Conserved Protein Domain Family
PDDEXK_nuclease

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cd22344: PDDEXK_nuclease 
uncharacterized PDDEXK nuclease may function as a restriction endonuclease
This family belongs to a superfamily of PDDEXK nucleases including 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: 411748
Aligned: 21 rows
Threshold Bit Score: 256.402
Created: 2-Jul-2020
Updated: 25-Oct-2021
Structure
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Aligned Rows:
Conserved Features/SitesClick to see Conserved Features Help
 
putative active
Feature 1: putative active site [active site], 3 residue positions
Conserved feature residue pattern:[D] [EDQNH] [KH]Click to see conserved feature residue pattern help
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                     #    # #                           
AMV12682       4 IKTFIKKLEEIKAKGYIRTLRRGDTGVGHTLEQELGLTENNISLPDLGVAELKAARRNTSSMLTLFTKEpl--sDKGRKR 81  Geobacillus the...
WP_088882038   3 LAEFVRKIRELKARGYIKARRRGDTGIGYTLEQEIGLTENNVSKPDLGDIELKAHRRNSSSRITLFTLDrn--aWKINQR 80  Thermococcus sp...
OUV65954       3 LQTFKTKYSLIKARGFIKTHRKGNTGVGHTLEQELELTENCISGPDLVGNELKAARKGAGGKQTLFTKEg---dWVVPQR 79  Euryarchaeota a...
BAB60583       3 INQFIEKFKQIETKGFVKSMRRGPTGIGMTLESLLGIKENNISLPDLDGIELKAHRDNSMNLITLFTFNrg--aWIMNPL 80  Thermoplasma vo...
TAF65729      53 KSTLQKKLQKVKDMGYVVSMRKGNTGIGYTLETLLGIAENNIKLPDFGTIELKSKRKNASTPVTMFTFNka--vWKIKQI 130 Cytophagales ba...
RKU19216       3 IAQLKDKLSEINQMGYVVSLRKNNTGIGYTLETLLGLEENNLKTPDFGDIELKSQRIGVNNRVTMFTFNrg--vWKIKTK 80  Candidatus Pori...
WP_012984508   7 LSDIIEKLRIIRDMGYIPTHRSNDTGIGKTLEDLLEIPENNFRIPDIGVIELKAKRIDSNSMLTLATKSpe--pKGINRV 84  Dehalococcoides...
OGZ65045       3 IEELIEKLKKIEKMGFVKTVRPHDGGVGNTLESLLDVKENNLRLPDIGDIEIKAKRIESSSMLTLASKSpl--pRGVNKL 80  Candidatus Stas...
KKR87698       3 LDELIEKLQKIKKMGFVKTVRAHQGGVGNTLEYLLEVPENNLRLPDIGEIEIKAKRYDSQSMLTLSSRApq--kRGTNKV 80  Candidatus Curt...
WP_084174070  31 LEDLKRRLLEIKELGWIPSRRSRDTGIGKTFEDLLGIPENNLQLPDVGGIEVKSSREYTQSMITLITFEppkewRNVNWT 110 Methermicoccus ...
Feature 1                                                                                        
AMV12682      82 DRYLletfayDSDKEDRIKELYTti--saLDYNAQGFKLEVtn--------kEIRLIHKDIPLd-----VYWTAELLq-k 145 Geobacillus the...
WP_088882038  81 NLILk----yGSIDSKGRRSLYCtv---sNKPNPQGFYTVCia--------dKFCLFHTDGELi-----AEWRVEDLi-n 139 Thermococcus sp...
OUV65954      80 DYIEty--gfPHTTKIGELSGQStv---tKTVNKRGLCIVTtd--------dYCAICHDNVII------VMWDWDTLi-d 139 Euryarchaeota a...
BAB60583      81 EAVRk----yGTLDKNGRLGLYFtm---nFTPNSAGLYLFAdn--------eAVSVRHINGDVl-----VKWNFNDLe-d 139 Thermoplasma vo...
