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Conserved domains on  [gi|2447978444|ref|WP_274519057|]
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hypothetical protein [Gemmatimonas phototrophica]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PriA super family cl43353
Primosomal protein N' (replication factor Y) - superfamily II helicase [Replication, ...
 7-90 1.08e-16

Primosomal protein N' (replication factor Y) - superfamily II helicase [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG1198:

Pssm-ID: 440811 [Multi-domain]  Cd Length: 728  Bit Score: 73.23  E-value: 1.08e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2447978444   7 EVAAFREASEWVTKLVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERCPVPKDSELRLVVDR 86
Cdd:COG1198   645 EEAAEEFAQALARALRALLSADGVEVLGPAPAPIARLRGRYRWQLLLKAPSRAALQQLLRALLALLEKPLPRKVRWSIDV 724


                  ....
gi 2447978444  87 DPVS 90
Cdd:COG1198   725 DPQS 728
 
Name Accession Description Interval E-value
PriA COG1198
Primosomal protein N' (replication factor Y) - superfamily II helicase [Replication, ...
 7-90 1.08e-16

Primosomal protein N' (replication factor Y) - superfamily II helicase [Replication, recombination and repair];


Pssm-ID: 440811 [Multi-domain]  Cd Length: 728  Bit Score: 73.23  E-value: 1.08e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2447978444   7 EVAAFREASEWVTKLVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERCPVPKDSELRLVVDR 86
Cdd:COG1198   645 EEAAEEFAQALARALRALLSADGVEVLGPAPAPIARLRGRYRWQLLLKAPSRAALQQLLRALLALLEKPLPRKVRWSIDV 724


                  ....
gi 2447978444  87 DPVS 90
Cdd:COG1198   725 DPQS 728
PriA_C pfam18074
Primosomal protein N C-terminal domain; This is the C-terminal domain found in PriA DNA ...
 7-88 2.56e-16

Primosomal protein N C-terminal domain; This is the C-terminal domain found in PriA DNA helicase, a multifunctional enzyme that mediates the process of restarting prematurely terminated DNA replication reactions in bacteria. The C-terminal domain (CTD) bears similarity to the S10 subunit which binds branched rRNA within the bacterial ribosome. The C-terminal domain is part of the helicase domain of PriA proteins. It acts together with the 3' DNA-binding domain to form a site for binding ssDNA-binding protein (SSB).


Pssm-ID: 465633 [Multi-domain]  Cd Length: 96  Bit Score: 67.25  E-value: 2.56e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2447978444  7 EVAAFREASEWVTKLVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERCPVPKDSELRLVVDR 86
Cdd:pfam18074 15 EEKAEKFAEELAELLKELLKLQGVEILGPAPAPIAKIKGRYRYQLLLKSKSRKALHQLLRELLEELQKLPKRKVRISIDV 94


                 ..
gi 2447978444 87 DP 88
Cdd:pfam18074 95 DP 96
PRK05580 PRK05580
primosome assembly protein PriA; Validated
 7-91 8.52e-13

primosome assembly protein PriA; Validated


Pssm-ID: 235514 [Multi-domain]  Cd Length: 679  Bit Score: 62.10  E-value: 8.52e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2447978444   7 EVAAFREASEWVTKLVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERCPVPKDSE-LRLVVD 85
Cdd:PRK05580  594 EEKAEKFAQQLAALLPNLLPLLDVEVLGPAPAPIAKIAGRYRYQLLLKSPSRADLQKLLRAWLALLQKLPQARkVRWSID 673


                  ....*.
gi 2447978444  86 RDPVSL 91
Cdd:PRK05580  674 VDPQSF 679
priA TIGR00595
primosomal protein N'; All proteins in this family for which functions are known are ...
 21-89 1.47e-10

primosomal protein N'; All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273162 [Multi-domain]  Cd Length: 505  Bit Score: 55.47  E-value: 1.47e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2447978444  21 LVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERcpVPKDSELRLVVDRDPV 89
Cdd:TIGR00595 439 LLKQNLDEKLEVLGPSPAPIAKIAGRYRYQILLKSKSFLVLQKLVNKTLLK--EIPSSSVYCEVDVDPI 505
 
Name Accession Description Interval E-value
PriA COG1198
Primosomal protein N' (replication factor Y) - superfamily II helicase [Replication, ...
 7-90 1.08e-16

Primosomal protein N' (replication factor Y) - superfamily II helicase [Replication, recombination and repair];


Pssm-ID: 440811 [Multi-domain]  Cd Length: 728  Bit Score: 73.23  E-value: 1.08e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2447978444   7 EVAAFREASEWVTKLVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERCPVPKDSELRLVVDR 86
Cdd:COG1198   645 EEAAEEFAQALARALRALLSADGVEVLGPAPAPIARLRGRYRWQLLLKAPSRAALQQLLRALLALLEKPLPRKVRWSIDV 724


                  ....
gi 2447978444  87 DPVS 90
Cdd:COG1198   725 DPQS 728
PriA_C pfam18074
Primosomal protein N C-terminal domain; This is the C-terminal domain found in PriA DNA ...
 7-88 2.56e-16

Primosomal protein N C-terminal domain; This is the C-terminal domain found in PriA DNA helicase, a multifunctional enzyme that mediates the process of restarting prematurely terminated DNA replication reactions in bacteria. The C-terminal domain (CTD) bears similarity to the S10 subunit which binds branched rRNA within the bacterial ribosome. The C-terminal domain is part of the helicase domain of PriA proteins. It acts together with the 3' DNA-binding domain to form a site for binding ssDNA-binding protein (SSB).


Pssm-ID: 465633 [Multi-domain]  Cd Length: 96  Bit Score: 67.25  E-value: 2.56e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2447978444  7 EVAAFREASEWVTKLVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERCPVPKDSELRLVVDR 86
Cdd:pfam18074 15 EEKAEKFAEELAELLKELLKLQGVEILGPAPAPIAKIKGRYRYQLLLKSKSRKALHQLLRELLEELQKLPKRKVRISIDV 94


                 ..
gi 2447978444 87 DP 88
Cdd:pfam18074 95 DP 96
PRK05580 PRK05580
primosome assembly protein PriA; Validated
 7-91 8.52e-13

primosome assembly protein PriA; Validated


Pssm-ID: 235514 [Multi-domain]  Cd Length: 679  Bit Score: 62.10  E-value: 8.52e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2447978444   7 EVAAFREASEWVTKLVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERCPVPKDSE-LRLVVD 85
Cdd:PRK05580  594 EEKAEKFAQQLAALLPNLLPLLDVEVLGPAPAPIAKIAGRYRYQLLLKSPSRADLQKLLRAWLALLQKLPQARkVRWSID 673


                  ....*.
gi 2447978444  86 RDPVSL 91
Cdd:PRK05580  674 VDPQSF 679
priA TIGR00595
primosomal protein N'; All proteins in this family for which functions are known are ...
 21-89 1.47e-10

primosomal protein N'; All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273162 [Multi-domain]  Cd Length: 505  Bit Score: 55.47  E-value: 1.47e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2447978444  21 LVKSQGLRDLVLVGPAPCPIDRIKDRWRWHFLLKSSQPKLMTRVARYVAERcpVPKDSELRLVVDRDPV 89
Cdd:TIGR00595 439 LLKQNLDEKLEVLGPSPAPIAKIAGRYRYQILLKSKSFLVLQKLVNKTLLK--EIPSSSVYCEVDVDPI 505
 
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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