NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1317668743|gb|PLA59508|]
View 

topology modulation protein [Streptococcus anginosus]

Protein Classification

P-loop NTPase family protein( domain architecture ID 1562424)

P-loop NTPase (nucleoside triphosphate hydrolase) family protein contains two conserved sequence signatures, the Walker A motif (the P-loop proper) and Walker B motif which bind, respectively, the beta and gamma phosphate moieties of the bound nucleotide (typically ATP or GTP), and a Mg(2+) cation

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 1-165 6.93e-90

P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families.


The actual alignment was detected with superfamily member PRK07261:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 171  Bit Score: 259.65  E-value: 6.93e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIPKLHLDMLQFLPNWEMSDRSWMQEQVKTFLNENlSWVIDGNYSSCCYEERMEQA 80
Cdd:PRK07261    1 MKIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFLLKH-DWIIDGNYSWCLYEERMQEA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743  81 DQIIFLNFSRWDCLLRAAKRYSKNRGKVRGSMAQGCPEKFDWEFIRWILLDGRTANIRKRYEKLQKMYPYKFIVLHNQKE 160
Cdd:PRK07261   80 DQIIFLNFSRFNCLYRAFKRYLKYRGKTRESMAENCPEKFDWEFIKWILLDGRSKKQKENYQSVCQKYSHKTIVLKNQKE 159


                  ....*
gi 1317668743 161 LDNFL 165
Cdd:PRK07261  160 LDQYL 164
 
Name Accession Description Interval E-value
PRK07261 PRK07261
DNA topology modulation protein;
1-165 6.93e-90

DNA topology modulation protein;


Pssm-ID: 180911 [Multi-domain]  Cd Length: 171  Bit Score: 259.65  E-value: 6.93e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIPKLHLDMLQFLPNWEMSDRSWMQEQVKTFLNENlSWVIDGNYSSCCYEERMEQA 80
Cdd:PRK07261    1 MKIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFLLKH-DWIIDGNYSWCLYEERMQEA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743  81 DQIIFLNFSRWDCLLRAAKRYSKNRGKVRGSMAQGCPEKFDWEFIRWILLDGRTANIRKRYEKLQKMYPYKFIVLHNQKE 160
Cdd:PRK07261   80 DQIIFLNFSRFNCLYRAFKRYLKYRGKTRESMAENCPEKFDWEFIKWILLDGRSKKQKENYQSVCQKYSHKTIVLKNQKE 159


                  ....*
gi 1317668743 161 LDNFL 165
Cdd:PRK07261  160 LDQYL 164
COG4639 COG4639
Predicted kinase [General function prediction only];
3-100 2.34e-05

Predicted kinase [General function prediction only];


Pssm-ID: 443677 [Multi-domain]  Cd Length: 145  Bit Score: 42.12  E-value: 2.34e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   3 IIIIGYSGSGKSTLTTKLAQYYSIpkLHLDML-QFLPNWEMSDRSW------MQEQVKTFLNENLSWVIDG-NYSSccyE 74
Cdd:COG4639     5 VVLIGLPGSGKSTFARRLFAPTEV--VSSDDIrALLGGDENDQSAWgdvfqlAHEIARARLRAGRLTVVDAtNLQR---E 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1317668743  75 ERMEQAD---------QIIFLNFSRWDCLLRAAKR 100
Cdd:COG4639    80 ARRRLLAlaraygalvVAVVLDVPLEVCLARNAAR 114
AAA_28 pfam13521
AAA domain;
2-101 9.49e-04

AAA domain;


Pssm-ID: 433278 [Multi-domain]  Cd Length: 164  Bit Score: 37.63  E-value: 9.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   2 KIIIIGYSGSGKSTLTTKLAQYYSIPklhldmlqflpnwemsdrsWMQEQVKTFLNENLswviDGNYSSCCYEERMEQAd 81
Cdd:pfam13521   1 RIVITGGPSTGKTTLAEALAARFGYP-------------------VVPEAAREILEELG----ADGGDALPWVEDLLAF- 56

                          90       100
                  ....*....|....*....|
gi 1317668743  82 QIIFLNFSRWDCLLRAAKRY 101
Cdd:pfam13521  57 ARGVLEAQLEDEAAAAANDL 76
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 2-28 3.36e-03

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: 36.20  E-value: 3.36e-03
                           10        20
                   ....*....|....*....|....*..
gi 1317668743    2 KIIIIGYSGSGKSTLTTKLAQYYSIPK 28
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGPPG 30
ADK cd01428
Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine ...
 2-35 3.79e-03

Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.


