1AVQ,3SYY,5YEU,3SZ5,3SLP


Conserved Protein Domain Family
PDDEXK_lambda_exonuclease-like
?
cd22343: PDDEXK_lambda_exonuclease-like 
Uncharacterized nucleases similar to lambda phage exonuclease
This model characterizes a diverse set of nucleases such as alkaline exonuclease from Laribacter hongkongensis, lambda phage exonuclease, or a Cas4-like protein from the Mimivirus virophage resistance element system. They belong to a superfamily of 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.
Links
?
Statistics
?
PSSM-Id: 411747
Aligned: 95 rows
Threshold Bit Score: 95.0962
Created: 28-Mar-2011
Updated: 25-Oct-2021
Structure
?
Program:
Drawing:
Aligned Rows:
Download Cn3D
 
active site
Conserved site includes 4 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:3SZ5: Laribacter hongkongensis alkaline exonuclease active site interacts with substrate DNA and divalent cations; contacts at 4A
Download Cn3D for Viewing 3D StructureScroll to Sequence Alignment Display
Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection: 
Feature 1                                                                                         
1AVQ_A         20 EQGDDAWHKLRl-------GVITASEVHNviakprsg---------kkwpdmkmSYFHTLLAEVCTgvape--------- 74   Bacteriophage...
3SZ5_A          2 EQRTEEWFAARl-------GKVTASRVADvmtktks-----------gyaasrqNYMAELICQRLTgtqeir-------- 55   Laribacter ho...
XP_029828164  249 QGASPEWHFARr-------LRITASNVKRvpk-------------------rstTDCAKAVASLVSpsfa---------- 292  black-legged ...
XP_002603522   61 EMILGLHVTKEq-------ALEVEVNTRKqshnklw------------hdvrknRITSSVFKQVCSrqgdhdslgqr--- 118  Florida lancelet
XP_013399595  464 EENHLCNLQQLi-------DIDKLSSEEAkksiekmgl-------pyikqrssyWFFAREKATLTGsrlyealgg----- 524  Lingula anatina
XP_012566795  179 ELVQLSNKTFSd-------IKITEDEIKLisyhtktqsq-----sslwfraragVIAASKFKACCHsniampsrnlimqv 246  Hydra vulgaris
XP_030832285   91 VYEKYITCDEQq-------REHLATATTSqdsalwqdqrkiritssgafevpkkADPKNWLDRKLNnrfm---------- 153  purple sea ur...
XP_030840542   59 NQKSALWTSQRk-------LRITSSSAASvpk-------------------rqeTDPSKWIKNHLDptfr---------- 102  purple sea ur...
XP_029848402  307 ELPRPKEKQAKdtelpveaRVPRLSAFEMn------------------------QHVARVAQRVHTdrtekgey------ 356  black-legged ...
XP_029842493  296 QGNCTLWHESRr-------MRLTSSMIKKvpm-------------------rasTNPSKAVQDILHptfr---------- 339  black-legged ...

Feature 1                            #                                                            
1AVQ_A         75 -------vnakaLAWGKQYENDA--------RTLFEFts----gvNVTESp--------IIYRDe-------sMRTACSP 120  Bacteriophage...
3SZ5_A         56 -------fsnaaMQRGTELEPHA--------RARYIIet----geIVTEVg--------LIDHPt-------iAGFGASP 101  Laribacter ho...
XP_029828164  293 --------gnaaTRHGVLFEPVA--------RGQFICqt----glVERVA---------GTVVSsd------hPWLSASP 337  black-legged ...
XP_002603522  119 -lltskgiqtsaMKFGIEHEPEA--------AKLYSEvt----gnNVYLS---------GFVINps------aPHLGASP 170  Florida lancelet
XP_013399595  525 ---dtlkrqreiFAQVFEGHTEAekspevkeAMAHGVkhemcavtTVCRNflpvyhpnwKFVEVggfpldlegVPVVVSP 601  Lingula anatina
XP_012566795  247 cypsenkfitkaTKYGCDNKMVAkn-----yLKSHLLtth--knvEIFDC---------GLLRTsi------wPYLEATP 304  Hydra vulgaris
XP_030832285  154 --------gnssTRYGQECEPIA--------RSYYEHtf----rkKITST---------GLVVHpt------dNWLGASL 198  purple sea ur...
XP_030840542  103 --------gnaaTIHGQQHEDIA--------RKQFEEet----gcHVDQV---------GLLVRpe------dSWLGASL 147  purple sea ur...
XP_029848402  357 -----dlstssaIIWGQVHEADA--------LKEYEEet----gsTVTKS---------GLWLHqs------gVLGGSPG 404  black-legged ...
XP_029842493  340 --------gnkaTEHGRRSEPKA--------RSKFMHry----ncAVRQV---------GLVVCpe------lPWLAASP 384  black-legged ...

