1WDJ,6OKH,3OT2


Conserved Protein Domain Family
DUF820-like

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cd06260: DUF820-like 
Click on image for an interactive view with Cn3D
Uncharacterized PDDEXK family nuclease
The Domain of unknown function 820 (DUF820) family is composed of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of nucleases, which includes very short patch repair (Vsr) endonucleases, archaeal Holliday junction resolvases, MutH methyl-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and FokI.
Statistics
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PSSM-Id: 411709
View PSSM: cd06260
Aligned: 262 rows
Threshold Bit Score: 43.1896
Threshold Setting Gi: 168700715
Created: 8-Jan-2008
Updated: 30-Sep-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
putative active
Conserved site includes 6 residues -Click on image for an interactive view with Cn3D
Feature 1:putative active site [active site]
Evidence:
  • Structure:6OKH: Leptospira borgpetersenii putative nuclease active site binds divalent cations; contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1           #                  #                                                   #     
1WDJ_A        26 YQWERSpe--grLWVSPtg-geSGRRSLQLAYQLARWNeerg------lgvVFDs-STGFKFpd----gsILSPDAAFVe 91  Thermus thermop...
6OKH_A        27 TLAELLdg---eIFMVPapipeHQRVIRKFSNALSTFVeknk------lgeVFFs-PIDVYLde----hnVVQPDLIFIs 92  Leptospira borg...
ZP_02737458   25 PRDEVWdg--vlVMAPLan-neHQLLVMGLCYAFASVVdrd-------ggdAVLp-GCNVSDrdrgwtenYREPDVAVYl 93  Gemmata obscuri...
WP_052574459  43 NRYEAVdgellvTPAPRi---pHQAVVAAVYRALFEVVrah-------rvgLTLfaPVDVILda----rtLVQPDVLVLp 108 Gemmatimonas au...
YP_001433458  21 GRYEVIdg---aLYVTHqphmrHWITCDHVIVSPGGWRlatg------agrIIP--APDVTRad----deAVAPYLVWIg 85  Roseiflexus cas...
YP_628788     21 QVGQIIdg--elIAQPRpt-srHARATTRLGGELYGPFergrg---gpggwYFLd-EPELHFga-----dVLVPDLAGWr 88  Myxococcus xant...
YP_114069     21 VIGEILhg--qlITQPRpa-prHARAASVLGGDLMNPFdhgrg---gpggwWILf-EPELHLga-----hILVPDLAGWr 88  Methylococcus c...
YP_001612783  24 RFHEVIggelvrKAMPSg---pHGRAQLRIGSRISGPYdrrpggrwpggwwFAT--EVEVEMet----heVYRPDVTGWl 94  Sorangium cellu...
Q7ND33        23 KRYEIIdgellvTRAPHi---rHQAAAGKLHVRLETWSevt-------glgSAFq-APGVIFsp----tdAVIPDVVWIg 87  Gloeobacter vio...
Q8YR08        24 KRYEIIdgelfvTRAPHw---kHQRVCVRISTALDNWSqitg------lgeVAI--APGIIFgd----ndNVIPDVVWAs 88  Nostoc sp. PCC ...
Feature 1                                ##              #                                       
1WDJ_A        92 rgawealseaeregfpplaPKAVFEVRSASqdp--eelRAKMGIYlr--nGVLLGVLVDPyaRAVEVFRpg---kPPL-- 162 Thermus thermop...
6OKH_A        93 karntii----rekriegaPDWIAEILSEGnay--hdlKTKKRLYek--hGVAEYWIVDPmeRSVEIYQngnsgfTLLa- 163 Leptospira borg...
ZP_02737458   94 asnsakn----sdthwvggPDVAVEVVSPGen-----pRLKLDFYaq--vSTRELLIVERdpWAVERYQl----rGGKlv 158 Gemmata obscuri...
WP_052574459 109 ptgqdvm----rgevpaptPLLVVEVLSPTtar--ndrLLKRQRYq---rAGVECWLVDIdsQLVERWTpd--aeRPEi- 176 Gemmatimonas au...
YP_001433458  86 harlsdvi--gnngalhaaPDLIIEVVSPGkaneecdcEKKRALYnynrrDVSVRWIVDRqaMTVDAFRr-----DDEa- 157 Roseiflexus cas...
YP_628788     89 rdrmpevp---dtpyftlsPDWVCEVLSPStaa--vdrSSKRRIYar--eGVGHVWLVDPqaRTLEVFRl----sGGRw- 156 Myxococcus xant...
YP_114069     89 rermpvfp---deayftlaPDWVCEVLSPGtar--idrVVKMPLYae--hGVGWLWLVDPdqRTLEVFRl----hEGHw- 156 Methylococcus c...
YP_001612783  95 rerlpelp---revpirvrPDWVCEVLSPSnsr--ndlFKKLRTYqr--cKVPHYWIVDPemETLMVYRwt---tEGYll 164 Sorangium cellu...
Q7ND33        88 rerladgi--dgaghltvaPELMVEILSPGelneqrdkEVKLKLYsl--hGVQEYWIVNWqlKTLEIYRr----tDAQ-- 157 Gloeobacter vio...
Q8YR08        89 nerlsnll--deaghltaaPELVVEVLSLGnenerrdrELKLKLYss--qGVREYWIIDWrkQQVEVYR------REQg- 157 Nostoc sp. PCC ...
Feature 1                                            
1WDJ_A       163 -RLegv----------erVSLDPe-----LPGFALS 182 Thermus thermophilus HB8
6OKH_A       164 -SAds-----------gtVVSKM------LDGFSLE 181 Leptospira borgpetersenii serovar Hardjo-bovis str. JB197
ZP_02737458  159 lVEtada-------angtVLTSSv-----LPLTFEL 182 Gemmata obscuriglobus UQM 2246
WP_052574459 177 cVEhvlwep---mglgrrLTVEL------LPIWAET 203 Gemmatimonas aurantiaca T-27
YP_001433458 158 -LRciatw------qpgdVITSLr-----FPGFSCE 181 Roseiflexus castenholzii DSM 13941
YP_628788    157 -LElgtwsddervraepfEAVELelgvlwLPEANAK 191 Myxococcus xanthus DK 1622
YP_114069    157 lMEqa-----------wqQNEEVg-----APPFGEW 176 Methylococcus capsulatus str. Bath
YP_001612783 165 vLAa--------------EREDRvr---pEPFDAIV 183 Sorangium cellulosum 'So ce 56'
Q7ND33       158 -LQlaatl------lrsdTLTSPl-----LPGFSTS 181 Gloeobacter violaceus
Q8YR08       158 iLKlvvtl------fhgdELNSPl-----LPNFTCA 182 Nostoc sp. PCC 7120

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