TAF65729     131 DTIKt----yGYKDTTGRLALYCfv---sSKPNPQGLYLKTtk--------tSLQMYHNDGTLi-----AEWQADNLa-e 189 Cytophagales ba...
RKU19216      81 ELIEk----yGYIDTNGRPSLYCta---nSKPNNQGLFVTVeh--------eIVRLYHVDGTLv-----AEWSGERLi-d 139 Candidatus Pori...
WP_012984508  85 LFDHy-----KYRDDKGLYNLHStc--ygSRYNPQSFKVELsd--------nKLVLKNMDNIE------CYWPLSMLled 143 Dehalococcoides...
OGZ65045      81 LFINy-----SHVAEDGIRKLYTti--ygSKTNPQNFKVIFen--------dKLVLQNKNNIL------AYWPVSLLf-e 138 Candidatus Stas...
KKR87698      81 LFKNy-----KYIGTDGIYRLYStv--ygSRKNTKGFGIDVqn--------gKLVLLNPKNIE------AFWPLEKLd-d 138 Candidatus Curt...
WP_084174070 111 LDDLvat-fgETGFENGGPVFHItvyathYTSNAQQFKLEVreingtemvcaVTRREFVGINQnlprdvVVAYLVDEivq 189 Methermicoccus ...
Feature 1                                                                                        
AMV12682     146 TFEDKLPALVYVyad--higEDADEHFHYTEARLLKGFDFKGFMKAVQDGYIKVDLRMHMKnn----gRPRNHGTAFRIL 219 Geobacillus the...
WP_088882038 140 AFSKKMPNLILVvadr-kldSNGREEFWYNEAYYLEGVDRDKFIEFLQSGVITVDLRMHLRen----nTVRNHGTAFRIE 214 Thermococcus sp...
OUV65954     140 QFAKKFPACVKVfad--vekRGGVEYFHYNEAYRFIGTDKNLFRTAIENDIIAIDIRMRTQnti--gkGIRNRGTAFRVN 215 Euryarchaeota a...
BAB60583     140 QFKRKVPALIIAyar--teyRGNDEYFQFYKAVLLKGTTKDIIRESIKNNIILIDLRLHDKg-----tMARNHGTGFRIY 212 Thermoplasma vo...
TAF65729     190 TFKKKMPALVLVqaet-rvnSDEKEEFYYDEAYLLSDPSGKKLLDMISKDEILVDVRMHVNlr----gSVRNHGTAFRTD 264 Cytophagales ba...
RKU19216     140 RFRSKMPSLIIVnadt-rinSDQKEEFWFKEAYLLTEPDEDNFLDLIKKDIIIVDVRMHLRen----rVVRNHGTGFRID 214 Candidatus Pori...
WP_012984508 144 VLTSKSDKTLLVfaetsgerKTINEKFHFIEAYLLSNLNKEKFKDAIEQDMLKVDIRIGVYrsgrnagRYHDHGTGFRIN 223 Dehalococcoides...
OGZ65045     139 GLKAKADKVLLVyaetkgekGSVNEKFHYTEAYILEGIDFENIKEILENGKLKFDIRIGADrngkkigVYHDHGTAIRIS 218 Candidatus Stas...
KKR87698     139 IFKEKSSQIVLVlaytkgsmGKSDERFHYVEAYLLSGLNLNNTRNAIKRDKLKVDIRIGFDltgkragKYHDHGTGFRIS 218 Candidatus Curt...
WP_084174070 190 RISKKLKGCLLIieae-srtVDDREEFKLKSAKLYTGFSEKRFIELVQEGQIALDIRFGRYkd----gKPHNHGTGWRIK 264 Methermicoccus ...
Feature 1                 
AMV12682     220 RSHLPICFK 228 Geobacillus thermoleovorans
WP_088882038 215 EKYLHELFS 223 Thermococcus sp. P6
OUV65954     216 HAKMEALFV 224 Euryarchaeota archaeon TMED129
BAB60583     213 EKNLPLVFS 221 Thermoplasma volcanium GSS1
TAF65729     265 ESKLINCFS 273 Cytophagales bacterium
RKU19216     215 ERFWNLCFG 223 Candidatus Poribacteria bacterium
WP_012984508 224 KKHFLQLFD 232 Dehalococcoides mccartyi
OGZ65045     219 KQDYPKLYK 227 Candidatus Staskawiczbacteria bacterium RIFCSPHIGHO2_01_FULL_37_17
KKR87698     219 KKDYIHLFG 227 Candidatus Curtissbacteria bacterium GW2011_GWA1_41_11
WP_084174070 265 KKDVLKLYA 273 Methermicoccus shengliensis

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