Pssm-ID: 238713 [Multi-domain]  Cd Length: 194  Bit Score: 36.45  E-value: 3.79e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1317668743   2 KIIIIGYSGSGKSTLTTKLAQYYSIPklHL---DMLQ 35
Cdd:cd01428     1 RILLLGPPGSGKGTQAERLAKKYGLP--HIstgDLLR 35
 
Name Accession Description Interval E-value
PRK07261 PRK07261
DNA topology modulation protein;
1-165 6.93e-90

DNA topology modulation protein;


Pssm-ID: 180911 [Multi-domain]  Cd Length: 171  Bit Score: 259.65  E-value: 6.93e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIPKLHLDMLQFLPNWEMSDRSWMQEQVKTFLNENlSWVIDGNYSSCCYEERMEQA 80
Cdd:PRK07261    1 MKIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHFQPNWQERDDDDMIADISNFLLKH-DWIIDGNYSWCLYEERMQEA 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743  81 DQIIFLNFSRWDCLLRAAKRYSKNRGKVRGSMAQGCPEKFDWEFIRWILLDGRTANIRKRYEKLQKMYPYKFIVLHNQKE 160
Cdd:PRK07261   80 DQIIFLNFSRFNCLYRAFKRYLKYRGKTRESMAENCPEKFDWEFIKWILLDGRSKKQKENYQSVCQKYSHKTIVLKNQKE 159


                  ....*
gi 1317668743 161 LDNFL 165
Cdd:PRK07261  160 LDQYL 164
PRK08118 PRK08118
DNA topology modulation protein;
2-168 7.06e-47

DNA topology modulation protein;


Pssm-ID: 181235  Cd Length: 167  Bit Score: 150.53  E-value: 7.06e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   2 KIIIIGYSGSGKSTLTTKLAQYYSIPKLHLDMLQFLPNWEMSDRSWMQEQVKTFLNENlSWVIDGNYSSCcYEERMEQAD 81
Cdd:PRK08118    3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFWKPNWEGVPKEEQITVQNELVKED-EWIIDGNYGGT-MDIRLNAAD 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743  82 QIIFLNFSRWDCLLRAAKRYSKNRGKVRGSMAQGCPEKFDWEFIRWILldgrTANIRKRYEKLQKMYPYK----FIVLHN 157
Cdd:PRK08118   81 TIIFLDIPRTICLYRAFKRRVQYRGKTRPDMGAGCEEKFDLQFFKWIW----EYPKTKRPSILKRLNQLSeekdIVILKS 156

                         170
                  ....*....|.
gi 1317668743 158 QKELDNFLAQF 168
Cdd:PRK08118  157 RNEVRLFLEKI 167
COG4639 COG4639
Predicted kinase [General function prediction only];
3-100 2.34e-05

Predicted kinase [General function prediction only];


Pssm-ID: 443677 [Multi-domain]  Cd Length: 145  Bit Score: 42.12  E-value: 2.34e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   3 IIIIGYSGSGKSTLTTKLAQYYSIpkLHLDML-QFLPNWEMSDRSW------MQEQVKTFLNENLSWVIDG-NYSSccyE 74
Cdd:COG4639     5 VVLIGLPGSGKSTFARRLFAPTEV--VSSDDIrALLGGDENDQSAWgdvfqlAHEIARARLRAGRLTVVDAtNLQR---E 79