Feature 1         #               # #                                                             
1AVQ_A        121 DGLcs------dgNGLELKCPft---------------------sRDFMKFRlggfe---------aiksaYMAQVQYSM 164  Bacteriophage...
3SZ5_A        102 DGLvg------dtGLIEIKCPn----------------------tWTHIETIktgk-----------pkpeYIKQMQTQM 142  Laribacter ho...
XP_029828164  338 DCGvia----stdALLEIKCPvvq------------------nckEEIAAGKsdvkknngeyvvspngqsgYYYQVQFAM 395  black-legged ...
XP_002603522  171 DRKvydpnsetphGLLEIKCP------------------------DKDSFCSc-----------------pYLKKQNNGT 209  Florida lancelet
XP_013399595  602 DGClted--gkpqAAVEIKCPyf---------------------rKQLHEFIpa----------------rYYLQVMAEM 642  Lingula anatina
XP_012566795  305 DGIikctc-csheYIVEIKCPfkctkrk-----------vfelanDDKEFCMeikdgkh-----ylkrthqYYYQVQLQM 367  Hydra vulgaris
XP_030832285  199 DGIvd------rdTILEIKCPtekkleqyngs--ltnmlqankydVRVVNGNyvlrqt--------tagsgYYYQVQIAM 262  purple sea ur...
XP_030840542  148 DGRid------ehSILEIKCPtmqrlskykslsglfasgtydirrRENGENYlrqta----------aasgYYMQVQVAM 211  purple sea ur...
XP_029848402  405 GLLgt-------nNLVEAKCPwtwrehkik-------dafgtkgfCIDENGAllk-------------thpYFHQIQGCL 457  black-legged ...
XP_029842493  385 DGIvde-----ldALLEIKCPnvpncsall-------esgtydvrKNGNGVFvldpk----------gknkYYHQVQFAM 442  black-legged ...

Feature 1                                                            
1AVQ_A        165 WvtrknAWYFANYDPrmk-regLHYVVIERDe-----KYMASFDEIVPEFI 209  Bacteriophage lambda
3SZ5_A        143 ActgrqWCDFVSYDDrlpddmqYFCTRIERDd-----ALIAEIETEVSAFL 188  Laribacter hongkongensis HLHK9
XP_029828164  396 FcckkqLTYLYLWSPd-----sDAIAKVPYDe-----VYVKEILDRLRRFY 436  black-legged tick
XP_002603522  210 YklkstHSYYYQFLNr-----nSTANSTKRTp----pAKKAEPSKARKETY 251  Florida lancelet
XP_013399595  643 ValgteQCLFVSFEDsf---trLFLVRFDLPvwsmavHEIQSIYSTPGSRP 690  Lingula anatina
XP_012566795  368 Lis-iiPIYYFIMCDge----aSLIKKIYVDk-----EFLTENLNKAIHLF 408  Hydra vulgaris
XP_030832285  263 HcsgksKCNFLVWTPs-----eQVIVDVLYDq-----EWVGKQLHHLRGMY 303  purple sea urchin
XP_030840542  212 YcakatMCKFMVWTEne----aVTVDVPFNQ------EWFSQQYSRLKEFY 252  purple sea urchin
XP_029848402  458 AftnrgFCDLVLWTMr-----gIHTERVLAEp-----SWGEEKLPELLDFY 498  black-legged tick
XP_029842493  443 HctgklVCHFYVWSEg-----hDEVAVVQYSk-----DFMNCHLPRVRNFY 483  black-legged tick

| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap