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Conserved domains on  [gi|1678415569|gb|QCX35037|]
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replication-associated protein [Blackfly DNA Virus 9]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Gemini_AL1 super family cl02967
Geminivirus Rep catalytic domain; The AL1 proteins encodes the replication initiator protein ...
 3-102 3.07e-15

Geminivirus Rep catalytic domain; The AL1 proteins encodes the replication initiator protein (Rep) of geminiviruses, which is a replicon-specific initiator enzyme and is an essential component of the replisome. For geminivirus Rep protein, this N-terminal region is crucial for origin recognition and DNA cleavage and nucleotidyl transfer.


The actual alignment was detected with superfamily member pfam00799:

Pssm-ID: 366313  Cd Length: 113  Bit Score: 70.65  E-value: 3.07e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1678415569   3 FDLKTKTLFLTYSQCEATHDELYEFLSsKLDI----QYAVVGRERHADEGRHLHAYVKLKQSRRFRNCKELDLGES---- 74
Cdd:pfam00799   1 FRIQAKNIFLTYPQCSLSKEEALTQIQ-KLQTntnkKYIKIARELHEDGEPHLHVLLQLEKKFRITDLRFFDIVSPtrsa 79

                          90       100       110
                  ....*....|....*....|....*....|
gi 1678415569  75 --HPNITSARNNSASITYAKKDGDYKEFGE 102
Cdd:pfam00799  80 hfHPNIQGAKSSSDVRSYVDKDGDTIEWGT 109
P-loop_NTPase super family cl38936
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ...
 187-297 2.40e-03

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 cd00009:

Pssm-ID: 476819 [Multi-domain]  Cd Length: 151  Bit Score: 37.90  E-value: 2.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1678415569 187 EGGIPKSIVMVGKPGIGKTT------WACKNAVYPMMIITHIDDL-------------------KQVTKDVKTLIFDDLD 241
Cdd:cd00009    15 ELPPPKNLLLYGPPGTGKTTlaraiaNELFRPGAPFLYLNASDLLeglvvaelfghflvrllfeLAEKAKPGVLFIDEID 94

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1678415569 242 fRHWPRTSQIQLvdrqacRSIHVRYGVASIAVGVRCIFLGNEFPFTRYDGAIERRI 297
Cdd:cd00009    95 -SLSRGAQNALL------RVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRL 143
 
Name Accession Description Interval E-value
Gemini_AL1 pfam00799
Geminivirus Rep catalytic domain; The AL1 proteins encodes the replication initiator protein ...
 3-102 3.07e-15

Geminivirus Rep catalytic domain; The AL1 proteins encodes the replication initiator protein (Rep) of geminiviruses, which is a replicon-specific initiator enzyme and is an essential component of the replisome. For geminivirus Rep protein, this N-terminal region is crucial for origin recognition and DNA cleavage and nucleotidyl transfer.


Pssm-ID: 366313  Cd Length: 113  Bit Score: 70.65  E-value: 3.07e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1678415569   3 FDLKTKTLFLTYSQCEATHDELYEFLSsKLDI----QYAVVGRERHADEGRHLHAYVKLKQSRRFRNCKELDLGES---- 74
Cdd:pfam00799   1 FRIQAKNIFLTYPQCSLSKEEALTQIQ-KLQTntnkKYIKIARELHEDGEPHLHVLLQLEKKFRITDLRFFDIVSPtrsa 79

                          90       100       110
                  ....*....|....*....|....*....|
gi 1678415569  75 --HPNITSARNNSASITYAKKDGDYKEFGE 102
Cdd:pfam00799  80 hfHPNIQGAKSSSDVRSYVDKDGDTIEWGT 109
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 187-297 2.40e-03

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: 37.90  E-value: 2.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1678415569 187 EGGIPKSIVMVGKPGIGKTT------WACKNAVYPMMIITHIDDL-------------------KQVTKDVKTLIFDDLD 241
Cdd:cd00009    15 ELPPPKNLLLYGPPGTGKTTlaraiaNELFRPGAPFLYLNASDLLeglvvaelfghflvrllfeLAEKAKPGVLFIDEID 94

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1678415569 242 fRHWPRTSQIQLvdrqacRSIHVRYGVASIAVGVRCIFLGNEFPFTRYDGAIERRI 297
Cdd:cd00009    95 -SLSRGAQNALL------RVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRL 143
COG4639 COG4639
Predicted kinase [General function prediction only];
194-258 6.38e-03

Predicted kinase [General function prediction only];


Pssm-ID: 443677 [Multi-domain]  Cd Length: 145  Bit Score: 36.35  E-value: 6.38e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1678415569 194 IVMVGKPGIGKTTWACKNAVyPMMIItHIDDLKQvtkdvktLIFDDL-DFRHWPRTsqIQLVDRQA 258
Cdd:COG4639     5 VVLIGLPGSGKSTFARRLFA-PTEVV-SSDDIRA-------LLGGDEnDQSAWGDV--FQLAHEIA 59
 
Name Accession Description Interval E-value
Gemini_AL1 pfam00799
Geminivirus Rep catalytic domain; The AL1 proteins encodes the replication initiator protein ...
 3-102 3.07e-15

Geminivirus Rep catalytic domain; The AL1 proteins encodes the replication initiator protein (Rep) of geminiviruses, which is a replicon-specific initiator enzyme and is an essential component of the replisome. For geminivirus Rep protein, this N-terminal region is crucial for origin recognition and DNA cleavage and nucleotidyl transfer.


Pssm-ID: 366313  Cd Length: 113  Bit Score: 70.65  E-value: 3.07e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1678415569   3 FDLKTKTLFLTYSQCEATHDELYEFLSsKLDI----QYAVVGRERHADEGRHLHAYVKLKQSRRFRNCKELDLGES---- 74
Cdd:pfam00799   1 FRIQAKNIFLTYPQCSLSKEEALTQIQ-KLQTntnkKYIKIARELHEDGEPHLHVLLQLEKKFRITDLRFFDIVSPtrsa 79

                          90       100       110
                  ....*....|....*....|....*....|
gi 1678415569  75 --HPNITSARNNSASITYAKKDGDYKEFGE 102
Cdd:pfam00799  80 hfHPNIQGAKSSSDVRSYVDKDGDTIEWGT 109
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 187-297 2.40e-03

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: 37.90  E-value: 2.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1678415569 187 EGGIPKSIVMVGKPGIGKTT------WACKNAVYPMMIITHIDDL-------------------KQVTKDVKTLIFDDLD 241
Cdd:cd00009    15 ELPPPKNLLLYGPPGTGKTTlaraiaNELFRPGAPFLYLNASDLLeglvvaelfghflvrllfeLAEKAKPGVLFIDEID 94

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1678415569 242 fRHWPRTSQIQLvdrqacRSIHVRYGVASIAVGVRCIFLGNEFPFTRYDGAIERRI 297
Cdd:cd00009    95 -SLSRGAQNALL------RVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRL 143
COG4639 COG4639
Predicted kinase [General function prediction only];
194-258 6.38e-03

Predicted kinase [General function prediction only];


Pssm-ID: 443677 [Multi-domain]  Cd Length: 145  Bit Score: 36.35  E-value: 6.38e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1678415569 194 IVMVGKPGIGKTTWACKNAVyPMMIItHIDDLKQvtkdvktLIFDDL-DFRHWPRTsqIQLVDRQA 258
Cdd:COG4639     5 VVLIGLPGSGKSTFARRLFA-PTEVV-SSDDIRA-------LLGGDEnDQSAWGDV--FQLAHEIA 59
 
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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