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1317668743  75 ERMEQAD---------QIIFLNFSRWDCLLRAAKR 100
Cdd:COG4639    80 ARRRLLAlaraygalvVAVVLDVPLEVCLARNAAR 114
Adk COG0563
Adenylate kinase or related kinase [Nucleotide transport and metabolism]; Adenylate kinase or ...
 1-34 1.50e-04

Adenylate kinase or related kinase [Nucleotide transport and metabolism]; Adenylate kinase or related kinase is part of the Pathway/BioSystem: Pyrimidine biosynthesis


Pssm-ID: 440329 [Multi-domain]  Cd Length: 212  Bit Score: 40.50  E-value: 1.50e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIPklHL---DML 34
Cdd:COG0563     1 MRIILLGPPGAGKGTQAKRLAEKYGIP--HIstgDML 35
MobB COG1763
Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme transport and metabolism]; ...
 1-29 1.79e-04

Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme transport and metabolism]; Molybdopterin-guanine dinucleotide biosynthesis protein is part of the Pathway/BioSystem: Molybdopterin biosynthesis


Pssm-ID: 441369 [Multi-domain]  Cd Length: 162  Bit Score: 39.78  E-value: 1.79e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 1317668743   1 MKII-IIGYSGSGKSTLTTKLaqyysIPKL 29
Cdd:COG1763     1 MPVLgIVGYSGSGKTTLLEKL-----IPEL 25
NadR3 COG3172
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ...
 1-24 7.90e-04

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: 38.26  E-value: 7.90e-04
                          10        20
                  ....*....|....*....|....
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYY 24
Cdd:COG3172     9 KKIVLLGAESTGKTTLARALAAHY 32
AAA_28 pfam13521
AAA domain;
2-101 9.49e-04

AAA domain;


Pssm-ID: 433278 [Multi-domain]  Cd Length: 164  Bit Score: 37.63  E-value: 9.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   2 KIIIIGYSGSGKSTLTTKLAQYYSIPklhldmlqflpnwemsdrsWMQEQVKTFLNENLswviDGNYSSCCYEERMEQAd 81
Cdd:pfam13521   1 RIVITGGPSTGKTTLAEALAARFGYP-------------------VVPEAAREILEELG----ADGGDALPWVEDLLAF- 56

                          90       100
                  ....*....|....*....|
gi 1317668743  82 QIIFLNFSRWDCLLRAAKRY 101
Cdd:pfam13521  57 ARGVLEAQLEDEAAAAANDL 76
PRK06217 PRK06217
hypothetical protein; Validated
 1-127 1.42e-03

hypothetical protein; Validated


Pssm-ID: 168472  Cd Length: 183  Bit Score: 37.34  E-value: 1.42e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIPklHLDMLQFLpnWEMSDRSWM-----QEQVKTFLNENLS---WVIDGnySSCC 72
Cdd:PRK06217    2 MRIHITGASGSGTTTLGAALAERLDIP--HLDTDDYF--WLPTDPPFTtkrppEERLRLLLEDLRPregWVLSG--SALG 75

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1317668743  73 Y-EERMEQADQIIFLNFS---RWDCL-LRAAKRYSkNRGKVRGSMaqgcpEKFDWEFIRW 127
Cdd:PRK06217   76 WgDPLEPLFDLVVFLTIPpelRLERLrLREFQRYG-NRILPGGDM-----HKASLEFLEW 129
adk PRK00279
adenylate kinase; Reviewed
 1-34 1.71e-03

adenylate kinase; Reviewed


Pssm-ID: 234711 [Multi-domain]  Cd Length: 215  Bit Score: 37.44  E-value: 1.71e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIPklHL---DML 34
Cdd:PRK00279    1 MRLILLGPPGAGKGTQAKFIAEKYGIP--HIstgDML 35
COG0645 COG0645
Predicted kinase, contains AAA domain [General function prediction only];
3-22 2.26e-03

