdfdiDRAEKGIIYIDEIDKI-AKKSEN 101
Cdd:cd19524   40 GPPGNGKTMLAKAVAAESNATFFNISAASLT-SKYVGEG-EKLVRALFAVA----RELQPSIIFIDEVDSLlSERSEG 111
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 21-111 3.15e-05

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 41.89  E-value: 3.15e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDvENIILKLLQAADFdidrAEKGIIYIDEIDKIAKK-- 98
Cdd:cd19522   36 VLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLT-SKYRGES-EKLVRLLFEMARF----YAPTTIFIDEIDSICSRrg 109

                         90
                 ....*....|....
gi 974129579  99 -SENVSITRDVSGE 111
Cdd:cd19522  110 tSEEHEASRRVKSE 123
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 25-125 4.08e-05

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 41.99  E-value: 4.08e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  25 GPTGSGKTYLAQSLARILNVPFAIADATTlteAGyVgEDVENIIlkllQAADFDIDRAEKGIIYIDEIDKIAKKSenvsi 104
Cdd:PRK13342  43 GPPGTGKTTLARIIAGATDAPFEALSAVT---SG-V-KDLREVI----EEARQRRSAGRRTILFIDEIHRFNKAQ----- 108

                         90       100
                 ....*....|....*....|..
gi 974129579 105 trdvsgegvQQALLKILE-GTI 125
Cdd:PRK13342 109 ---------QDALLPHVEdGTI 121
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
21-98 8.05e-05

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 41.56  E-value: 8.05e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAgYVGEDVENIILKLLQAadfdiDRAEKGIIYIDEIDKIAKK 98
Cdd:PRK10733 188 VLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEM-FVGVGASRVRDMFEQA-----KKAAPCIIFIDEIDAVGRQ 259
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 21-123 1.02e-04

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 40.11  E-value: 1.02e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDVENiilklLQAADFDIDRAEKGIIYIDEIDKIAKKSE 100
Cdd:cd19519   37 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM-SKLAGESESN-----LRKAFEEAEKNAPAIIFIDEIDAIAPKRE 110

                         90       100
                 ....*....|....*....|...
gi 974129579 101 NVsiTRDVSGEGVQQaLLKILEG 123
Cdd:cd19519  111 KT--HGEVERRIVSQ-LLTLMDG 130
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 17-98 1.78e-04

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 39.33  E-value: 1.78e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  17 QKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDVENIILKLLQAAdfdidRAEKGIIYIDEIDKIA 96
Cdd:cd19526   26 LRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELL-NKYIGASEQNVRDLFSRAQ-----SAKPCILFFDEFDSIA 99


                 ..
gi 974129579  97 KK 98
Cdd:cd19526  100 PK 101
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 19-103 2.00e-04

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 39.46  E-value: 2.00e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  19 SNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDvENIILKLlqaadFDIDRAEK-GIIYIDEIDKI-A 96
Cdd:cd19521   41 SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV-SKWMGES-EKLVKQL-----FAMARENKpSIIFIDEVDSLcG 113


                 ....*..
gi 974129579  97 KKSENVS 103
Cdd:cd19521  114 TRGEGES 120
SK cd00464
Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic ...
 20-46 2.04e-04

Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.


Pssm-ID: 238260 [Multi-domain]  Cd Length: 154  Bit Score: 39.08  E-value: 2.04e-04
                         10        20
                 ....*....|....*....|....*..
gi 974129579  20 NIAVIGPTGSGKTYLAQSLARILNVPF 46
Cdd:cd00464    1 NIVLIGMMGAGKTTVGRLLAKALGLPF 27
Udk COG0572
Uridine kinase [Nucleotide transport and metabolism]; Uridine kinase is part of the Pathway ...
 21-44 2.81e-04

Uridine kinase [Nucleotide transport and metabolism]; Uridine kinase is part of the Pathway/BioSystem: Pyrimidine salvage


Pssm-ID: 440337 [Multi-domain]  Cd Length: 206  Bit Score: 39.44  E-value: 2.81e-04
                         10        20
                 ....*....|....*....|....
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNV 44
Cdd:COG0572   10 IGIAGPSGSGKTTFARRLAEQLGA 33
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
17-40 2.83e-04

