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Conserved domains on  [gi|487883087|ref|WP_001956553|]
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AAA domain-containing protein [Helicobacter pylori]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DNA2 super family cl34114
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
15-152 1.94e-25

Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG1112:

Pssm-ID: 440729 [Multi-domain]  Cd Length: 819  Bit Score: 100.97  E-value: 1.94e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  15 KDFKDIDNDIKQLLISQHQILGATCVGLAvKHLGIELMEFDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSId 94
Cdd:COG1112  518 KKRRELRKLLWDALLELAPVVGMTPASVA-RLLPLGEGSFDLVIIDEASQATLAEALGALARAKRVVLVGDPKQLPPVV- 595

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 487883087  95 rhlleqlesdDLQNLDAIDRQLLQESFFENLYKHIPEsNKAMLNEQFRMPASIGSLVS 152
Cdd:COG1112  596 ----------FGEEAEEVAEEGLDESLLDRLLARLPE-RGVMLREHYRMHPEIIAFSN 642
 
Name Accession Description Interval E-value
DNA2 COG1112
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
15-152 1.94e-25

Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];


Pssm-ID: 440729 [Multi-domain]  Cd Length: 819  Bit Score: 100.97  E-value: 1.94e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  15 KDFKDIDNDIKQLLISQHQILGATCVGLAvKHLGIELMEFDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSId 94
Cdd:COG1112  518 KKRRELRKLLWDALLELAPVVGMTPASVA-RLLPLGEGSFDLVIIDEASQATLAEALGALARAKRVVLVGDPKQLPPVV- 595

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 487883087  95 rhlleqlesdDLQNLDAIDRQLLQESFFENLYKHIPEsNKAMLNEQFRMPASIGSLVS 152
Cdd:COG1112  596 ----------FGEEAEEVAEEGLDESLLDRLLARLPE-RGVMLREHYRMHPEIIAFSN 642
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
 43-142 9.19e-23

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 86.91  E-value: 9.19e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  43 AVKHLgielmefDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSIDRHLLEQLESDDlqnldaidrqllQESFF 122
Cdd:cd17934   41 AVDNV-------DVVIIDEASQITEPELLIALIRAKKVVLVGDPKQLPPVVQEDHAALLGLSF------------ILSLL 101

                         90       100
                 ....*....|....*....|
gi 487883087 123 ENLYKHIPESNKAMLNEQFR 142
Cdd:cd17934  102 LLFRLLLPGSPKVMLDTQYR 121
AAA_11 pfam13086
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 15-93 1.78e-19

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 404072 [Multi-domain]  Cd Length: 248  Bit Score: 81.24  E-value: 1.78e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087   15 KDFKDIDNDIKQLLISQHQILGATCVGLAVKHLGiELMEFDVTIIDEAGRATAPEILIPALR-TKKLILIGDHNQLPPSI 93
Cdd:pfam13086 167 KELRRREQSLEREILDEAQIVCSTLSGAGSRLLS-SLANFDVVIIDEAAQALEPSTLIPLLRgPKKVVLVGDPKQLPPTV 245
TIGR00376 TIGR00376
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ...
 53-147 6.31e-17

DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273041 [Multi-domain]  Cd Length: 636  Bit Score: 76.39  E-value: 6.31e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087   53 EFDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSIDRHLLEQLEsddlqnldaidrqllqESFFENLYKHIPES 132
Cdd:TIGR00376 361 YFDVAVIDEASQAMEPSCLIPLLKARKLILAGDHKQLPPTILSHDAEELS----------------LTLFERLIKEYPER 424

                          90
                  ....*....|....*
gi 487883087  133 NKaMLNEQFRMPASI 147
Cdd:TIGR00376 425 SR-TLNVQYRMNQKI 438
 
Name Accession Description Interval E-value
DNA2 COG1112
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
15-152 1.94e-25

Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];


Pssm-ID: 440729 [Multi-domain]  Cd Length: 819  Bit Score: 100.97  E-value: 1.94e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  15 KDFKDIDNDIKQLLISQHQILGATCVGLAvKHLGIELMEFDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSId 94
Cdd:COG1112  518 KKRRELRKLLWDALLELAPVVGMTPASVA-RLLPLGEGSFDLVIIDEASQATLAEALGALARAKRVVLVGDPKQLPPVV- 595

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 487883087  95 rhlleqlesdDLQNLDAIDRQLLQESFFENLYKHIPEsNKAMLNEQFRMPASIGSLVS 152
Cdd:COG1112  596 ----------FGEEAEEVAEEGLDESLLDRLLARLPE-RGVMLREHYRMHPEIIAFSN 642
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
 43-142 9.19e-23

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 86.91  E-value: 9.19e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  43 AVKHLgielmefDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSIDRHLLEQLESDDlqnldaidrqllQESFF 122
Cdd:cd17934   41 AVDNV-------DVVIIDEASQITEPELLIALIRAKKVVLVGDPKQLPPVVQEDHAALLGLSF------------ILSLL 101

                         90       100
                 ....*....|....*....|
gi 487883087 123 ENLYKHIPESNKAMLNEQFR 142
Cdd:cd17934  102 LLFRLLLPGSPKVMLDTQYR 121
AAA_11 pfam13086
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 15-93 1.78e-19

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 404072 [Multi-domain]  Cd Length: 248  Bit Score: 81.24  E-value: 1.78e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087   15 KDFKDIDNDIKQLLISQHQILGATCVGLAVKHLGiELMEFDVTIIDEAGRATAPEILIPALR-TKKLILIGDHNQLPPSI 93
Cdd:pfam13086 167 KELRRREQSLEREILDEAQIVCSTLSGAGSRLLS-SLANFDVVIIDEAAQALEPSTLIPLLRgPKKVVLVGDPKQLPPTV 245
TIGR00376 TIGR00376
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ...
 53-147 6.31e-17

DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273041 [Multi-domain]  Cd Length: 636  Bit Score: 76.39  E-value: 6.31e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087   53 EFDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSIDRHLLEQLEsddlqnldaidrqllqESFFENLYKHIPES 132
Cdd:TIGR00376 361 YFDVAVIDEASQAMEPSCLIPLLKARKLILAGDHKQLPPTILSHDAEELS----------------LTLFERLIKEYPER 424

                          90
                  ....*....|....*
gi 487883087  133 NKaMLNEQFRMPASI 147
Cdd:TIGR00376 425 SR-TLNVQYRMNQKI 438
DEXXQc_SMUBP2 cd18044
DEXXQ-box helicase domain of SMUBP2; SMUBP2 (also called immunoglobulin mu-binding protein 2, ...
 29-142 3.49e-16

DEXXQ-box helicase domain of SMUBP2; SMUBP2 (also called immunoglobulin mu-binding protein 2, or IGHMBP2) is a 5' to 3' helicase that unwinds RNA and DNA duplexes in an ATP-dependent reaction. It is a DNA-binding protein specific to 5'-phosphorylated single-stranded guanine-rich sequence (5'-GGGCT-3') related to the immunoglobulin mu chain switch region. The IGHMBP2 gene is responsible for Charcot-Marie-Tooth disease (CMT) type 2S and spinal muscular atrophy with respiratory distress type 1 (SMARD1). It is also thought to play a role in frontotemporal dementia (FTD) with amyotrophic lateral sclerosis (ALS) and major depressive disorder (MDD). SMUBP2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350802 [Multi-domain]  Cd Length: 191  Bit Score: 71.49  E-value: 3.49e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  29 ISQHQILGATCVGlAVKHLGIELMEFDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSIdrhlleqlESDDLqn 108
Cdd:cd18044   93 LVAAQVVLATNTG-AGSRQLLPNELFDVVVIDEAAQALEASCWIPLLKARRCILAGDHKQLPPTI--------LSDKA-- 161

                         90       100       110
                 ....*....|....*....|....*....|....
gi 487883087 109 ldaiDRQLLQESFFENLYKHIPESNKAMLNEQFR 142
Cdd:cd18044  162 ----ARGGLGVTLFERLVNLYGESVVRMLTVQYR 191
DEXXQc_UPF1 cd18039
DEXXQ-box helicase domain of UPF1; UPF1 (also called RNA Helicase And ATPase, Regulator Of ...
 14-93 7.52e-16

DEXXQ-box helicase domain of UPF1; UPF1 (also called RNA Helicase And ATPase, Regulator Of Nonsense Transcripts, or ATP-Dependent Helicase RENT1) is an RNA-dependent helicase and ATPase required for nonsense-mediated decay (NMD) of mRNAs containing premature stop codons. It is recruited to mRNAs upon translation termination and undergoes a cycle of phosphorylation and dephosphorylation; its phosphorylation appears to be a key step in NMD. It is recruited by release factors to stalled ribosomes together with the SMG1C protein kinase complex to form the transient SURF (SMG1-UPF1-eRF1-eRF3) complex. In EJC-dependent NMD, the SURF complex associates with the exon junction complex (EJC) located downstream from the termination codon through UPF2 and allows the formation of an UPF1-UPF2-UPF3 surveillance complex which is believed to activate NMD. Diseases associated with UPF1 include juvenile amyotrophic lateral sclerosis and epidermolysis bullosa, junctional, non-Herlitz type. UPF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350797 [Multi-domain]  Cd Length: 234  Bit Score: 71.51  E-value: 7.52e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  14 DKDFKDIDNDIKQLLISQHQILGATCVGLAVKHLGieLMEFDVTIIDEAGRATAPEILIPALR-TKKLILIGDHNQLPPS 92
Cdd:cd18039  123 EKRYRKLKRKAERELLRNADVICCTCVGAGDPRLS--KMKFRTVLIDEATQATEPECLIPLVHgAKQVILVGDHCQLGPV 200


                 .
gi 487883087  93 I 93
Cdd:cd18039  201 V 201
DEXXQc_DNA2 cd18041
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses ...
 26-142 2.99e-15

DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5-3 helicase, and endonuclease activities, and is involved in DNA replication and DNA repair in the nucleus and mitochondrion. It is involved in Okazaki fragment processing by cleaving long flaps that escape FEN1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit DNA2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. It is also involved in 5-end resection of DNA during double-strand break (DSB) repair; it is recruited by BLM and mediates the cleavage of 5-ssDNA, while the 3-ssDNA cleavage is prevented by the presence of RPA. DNA2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350799 [Multi-domain]  Cd Length: 203  Bit Score: 69.19  E-value: 2.99e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  26 QLLISQHQILGATCvgLAVKHLGIELMEFDVTIIDEAGRATAPEILIPALRTKKLILIGDHNQLPPSIdrhlleqlesdd 105
Cdd:cd18041  104 ESKYESVSVVATTC--LGINHPIFRRRTFDYCIVDEASQITLPICLGPLRLAKKFVLVGDHYQLPPLV------------ 169

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 487883087 106 lQNLDAidRQL-LQESFFENLYKHIPESnKAMLNEQFR 142
Cdd:cd18041  170 -KSREA--RELgMDESLFKRLSEAHPDA-VVQLTIQYR 203
DEXXQc_SETX cd18042
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ...
 52-142 3.28e-14

DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438712 [Multi-domain]  Cd Length: 218  Bit Score: 66.85  E-value: 3.28e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  52 MEFDVTIIDEAGRATAPEILIP-ALRTKKLILIGDHNQLPPSIdrhlleqlESDDLQNLdaidrqLLQESFFENLYKHIP 130
Cdd:cd18042  143 RGFDTVIIDEAAQAVELSTLIPlRLGCKRLILVGDPKQLPATV--------FSKVAQKL------GYDRSLFERLQLAGY 208

                         90
                 ....*....|..
gi 487883087 131 ESNkaMLNEQFR 142
Cdd:cd18042  209 PVL--MLTTQYR 218
DEXXc_HELZ2-C cd18040
C-terminal DEXX-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known ...
 12-142 3.43e-11

C-terminal DEXX-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known as PPAR-alpha-interacting complex protein 285 or PRIC285 and PPAR-gamma DBD-interacting protein 1 or PDIP1) acts as a transcriptional coactivator for a number of nuclear receptors including PPARA, PPARG, THRA, THRB and RXRA. It belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350798 [Multi-domain]  Cd Length: 271  Bit Score: 59.46  E-value: 3.43e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  12 IKDKDFKDIDNDIKQ----------LLISQHQILGATCVGLAVKHLGielMEFDVT--IIDEAGRATAPEILIPAL---R 76
Cdd:cd18040  148 FERTQEKITEEDIKTykiliwearfEELETVDVILCTCSEAASQKMR---THANVKqcIVDECGMCTEPESLIPIVsapR 224

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 487883087  77 TKKLILIGDHNQLPPSidrhlleqLESDDLQNLDaidrqlLQESFFENLYKhipesnKA-MLNEQFR 142
Cdd:cd18040  225 AEQVVLIGDHKQLRPV--------VQNKEAQKLG------LGRSLFERYAE------KAcMLDTQYR 271
DExxQc_SF1-N cd17914
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ...
 32-93 4.15e-10

DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438706 [Multi-domain]  Cd Length: 121  Bit Score: 54.03  E-value: 4.15e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 487883087  32 HQILGATCVGLAVKHLGIELMEFDVTIIDEAGRATAPEILIP---ALRTKKLILIGDHNQLPPSI 93
Cdd:cd17914   25 QNKNGEPGRILLVTPTNKAAAQLDNILVDEAAQILEPETSRLidlALDQGRVILVGDHDQLGPVW 89
DEXXQc_Helz-like cd18038
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and ...
 29-116 7.87e-10

DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and similar proteins. Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. All are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350796 [Multi-domain]  Cd Length: 229  Bit Score: 54.93  E-value: 7.87e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  29 ISQHQILGATCV--------GLAVKHlgielmeFDVTIIDEAGRATAPEILIPA--LRTKK--LILIGDHNQLPPSI--- 93
Cdd:cd18038  117 LKKYRIVVCTLMtagrlvqaGVPNGH-------FTHIFIDEAGQATEPEALIPLseLASKNtqIVLAGDPKQLGPVVrsp 189

                         90       100       110
                 ....*....|....*....|....*....|.
gi 487883087  94 -------DRHLLEQL-ESDDLQNLDAIDRQL 116
Cdd:cd18038  190 larkyglGKSLLERLmERPLYYKDGEYNPSY 220
EEXXEc_NFX1 cd17936
EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that ...
 32-140 5.70e-09

EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that represses class II MHC (major histocompatibility complex) gene expression. NFX1 binds a conserved cis-acting element, termed the X-box, in promoters of human class II MHC genes. The Cys-rich region contains several NFX1-type zinc finger domains. Frequently, a R3H domain is present in the C-terminus, and a RING finger domain and a PAM2 motif are present in the N-terminus. The lack of R3H and PAM2 motifs in the plant proteins indicates functional differences. Plant NFX1-like proteins are proposed to modulate growth and survival by coordinating reactive oxygen species, salicylic acid, further biotic stress and abscisic acid responses. A common feature of all members may be E3 ubiquitin ligase, due to the presence of a RING finger domain, as well as DNA binding. NFX1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350694 [Multi-domain]  Cd Length: 178  Bit Score: 52.16  E-value: 5.70e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  32 HQILGATCVGLAVKHLGIELMEFDVTIIDEAGratapEIL----IPAL--RTKKLILIGDHNQLPPSIDRHLLEQlesdD 105
Cdd:cd17936   82 ARVIGMTTTGAAKYRELLQALGPKVVIVEEAA-----EVLeahiLAALtpSTEHLILIGDHKQLRPKVNVYELTA----K 152

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 487883087 106 LQNLDaidrqllqESFFENLYKHIPESnkAMLNEQ 140
Cdd:cd17936  153 KYNLD--------VSLFERLVKNGLPF--VTLNVQ 177
EEXXQc_AQR cd17935
EEXXQ-box helicase domain of AQR; Aquarius (AQR) is a multifunctional RNA helicase that binds ...
 21-152 7.69e-09

EEXXQ-box helicase domain of AQR; Aquarius (AQR) is a multifunctional RNA helicase that binds precursor-mRNA introns at a defined position and is part of a pentameric intron-binding complex (IBC). It is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350693 [Multi-domain]  Cd Length: 207  Bit Score: 52.04  E-value: 7.69e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  21 DNDIKQLLISQH--QILGATCVGLAVKHLgiELME----FDVTIIDEAGRATAPEILIPAL---------RTKKLILIGD 85
Cdd:cd17935   74 DIDERHLLRLGHgaKIIAMTCTHAALKRG--ELVElgfkYDNILMEEAAQILEIETFIPLLlqnpedgpnRLKRLIMIGD 151

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 487883087  86 HNQLPPSIDRHLLEQLESddlqnldaidrqlLQESFFENL-YKHIPESNkamLNEQFRMPASIGSLVS 152
Cdd:cd17935  152 HHQLPPVIKNMAFQKYSN-------------MEQSLFTRLvRLGVPTVD---LDAQGRARASISSLYN 203
DEXXQc_SF1 cd18043
DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are ...
 52-93 4.92e-08

DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are nucleic acid motor proteins that couple ATP hydrolysis to translocation along with the concomitant unwinding of DNA or RNA. This is central to many aspects of cellular DNA and RNA metabolism and accordingly, they are implicated in a wide range of nucleic acid processing events including DNA replication, recombination, and repair as well as many aspects of RNA metabolism. Superfamily 1 helicases are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350801 [Multi-domain]  Cd Length: 127  Bit Score: 48.73  E-value: 4.92e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 487883087  52 MEFDVTIIDEAGRATaPEILIPAL-RTKKLILIGDHNQLPPSI 93
Cdd:cd18043   79 NLFDLVIFDEASQIP-IEEALPALfRGKQVVVVGDDKQLPPSI 120
DEXXQc_Mov10L1 cd18078
DEXXQ-box helicase domain of Mov10L1; Moloney leukemia virus 10-like protein 1 (Mov10L1) binds ...
 29-93 2.04e-07

DEXXQ-box helicase domain of Mov10L1; Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. Mov10L1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350836 [Multi-domain]  Cd Length: 230  Bit Score: 48.52  E-value: 2.04e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087  29 ISQHQILGATCVGLA-VKHLGIELMEFDVTIIDEAGRATAPEILIP----ALRTKKLILIGDHNQLPPSI 93
Cdd:cd18078  111 ASRHRIVISTCSTAGlLYQMGLPVGHFTHVFVDEAGQATEPESLIPlgliSSRDGQIILAGDPMQLGPVI 180
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 32-91 1.49e-06

DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350691 [Multi-domain]  Cd Length: 155  Bit Score: 45.24  E-value: 1.49e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 487883087  32 HQILGATCVGLAVKHLGIELMEFDVTIIDEAGRATAP--EILIPALRTK-KLILIGDHNQLPP 91
Cdd:cd17933   68 HRLLGINPGGGGFYYNEENPLDADLLIVDEASMVDTRlmAALLSAIPAGaRLILVGDPDQLPS 130
DEXXQc_HELZ cd18077
DEXXQ-box helicase domain of HELZ; Helicase with zinc finger (HELZ) acts as a helicase that ...
 3-142 1.86e-04

DEXXQ-box helicase domain of HELZ; Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. HELZ is a member of the family I class of RNA helicases of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350835 [Multi-domain]  Cd Length: 226  Bit Score: 40.16  E-value: 1.86e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 487883087   3 HYRNKW----HE-----CIKDKDFKDIDNDIKQLLisQHQILGAT-CVGLAVKHLGIELMEFDVTIIDEAGRATAPEILI 72
Cdd:cd18077   88 YYRNRWvktvHPvvqkyCLIDEHGTFRMPTREDVM--RHRVVVVTlSTSQYLCQLDLEPGFFTHILLDEAAQAMECEAIM 165

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 487883087  73 P---ALRTKKLILIGDHNQLPPSIDRHLleqlesddlqnldAIDRQLLQeSFFENLYKHIPESN--KAMLNEQFR 142
Cdd:cd18077  166 PlalATKSTRIVLAGDHMQLSPEVYSEF-------------ARERNLHI-SLLERLYEHYPSEHpcRILLCENYR 226
RecD COG0507
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ...
 51-91 8.63e-04

ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];


Pssm-ID: 440273 [Multi-domain]  Cd Length: 514  Bit Score: 38.42  E-value: 8.63e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 487883087  51 LMEFDVTIIDEAGRATAPEI--LIPALRTK--KLILIGDHNQLPP 91
Cdd:COG0507  216 LTPADLLVVDEASMVDTRLMaaLLEALPRAgaRLILVGDPDQLPS 260
AAA_30 pfam13604
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 55-95 4.96e-03

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.


Pssm-ID: 433343 [Multi-domain]  Cd Length: 191  Bit Score: 35.62  E-value: 4.96e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 487883087   55 DVTIIDEAGRATAP--EILIPALRTK--KLILIGDHNQLpPSIDR 95
Cdd:pfam13604  90 TLLIVDEAGMVGTRqmARLLKLAEDAgaRVILVGDPRQL-PSVEA 133
AAA_12 pfam13087
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ...
 117-152 5.03e-03

AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.


Pssm-ID: 463780 [Multi-domain]  Cd Length: 196  Bit Score: 35.60  E-value: 5.03e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 487883087  117 LQESFFENLYKHIPESnKAMLNEQFRMPASIGSLVS 152
Cdd:pfam13087   1 LDRSLFERLQELGPSA-VVMLDTQYRMHPEIMEFPS 35
 
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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