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


Pssm-ID: 440410 [Multi-domain]  Cd Length: 164  Bit Score: 36.81  E-value: 2.26e-03
                          10        20
                  ....*....|....*....|
gi 1317668743   3 IIIIGYSGSGKSTLTTKLAQ 22
Cdd:COG0645     2 ILVCGLPGSGKSTLARALAE 21
PRK04182 PRK04182
cytidylate kinase; Provisional
 1-27 2.78e-03

cytidylate kinase; Provisional


Pssm-ID: 235244 [Multi-domain]  Cd Length: 180  Bit Score: 36.71  E-value: 2.78e-03
                          10        20
                  ....*....|....*....|....*..
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIP 27
Cdd:PRK04182    1 MIITISGPPGSGKTTVARLLAEKLGLK 27
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 2-28 3.36e-03

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: 36.20  E-value: 3.36e-03
                           10        20
                   ....*....|....*....|....*..
gi 1317668743    2 KIIIIGYSGSGKSTLTTKLAQYYSIPK 28
Cdd:smart00382   4 VILIVGPPGSGKTTLARALARELGPPG 30
ADK cd01428
Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine ...
 2-35 3.79e-03

Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.


Pssm-ID: 238713 [Multi-domain]  Cd Length: 194  Bit Score: 36.45  E-value: 3.79e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1317668743   2 KIIIIGYSGSGKSTLTTKLAQYYSIPklHL---DMLQ 35
Cdd:cd01428     1 RILLLGPPGSGKGTQAERLAKKYGLP--HIstgDLLR 35
PRK06547 PRK06547
hypothetical protein; Provisional
 1-40 3.83e-03

hypothetical protein; Provisional


Pssm-ID: 235825  Cd Length: 172  Bit Score: 36.26  E-value: 3.83e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIPKLHLDmlQFLPNW 40
Cdd:PRK06547   16 ITVLIDGRSGSGKTTLAGALAARTGFQLVHLD--DLYPGW 53
CMPK cd02020
Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine ...
 2-32 4.12e-03

Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.


Pssm-ID: 238978 [Multi-domain]  Cd Length: 147  Bit Score: 35.93  E-value: 4.12e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1317668743   2 KIIIIGYSGSGKSTLTTKLAQYYSIPklHLD 32
Cdd:cd02020     1 IIAIDGPAGSGKSTVAKLLAKKLGLP--YLD 29
GntK COG3265
Gluconate kinase [Carbohydrate transport and metabolism]; Gluconate kinase is part of the ...
 1-27 5.19e-03

Gluconate kinase [Carbohydrate transport and metabolism]; Gluconate kinase is part of the Pathway/BioSystem: Non-phosphorylated Entner-Doudoroff pathway


Pssm-ID: 442496 [Multi-domain]  Cd Length: 164  Bit Score: 35.49  E-value: 5.19e-03
                          10        20
                  ....*....|....*....|....*..
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIP 27
Cdd:COG3265     2 MVIVVMGVSGSGKSTVGQALAERLGWP 28
Fap7 COG1936
Broad-specificity NMP kinase [Nucleotide transport and metabolism];
1-31 6.27e-03

Broad-specificity NMP kinase [Nucleotide transport and metabolism];


Pssm-ID: 441539 [Multi-domain]  Cd Length: 173  Bit Score: 35.56  E-value: 6.27e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1317668743   1 MKIIIIGYSGSGKSTLTTKLAQYYSIPKLHL 31
Cdd:COG1936     1 MRIAITGTPGTGKTTVAKLLAERLGLEVIHL 31
AbcC COG1135
ABC-type methionine transport system, ATPase component [Amino acid transport and metabolism];
5-16 7.75e-03

ABC-type methionine transport system, ATPase component [Amino acid transport and metabolism];


Pssm-ID: 440750 [Multi-domain]  Cd Length: 339  Bit Score: 35.82  E-value: 7.75e-03
                          10
                  ....*....|..
gi 1317668743   5 IIGYSGSGKSTL 16
Cdd:COG1135    36 IIGYSGAGKSTL 47
SK cd00464
Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic ...
 3-34 8.27e-03

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: 34.84  E-value: 8.27e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1317668743   3 IIIIGYSGSGKSTLTTKLAQYYSIPKLHLDML 34
Cdd:cd00464     2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLDEL 33
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH