5LIQ,6QNZ


Conserved Protein Domain Family
BspD6I-like

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cd22316: BspD6I-like 
Click on image for an interactive view with Cn3D
nicking endonuclease Nt.BspD6I and similar endonucleases
Heterodimeric type II restriction endonuclease nicking endonuclease BspD6I recognizes a pseudosymmetric DNA sequence (5'-GAGTC) and cuts both strands outside the recognition motif 4 nucleotides downstream. It forms the large subunit in a heterodimeric arrangement. This catalytic domain/subunit 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: 411720
Aligned: 35 rows
Threshold Bit Score: 217.553
Created: 25-Jun-2020
Updated: 30-Sep-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
active site
Conserved site includes 5 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                        
5LIQ_A       232 KIETKMRNARDVADATTRYFRYTGLFva--rGNQLVLNPe--KSDLIDEIISSSKvvk----nytRVEEFHEYYGNPSLP 303 Bacillus sp.
RRQ91186     175 YMKKKINNWGDYTDSIFRILRATELVvf-tkGRSLSISPa--RKEEVEYILENVPrdil--sdqiSRERFDKYITNPYIP 249 Enterococcus fa...
OGM18227     228 FVKTKMRNSIDYADAAIRYFRATGLFti--sGRTYRLEIldtKTRIVRTILKTFPrepe--eyekSPSVFLDFLGNSNLP 303 Candidatus Woes...
RZM14924      68 FMKKKLANLSDYTDAVFRILHQSGLIvm-saGRTLSISPv--RQREVSYILTQIErkpm--pedmDRSQFDKYMFNPELP 142 Lactobacillus d...
WP_070481707 234 FIKTKMSNSLDYTDSIFRFLRATGLFil-skGKSISISPd--RFDEVEFILNNVDrkim--dpnmSLKKYYEYLANPKVP 308 unclassified St...
WP_126302507 233 FVKKKMNNLSDYADSIFRVIQSTGLVin-skGKSLQINPt--RKNEVDYILDNVSrdim--pidmNREDFDKYISNPRIP 307 Mannheimia haem...
RJQ31820     227 FLATKIRNSIDYSDAAIRYFRATGLFti--sSRTYRLQIldtKLQVVEEILSKTArepl--nfleNEAIFLDLLSNPDYP 302 Actinobacteria ...
WP_089150391 230 YMNKKIDNWEDYTDAIYRLLHESGLFva-tgFRTIRISDk--RQAEVNFILKNTPrdpi--pestPREEFDQYMFNPAIP 304 Lactobacillus c...
WP_138275767 232 IATKRRTLAQDYADSSFRYLLATGLFriephGRTFSIVEs--KRNFATNLIADLGlgstf-seypPEHYTQEYLGNPAEP 308 Candidatus Rhod...
Q8RHS6       264 HTFKAMATLEDYFDLNRRYLALTETFif--eDSTIKLDIf--PKYYFRECISNLIdgafiedknlKDDIELSNISNNLKV 339 Fusobacterium n...
Feature 1                                                                                        
5LIQ_A       304 QFSFETkeqlldlahrirdentrlaeqlvehfpnvkveiqvlediynslnkkvdvetlkdviyHAKELQLELKKKKLQAD 383 Bacillus sp.
RRQ91186     250 QLLNDNkenlinslvelg----------------------------------svgdisedifkLKKRLHYQRNLKKLEKV 295 Enterococcus fa...
OGM18227     304 SLPEDDvgvlreeiialvvkirsasgk---------------lpkpdetysmgklttlmidelWGLKTELEQVLQSALIN 368 Candidatus Woes...
RZM14924     143 ILLNDNraslqsdivsf-----------------------------------kpstsidrdldGMNTYELKSVLAKLRRR 187 Lactobacillus d...
WP_070481707 309 KLKNDNiyeikreikskglsetsd----------------------dlyvlkkvlnkhrvlkrEQKLMEMTKKLKRKEES 366 unclassified St...
WP_126302507 308 ELLNDCsqniinsmi---------------------------------------elngeyvdpNLDIYELKSKLNILREK 348 Mannheimia haem...
RJQ31820     303 KLPDDNkqtliteimnifkfl---------------------------edkshnipkiqlspsYLNTLDIEQLKDKKEEL 355 Actinobacteria ...
WP_089150391 305 KLLNDNknslehyldsikvkyksd---------------------sslyslkkkvniyrtqkrKEVVSQIANQLKKRETS 363 Lactobacillus c...
WP_138275767 309 EITEFSestqlrrlneilqvkatl----------------------ssemaihtknlkeisegYKRELYIEGIAEEHTKA 366 Candidatus Rhod...
Q8RHS6       340 NLNRIY---------------------------------------------------------SNLSKDLNIKITNPNEA 362 Fusobacterium n...
Feature 1                                                                     #                  
5LIQ_A       384 Fn---------------------dPRQLEEVIDLLEVYhekknvieekikarfianKNTVFEWLTWNGFIIlg-naLEYK 441 Bacillus sp.
RRQ91186     296 Ndqtlvlk----------srheedIKDILEVFQAISNKeiep-----------asmRPTFFEWNIWRAMTMin--hGNVV 352 Enterococcus fa...
OGM18227     369 Eevkal-------------qtyklYPDIIGVFNKIQDRgdid-----------ipeKPLFFEWNTWRALNMld--dGNII 422 Candidatus Woes...
RZM14924     188 Qredrvtaqan----rlkerrdedIQNILAVFKHISDKevg-------------rdGPLMLEWNMWRAITMid--hGDIK 248 Lactobacillus d...
WP_070481707 367 Di----------------------NDIIETYSQILNNEvp---------------dRSAVMEWNTWRAAVMin--nGKIT 407 unclassified St...
WP_126302507 349 Krielinnqiv----tlkvkkqkdIDDILNTFNQISNKeiep-----------asmRPTYYEWNVWRAMTMin--hGDVQ 411 Mannheimia haem...
RJQ31820     356 Erlgqk--------------iseqEQLKQLQTYSLYAEisqtfekirdfrcldipdKPLFLEWNIWRALNMld--dGTIQ 419 Actinobacteria ...
WP_089150391 364 D-----------------------INDILNIYKTIQKRet--------------kdAPTLMEWNTWRAVTMin--hGDIH 404 Lactobacillus c...
WP_138275767 367 Slaaksiql--------vtnrssvTPEILQTFEEIVARdsg------------mldKPLFFEWNTWRAFTAln-daLNVV 425 Candidatus Rhod...
Q8RHS6       363 NkyiqderykrfneliktkftdeiLLNLLEYFEKREDKeieklv-------tdeatIPTIFEYILGIIWYKvsefkGNIL 435 Fusobacterium n...
Feature 1                              #                  #            #      #                  
5LIQ_A       442 NNFVIDe--eLQPVTHAAGNQPDMEIIye------dfIVLGEVTTSkgatQFKMESEPVTRHYLNKKkelekqgveKELY 513 Bacillus sp.
RRQ91186     353 GNFVVDd--sGMPVSTAGGGKSDIVGDyg------dfNIGIEVTLStgkkQYEMESEPVTRHIGEMQv-------kKTTF 417 Enterococcus fa...
OGM18227     423 GNLSIDn--dGRPLHNAPPKLPDLVCYyn------nfVLVVEVTLStgarQYDSEGEPVARHLGDVVevlrtnadkRPVF 494 Candidatus Woes...
RZM14924     249 GNFVPDd--nGMPISTAGGGQGDIVGNyg------dfQMIVEVTLStgkrQYDMESEPVTRHVGEVQsk-----sdKPVF 315 Lactobacillus d...
WP_070481707 408 GNFIPDd--nGFPISTAGGSKGDVVGEyg------dfNILYEVTLStgkkQYDMEGEPVPRHVGELKrk-----sgKDTF 474 unclassified St...
WP_126302507 412 GNFIVDd--mGNPISTAGGGKSDIIGDyg------cfKIGVEVSLStgskQYDMEGEPVNRHIGRLQq-------eGPAF 476 Mannheimia haem...
RJQ31820     420 GNLLLDl--eSKPLRTAPGNMPDMVCYyk------dfVLVVEVTLArgarQYEIESEPVSRHLASVRknlrqkgdrRPVY 491 Actinobacteria ...
WP_089150391 405 GNFVTDd--qGTPLHTAGGGKGDIVGNys------nfNIIYEVTMStgktQYNMESEPVTRHVGNLQks-----skIPTY 471 Lactobacillus c...
WP_138275767 426 GNFRCDs--eGNPLGTASGKQADIVAEye------tfWLAIEVTLQsghkQYESESESITRHVGTLQshvrdtgdtRPVY 497 Candidatus Rhod...
Q8RHS6       436 EYMKLSleanLLPRTHASGGYADIIYEyvknenypkhSLLIEATLSdgsnQRKMEMEPVSRHLGDYRiks----knSNDY 511 Fusobacterium n...
Feature 1                                                                                        
5LIQ_A       514 SLFIAPEINKNTFEEFMKYNIVQn---------TRIIPLSLKQFNMLLMVQkkliekgrrlSSYDIKNLMVSLYRtties 584 Bacillus sp.
RRQ91186     418 GIFIADKLHETVINHFYTVSHQNskiy---ngiVNVIPLNTKTFIKFFEKAarkdi-qphaLLSIHEHSLKISKQmlidd 493 Enterococcus fa...
OGM18227     495 GLFLAPSINPSVVALFFVLRKTNvvhy---ggkAQIIPLNLDAFKKILDHAyneggveaeqIYSFLKWASSIADNfdn-- 569 Candidatus Woes...
RZM14924     316 GMFVAQNLTPTVVNYFWTTNLLNhkvy---ngsVDIIPMNLDTFVTFFKAAshkvl-dasdLLSIHQYSTKIAREtalag 391 Lactobacillus d...
WP_070481707 475 GFFIAENINPESIYHFYLTTGTNskiy---egnISIIPINLADFIKFFKLSikknl-qpsdLLDLHKQSIKLSKKsiveg 550 unclassified St...
WP_126302507 477 GIFIADKLQDSVINYFYTSSLINsniy---kghVDVIPMNTSTFITFFKKAvkkni-qpkdLYKIHEFSLKISKQtlleg 552 Mannheimia haem...
RJQ31820     492 GLFIAATVNPAVIAHFYILRRTNiqyy---dgtISFIPMNVQTFMNLLEIAntnggvtssqLYKFIRWADKAADGlt--- 565 Actinobacteria ...
WP_089150391 472 GIFIAPKLNPEVINYFYVSALAKsntf---ggkVGVIPLSLNDFITFYKGAakk----alsETDLKKLCDYSMNKakenl 544 Lactobacillus c...
WP_138275767 498 GVFIAPTVNETVLNYLMTQANMNsniy---kgpVKIAPLNLEDFKSFFAKHgdve---stsSERLHNALESIFQEdlvks 571 Candidatus Rhod...
Q8RHS6       512 SLFITTFLEQNIITDFRFRKIMPyekngeviegMKIIPIDTNFLKEIIKNKity----kelYSDFEEHYQKEPDEr---- 583 Fusobacterium n...
Feature 1                             
5LIQ_A       585 --erkytQIKAGLEETLNNWV 603 Bacillus sp.
RRQ91186     494 ---kteeDWHESVINKIFEIV 511 Enterococcus faecalis
OGM18227     570 -----etEWFNTIIQTSSKWT 585 Candidatus Woesebacteria bacterium RBG_19FT_COMBO_47_8
RZM14924     392 ---qtedDWHRKVLDYVLHEV 409 Lactobacillus delbrueckii
WP_070481707 551 ---edeeVWYNNILNYIFDKV 568 unclassified Staphylococcus
WP_126302507 553 ---ktekDWHNSVIDNMLNIV 570 Mannheimia haemolytica
RJQ31820     566 -----eeDWFNAISAKASNWI 581 Actinobacteria bacterium
WP_089150391 545 lddrtteEWYKDVRHYVLTLA 565 Lactobacillus crispatus
WP_138275767 572 ---gnepLWFENAKETFRALE 589 Candidatus Rhodoluna limnophila
Q8RHS6       584 -------NWYKNMIEKINKKY 597 Fusobacterium nucleatum subsp. nucleatum

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