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Conserved domains on  [gi|395864136|gb|AFN80630|]
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RepA [Paspalum striate mosaic virus]

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 ...
 35-140 2.10e-20

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: 84.52  E-value: 2.10e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 395864136   35 FKVRARNLFLTYSKCNLTAVFLLEYISSLLKKYCPTYIYVAQEAHKDGSHHLHCIVQCSKYVRTTSAKFFDV------GE 108
Cdd:pfam00799   1 FRIQAKNIFLTYPQCSLSKEEALTQIQKLQTNTNKKYIKIARELHEDGEPHLHVLLQLEKKFRITDLRFFDIvsptrsAH 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 395864136  109 FHPNVQNPRMPKKALAYCKKSPISeAEYGVFQ 140
Cdd:pfam00799  81 FHPNIQGAKSSSDVRSYVDKDGDT-IEWGTFQ 111
Gemini_AL1_M super family cl07042
Geminivirus rep protein central domain; This is the cetral domain of the geminivirus rep ...
 154-255 3.74e-15

Geminivirus rep protein central domain; This is the cetral domain of the geminivirus rep proteins.


The actual alignment was detected with superfamily member pfam08283:

Pssm-ID: 285483  Cd Length: 107  Bit Score: 69.94  E-value: 3.74e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 395864136  154 STKDAKMTEIIkSSTNKEDYLSMVRKTFPFDWATRLQQFQYSAESLFPSTPPPYVDPFGMPSQDE-HSVIGAWLRDELYT 232
Cdd:pfam08283   4 TAKDEYAKAII-NATSKEEYLQIIQEELPKDWVLQHHNIENNADKIFPEAPEPFVPPFPLSSFTNlPEEMQDWVDDYFGV 82

                          90       100
                  ....*....|....*....|....*
gi 395864136  233 VSPYAYS--IHIGVSEEQAKLDLQW 255
Cdd:pfam08283  83 VSAARPMrpKSIIVEGESRTGKTMW 107
 
Name Accession Description Interval E-value
Gemini_AL1 pfam00799
Geminivirus Rep catalytic domain; The AL1 proteins encodes the replication initiator protein ...
 35-140 2.10e-20

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: 84.52  E-value: 2.10e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 395864136   35 FKVRARNLFLTYSKCNLTAVFLLEYISSLLKKYCPTYIYVAQEAHKDGSHHLHCIVQCSKYVRTTSAKFFDV------GE 108
Cdd:pfam00799   1 FRIQAKNIFLTYPQCSLSKEEALTQIQKLQTNTNKKYIKIARELHEDGEPHLHVLLQLEKKFRITDLRFFDIvsptrsAH 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 395864136  109 FHPNVQNPRMPKKALAYCKKSPISeAEYGVFQ 140
Cdd:pfam00799  81 FHPNIQGAKSSSDVRSYVDKDGDT-IEWGTFQ 111
Gemini_AL1_M pfam08283
Geminivirus rep protein central domain; This is the cetral domain of the geminivirus rep ...
 154-255 3.74e-15

Geminivirus rep protein central domain; This is the cetral domain of the geminivirus rep proteins.


Pssm-ID: 285483  Cd Length: 107  Bit Score: 69.94  E-value: 3.74e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 395864136  154 STKDAKMTEIIkSSTNKEDYLSMVRKTFPFDWATRLQQFQYSAESLFPSTPPPYVDPFGMPSQDE-HSVIGAWLRDELYT 232
Cdd:pfam08283   4 TAKDEYAKAII-NATSKEEYLQIIQEELPKDWVLQHHNIENNADKIFPEAPEPFVPPFPLSSFTNlPEEMQDWVDDYFGV 82

                          90       100
                  ....*....|....*....|....*
gi 395864136  233 VSPYAYS--IHIGVSEEQAKLDLQW 255
Cdd:pfam08283  83 VSAARPMrpKSIIVEGESRTGKTMW 107
 
Name Accession Description Interval E-value
Gemini_AL1 pfam00799
Geminivirus Rep catalytic domain; The AL1 proteins encodes the replication initiator protein ...
 35-140 2.10e-20

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: 84.52  E-value: 2.10e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 395864136   35 FKVRARNLFLTYSKCNLTAVFLLEYISSLLKKYCPTYIYVAQEAHKDGSHHLHCIVQCSKYVRTTSAKFFDV------GE 108
Cdd:pfam00799   1 FRIQAKNIFLTYPQCSLSKEEALTQIQKLQTNTNKKYIKIARELHEDGEPHLHVLLQLEKKFRITDLRFFDIvsptrsAH 80

                          90       100       110
                  ....*....|....*....|....*....|..
gi 395864136  109 FHPNVQNPRMPKKALAYCKKSPISeAEYGVFQ 140
Cdd:pfam00799  81 FHPNIQGAKSSSDVRSYVDKDGDT-IEWGTFQ 111
Gemini_AL1_M pfam08283
Geminivirus rep protein central domain; This is the cetral domain of the geminivirus rep ...
 154-255 3.74e-15

Geminivirus rep protein central domain; This is the cetral domain of the geminivirus rep proteins.


Pssm-ID: 285483  Cd Length: 107  Bit Score: 69.94  E-value: 3.74e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 395864136  154 STKDAKMTEIIkSSTNKEDYLSMVRKTFPFDWATRLQQFQYSAESLFPSTPPPYVDPFGMPSQDE-HSVIGAWLRDELYT 232
Cdd:pfam08283   4 TAKDEYAKAII-NATSKEEYLQIIQEELPKDWVLQHHNIENNADKIFPEAPEPFVPPFPLSSFTNlPEEMQDWVDDYFGV 82

                          90       100
                  ....*....|....*....|....*
gi 395864136  233 VSPYAYS--IHIGVSEEQAKLDLQW 255
Cdd:pfam08283  83 VSAARPMrpKSIIVEGESRTGKTMW 107
 
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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