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 39.38  E-value: 2.83e-04
                         10        20
                 ....*....|....*....|....
gi 974129579  17 QKSNIAVIGPTGSGKTYLAQSLAR 40
Cdd:COG1484   98 RGENLILLGPPGTGKTHLAIALGH 121
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 17-123 3.22e-04

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 38.65  E-value: 3.22e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  17 QKSNIAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTEAgYVGEDVENIILKLLQAADfdidrAEKGIIYIDEIDKIA 96
Cdd:cd19527   25 KRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINM-YIGESEANVREVFQKARD-----AKPCVIFFDELDSLA 98

                         90       100
                 ....*....|....*....|....*..
gi 974129579  97 KKSENVSITRDVSGEGVQQaLLKILEG 123
Cdd:cd19527   99 PSRGNSGDSGGVMDRVVSQ-LLAELDG 124
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 25-121 4.15e-04

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 38.47  E-value: 4.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  25 GPTGSGKTYLAQSLARILNVPFAIADATTLTEAgYVGEDVEnIILKLLQAADfdidraEKG--IIYIDEIDKIAKKSENV 102
Cdd:cd19502   44 GPPGTGKTLLAKAVANHTDATFIRVVGSELVQK-YIGEGAR-LVRELFEMAR------EKApsIIFIDEIDAIGAKRFDS 115

                         90
                 ....*....|....*....
gi 974129579 103 SITRDvsgEGVQQALLKIL 121
Cdd:cd19502  116 GTGGD---REVQRTMLELL 131
AAA_22 pfam13401
AAA domain;
15-117 4.55e-04

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 38.09  E-value: 4.55e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579   15 ELQKSNIAVIGPTGSGKTYLAQSLARIL---NVPFAIADATTLTEAGYVGEDVENII----------LKLLQA-ADFDID 80
Cdd:pfam13401   2 RFGAGILVLTGESGTGKTTLLRRLLEQLpevRDSVVFVDLPSGTSPKDLLRALLRALglplsgrlskEELLAAlQQLLLA 81

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 974129579   81 RAEKGIIYIDEIDKIAKKS-ENVSITRDVSGEGVQQAL 117
Cdd:pfam13401  82 LAVAVVLIIDEAQHLSLEAlEELRDLLNLSSKLLQLIL 119
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 25-123 8.75e-04

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 37.65  E-value: 8.75e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  25 GPTGSGKTYLAQSLARILNVPF-AIADATTLTEagYVGEDvENIILKLLQAAdfdiDRAEKGIIYIDEIDKIAKKsenvs 103
Cdd:cd19511   34 GPPGCGKTLLAKALASEAGLNFiSVKGPELFSK--YVGES-ERAVREIFQKA----RQAAPCIIFFDEIDSLAPR----- 101

                         90       100
                 ....*....|....*....|....*
gi 974129579 104 itRDVSGEG-----VQQALLKILEG 123
Cdd:cd19511  102 --RGQSDSSgvtdrVVSQLLTELDG 124
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 17-40 9.48e-04

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 37.84  E-value: 9.48e-04
                         10        20
                 ....*....|....*....|....
gi 974129579  17 QKSNIAVIGPTGSGKTYLAQSLAR 40
Cdd:NF038214  89 RAENVLLLGPPGTGKTHLAIALGY 112
AAA_14 pfam13173
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 21-92 1.04e-03

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.


Pssm-ID: 463799 [Multi-domain]  Cd Length: 128  Bit Score: 36.80  E-value: 1.04e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 974129579   21 IAVIGPTGSGKTYLAQSLARILNVPFAIAdattlteagYVgeDVENIilKLLQAADFDIDRA-------EKGIIYIDEI 92
Cdd:pfam13173   5 LVITGPRQVGKTTLLLQLIKELLPPENIL---------YI--NLDDP--RLLKLADFELLELflellypGKTYLFLDEI 70
AroK COG0703
Shikimate kinase [Amino acid transport and metabolism]; Shikimate kinase is part of the ...
 21-46 1.16e-03

Shikimate kinase [Amino acid transport and metabolism]; Shikimate kinase is part of the Pathway/BioSystem: Aromatic amino acid biosynthesis


Pssm-ID: 440467 [Multi-domain]  Cd Length: 165  Bit Score: 37.03  E-value: 1.16e-03
                         10        20
                 ....*....|....*....|....*.
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPF 46
Cdd:COG0703    1 IVLIGMMGAGKSTVGRLLAKRLGLPF 26
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 25-93 1.26e-03

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 37.02  E-value: 1.26e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  25 GPTGSGKTYLAQSLARILNVPFAIADATTLTEAGYvGEDveniilKLLQAADFDI-DRAEKGIIYIDEID 93
Cdd:cd19520   42 GPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWY-GES------QKLVAAVFSLaSKLQPSIIFIDEID 104
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
 21-97 1.48e-03

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410908 [Multi-domain]  Cd Length: 182  Bit Score: 37.15  E-value: 1.48e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPFA-IADATTLTEA-------GYVGEDVENIILKLLQAadfdidRAEKGIIYIDEI 92
Cdd:cd19500   40 LCLVGPPGVGKTSLGKSIARALGRKFVrISLGGVRDEAeirghrrTYVGAMPGRIIQALKKA------GTNNPVFLLDEI 113


                 ....*
gi 974129579  93 DKIAK 97
Cdd:cd19500  114 DKIGS 118
VirB4 COG3451
Type IV secretory pathway, VirB4 component [Intracellular trafficking, secretion, and ...
 20-40 2.24e-03

Type IV secretory pathway, VirB4 component [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442674 [Multi-domain]  Cd Length: 546  Bit Score: 37.23  E-value: 2.24e-03
                         10        20
                 ....*....|....*....|.
gi 974129579  20 NIAVIGPTGSGKTYLAQSLAR 40
Cdd:COG3451  206 NTLILGPSGSGKSFLLKLLLL 226
UMPK cd02023
Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or ...
 21-45 2.35e-03

Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.


Pssm-ID: 238981 [Multi-domain]  Cd Length: 198  Bit Score: 36.76  E-value: 2.35e-03
                         10        20
                 ....*....|....*....|....*
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVP 45
Cdd:cd02023    2 IGIAGGSGSGKTTVAEEIIEQLGNP 26
MiaA COG0324
tRNA A37 N6-isopentenylltransferase MiaA [Translation, ribosomal structure and biogenesis]; ...
 21-44 2.45e-03

tRNA A37 N6-isopentenylltransferase MiaA [Translation, ribosomal structure and biogenesis]; tRNA A37 N6-isopentenylltransferase MiaA is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 440093  Cd Length: 306  Bit Score: 36.96  E-value: 2.45e-03
                         10        20
                 ....*....|....*....|....
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNV 44
Cdd:COG0324    5 IVIVGPTASGKTALAIELAKRLGG 28
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 21-95 2.57e-03

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 36.50  E-value: 2.57e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPFAIADATTLTeAGYVGEDVeniilKLLQAAdFDIDRAEK-GIIYIDEIDKI 95
Cdd:cd19525   58 ILLFGPPGTGKTLIGKCIASQSGATFFSISASSLT-SKWVGEGE-----KMVRAL-FSVARCKQpAVIFIDEIDSL 126
aroK PRK00131
shikimate kinase; Reviewed
 16-46 2.74e-03

shikimate kinase; Reviewed


Pssm-ID: 234654 [Multi-domain]  Cd Length: 175  Bit Score: 36.32  E-value: 2.74e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 974129579  16 LQKSNIAVIGPTGSGKTYLAQSLARILNVPF 46
Cdd:PRK00131   2 LKGPNIVLIGFMGAGKSTIGRLLAKRLGYDF 32
COG0645 COG0645
Predicted kinase, contains AAA domain [General function prediction only];
21-43 3.31e-03

Predicted kinase, contains AAA domain [General function prediction only];


Pssm-ID: 440410 [Multi-domain]  Cd Length: 164  Bit Score: 36.04  E-value: 3.31e-03
                         10        20
                 ....*....|....*....|...
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILN 43
Cdd:COG0645    2 ILVCGLPGSGKSTLARALAERLG 24
YifB COG0606
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ...
 20-42 4.30e-03

Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440371 [Multi-domain]  Cd Length: 502  Bit Score: 36.17  E-value: 4.30e-03
                         10        20
                 ....*....|....*....|...
gi 974129579  20 NIAVIGPTGSGKTYLAQSLARIL 42
Cdd:COG0606  213 NLLMIGPPGSGKTMLARRLPGIL 235
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
25-100 4.86e-03

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 35.88  E-value: 4.86e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 974129579  25 GPTGSGKTYLAQSLARILNVPFAIADATTLTEAGyvgeDVENiILKLLQAADfdidraekgIIYIDEIDKIAKKSE 100
Cdd:PRK00080  58 GPPGLGKTTLANIIANEMGVNIRITSGPALEKPG----DLAA-ILTNLEEGD---------VLFIDEIHRLSPVVE 119
PRK04182 PRK04182
cytidylate kinase; Provisional
 21-102 4.89e-03

cytidylate kinase; Provisional


Pssm-ID: 235244 [Multi-domain]  Cd Length: 180  Bit Score: 35.55  E-value: 4.89e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPFAIADAT----------TLTEAGYVGEDveniilkllqaaDFDIDRaekgiiyid 90
Cdd:PRK04182   3 ITISGPPGSGKTTVARLLAEKLGLKHVSAGEIfrelakergmSLEEFNKYAEE------------DPEIDK--------- 61

                         90
                 ....*....|....*.
gi 974129579  91 EIDK----IAKKSENV 102
Cdd:PRK04182  62 EIDRrqleIAEKEDNV 77
HerA COG0433
Archaeal DNA helicase HerA or a related bacterial ATPase, contains HAS-barrel and ATPase ...
 21-50 5.64e-03

Archaeal DNA helicase HerA or a related bacterial ATPase, contains HAS-barrel and ATPase domains [Replication, recombination and repair];


Pssm-ID: 440202 [Multi-domain]  Cd Length: 388  Bit Score: 35.74  E-value: 5.64e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 974129579  21 IAVIGPTGSGKTYLAQSLARIL---NVPFAIAD 50
Cdd:COG0433   50 ILILGATGSGKSNTLQVLLEELsraGVPVLVFD 82
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 21-98 6.93e-03

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 35.16  E-value: 6.93e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNVPF-AIADATTLTEagYVGED---VENIILKLLQAAdfdidraeKGIIYIDEIDKIA 96
Cdd:cd19529   30 ILLYGPPGTGKTLLAKAVATESNANFiSVKGPELLSK--WVGESekaIREIFRKARQVA--------PCVIFFDEIDSIA 99


                 ..
gi 974129579  97 KK 98
Cdd:cd19529  100 PR 101
Dck COG1428
Deoxyadenosine/deoxycytidine kinase [Nucleotide transport and metabolism];
21-44 8.06e-03

Deoxyadenosine/deoxycytidine kinase [Nucleotide transport and metabolism];


Pssm-ID: 441037 [Multi-domain]  Cd Length: 205  Bit Score: 35.15  E-value: 8.06e-03
                         10        20
                 ....*....|....*....|....
gi 974129579  21 IAVIGPTGSGKTYLAQSLARILNV 44
Cdd:COG1428    6 IAVEGNIGAGKTTLARLLAEHLGA 29
ABC_ATPase cd00267
ATP-binding cassette transporter nucleotide-binding domain; ABC transporters are a large ...
 1-45 8.78e-03

ATP-binding cassette transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213179 [Multi-domain]  Cd Length: 157  Bit Score: 34.53  E-value: 8.78e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 974129579   1 KRVNAMVTGDNNDTELQKSNI-AVIGPTGSGKTYLAQSLARILNVP 45
Cdd:cd00267    7 FRYGGRTALDNVSLTLKAGEIvALVGPNGSGKSTLLRAIAGLLKPT 52
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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