Conserved Protein Domain Family
TOPRIM_OLD

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cd01026: TOPRIM_OLD 
TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as RNase activity, consists of an N-terminal ABC-type ATPase domain and a C-terminal Toprim domain; the nuclease activity of OLD is stimulated by ATP, though the ATPase activity is not DNA-dependent. Functional details on OLD are scant and further experimentation is required to define the relationship between the ATPase and Toprim nuclease domains. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general acid in strand cleavage by nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Statistics
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PSSM-Id: 173776
View PSSM: cd01026
Aligned: 86 rows
Threshold Bit Score: 53.0542
Threshold Setting Gi: 1522669
Created: 1-Nov-2000
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
putative activeputative
Feature 1:putative active site [active site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                ##  #                                                             # #  
ZP_00846873 407 FFARAVMIVEGDSETILLPVIarll----drdFHRYGVSLVNVGGv-gLGRFARIFMRKRPeesgvisvPVACVTDLDVM 481 Rhodopseudomonas...
ZP_00881928 444 FFASKVVLLEGATEKTVFPLLake------lgVFKYEYTLIDCGSkdnIPLYVKLMNKFSI--------PYVAVYDRDHQ 509 Shewanella sp. MR-4
ZP_00560350 388 FFSDKIILVEGDTEQSTLSEL-----------KGNTDITIVNCRGkanIPMFQKILNHFGL--------SYTVVHDLDSP 448 Desulfitobacteri...
NP_757059   299 FFGSYPIIVEGDTEHAAFISAitk-----ekhEMSGKVSIVRARGkavLVPLIKMLNHFKA--------DFGIVHDIDWP 365 Escherichia coli...
NP_634726   481 FFASRVVLVEGDSDVYFFNHVaktln--sdwdFNRKNIPLIKINGkgsVQRYRKFFNAFEI--------EVHAILDLDVL 550 Methanosarcina m...
ZP_00586764 445 FFASRVVLVEGDTEVAIFKRAyeildalemdtSNVENTTIVSCGGkwtIPAIARLLANFEV--------PFRIVHDLDRK 516 Shewanella amazo...
BAD85584    475 FFADKVVLVEGESDRAALEVVaehn----gvdLNGNNISIIPVGGkgnILTAYLMFNGFNI--------PTYPIWDLDLY 542 Thermococcus kod...
AAL94391    251 FFAKKVILVEGQTDKIVLSYLakn------lgIFNYDYSIVECGSkssIPQFIRLLNAFHI--------PYVVVYDKDNH 316 Fusobacterium nu...
ZP_00752679 348 FFYDTSLLVEGDTEYLAYQDQik-------rhNLGMTHCVINCRGkanIPTFIKIFDQFGA--------KAVAIHDLDTK 412 Vibrio cholerae ...
ZP_00591832 416 FFGGKQVIVEGDTEYTAFSLLrsl------hpEDYKDVQIIRARGkgvIPSVARVLLQFSK--------SFSILHDTDTE 481 Prosthecochloris...
Feature 1                                                 
ZP_00846873 482 P------DDAPWIVGKLkdgedvpe---ikkggrqWRRKADF 514 Rhodopseudomonas palustris BisB18
ZP_00881928 510 A------HKGVDAIASAdrs-------------tqKIVDEID 532 Shewanella sp. MR-4
ZP_00560350 449 Rv----kRKEKWITNAMwsi-------------nnKIVDEAN 473 Desulfitobacterium hafniense DCB-2
NP_757059   366 Yrry-gsNNGSWTLNTIirneiikcrnngkkvyhrWSAPDFE 406 Escherichia coli CFT073
NP_634726   551 Vn-----GFSKLGVSEStns------------iysQLISEID 575 Methanosarcina mazei Goe1
ZP_00586764 517 GrtddelQVATGIDPYRanaki---------dsaaPNVDKFL 549 Shewanella amazonensis SB2B
BAD85584    543 Pde---mNKKLFSAVQYktkrtp------tspivrKNFAVFN 575 Thermococcus kodakarensis KOD1
AAL94391    317 Yw-----RNETELENSTlk---------------nKMIQNLI 338 Fusobacterium nucleatum subsp. nucleatum ATCC 25586
ZP_00752679 413 Lnsd-gkKNAMWTINEK------------------IRIAADA 435 Vibrio cholerae RC385
ZP_00591832 482 Ltat-gkANPAWGMNNSi-----------------KDILGWE 505 Prosthecochloris aestuarii DSM 271

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