2E52,3A4K


Conserved Protein Domain Family
HindIII-like
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cd22330: HindIII-like 
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Restriction endonuclease HindIII and similar endonucleases
The type II restriction endonuclease HindIII cleaves DNA at the palindromic sequence A|AGCTT (| denotes the cleavage site). It 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.
Links
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Statistics
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PSSM-Id: 411734
Aligned: 17 rows
Threshold Bit Score: 362.773
Created: 25-Jun-2020
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
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Conserved site includes 5 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:3A4K: Haemophilus influenzae restriction endonuclease HindIII active site contacts substrate DNA and divalent cations; contacts at 4A
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1                                                                                     
2E52_A      6 LEKLLSLIENLTNq--EFKQATNSLISFIYKLn----RNEVIELVRSIGILPEAIKPSSTQEKLFSKAGDIVLAKAFQLL 79  Haemophilus influe...
3A4K_A      7 LEKLLSLIENLTNq--EFKQATNSLISFIYKLn----RNEVIELVRSIGILPEAIKPSSTQEKLFSKAGDIVLAKAFQLL 80  Haemophilus influe...
RHR65916   12 FEKLIDYIFSLHGv--KFQDATQKIFEYVNGMa----DDEFIGIVREIGIIPECIEYSSTEEKLYSKSSDIVLARCFKML 85  Coprococcus sp. AF...
BBM52067    4 FYKMLEKIEIISKqnnNFIENSIKINEFIKNIt----KEELLILLREVGTIPESIKHDSTEEKLFSKASDCILSRAFIEI 79  Leptotrichia trevi...
TCU44888    5 IDAVVDRLTEERL---PFDRAAVEMDATIRSVd----DADFSALLVRAGCIPERYGHDSTEEKLYAKAMDAIVAESLRRL 77  Streptomyces sp. B...
OXE36266    9 RARWLHDIVQISG---HFGNDSTRIEHELNQEtqsegINSILDHLRLAGSIPEQYGHDSSEEKLYSKYTDAILSTSFTHI 85  Phenylobacterium z...
KXK03935   13 RQYWIEEIRKLSG---HFGNDTEKLEKELEAEikkngVSSLIDHLRLCGNIPESYGHDTSEEKLYSKYTDCLLSLAYTAL 89  Chlorobi bacterium...
TKZ28586   13 RTYWVEEINKLSG---NFAEDSDRLAKKLSDEvkksgASAPIDHLRLCGNIPESYDYDSSEEKLYAKYTDCLLDEAFKAV 89  Hormoscilla sp. GU...
PTT92864   13 RAYWVEEIRKLSG---RFGDDSDRLDRELAAEieangPAVLIDHLRLCGDIPESYDHDSSEEKLYSKYTDSLLCASFRAI 89  Pelomonas sp. HMWF004
TAA74198   14 RRCWIEKISRLSG---NFGVDADRVQQELSDKiqrdgLASLLGHLRLCGVIPEGYGHDSSEEKLYSKYTDAVIHEAYTAM 90  Candidatus Electro...

Feature 1             #     #               # #              #                                
2E52_A     80 NLNSKPLEQRGNAGDVIALSke-fNYGLVADAKSFRLSRTAKNQKDFKVKALSEWREd-kDYAVLTAPFFQYPTTKSQIF 157 Haemophilus influe...
3A4K_A     81 NLNSKPLEQRGNAGDVIALSke-fNYGLVADAKSFRLSRTAKNQKDFKVKALSEWREd-kDYAVLTAPFFQYPTTKSQIF 158 Haemophilus influe...
RHR65916   86 GLNSKALGERGNSADVLAESisgyNYSLVADAKCFRLSRTAKNQKDFKISNLSDWRGsenEYAVLVAPYFQYPKKESQIY 165 Coprococcus sp. AF...
BBM52067   80 GLKSNILTERSDSADIIVESif-hNYTLVADAKAFRMSRTAKNQKDFKVKALSSWRKd-nDYAVLCSPYFQYPVKESQIY 157 Leptotrichia trevi...
TCU44888   78 GYTAEVSQERANAADVTAVGgs-pAHSLVADAKAFRLSRTALNPKDYKIEALSKWRKg-aDYALLVAPIAGYPEGASRLY 155 Streptomyces sp. B...
OXE36266   86 GLNSTVLTERGDAADVEAANs---DYALVGDAKAFRLSRTAKNQKDFKIEAMDGWKRg-kPYAIVVCPIYQLPNRSSQIY 161 Phenylobacterium z...
KXK03935   90 GLKSLVLKERADAADVEAFAk---DYSFVADAKAFRLSRTAKNQKDFKVQAMHGWKRg-kPYAMVVCPIYQLPTSSSQIY 165 Chlorobi bacterium...
TKZ28586   90 GLKSIVLKERADAADVEVFAk---SYSFVADTKSFRLSRTAKNQKDFKVQTMDRWKRg-kPYAMLVAPIHQLPSKSSQIY 165 Hormoscilla sp. GU...
PTT92864   90 GFRSLVLKERADAADVEAFAk---GFSFVADAKSFRLSRTAKNQKDFKVQAMDGWKRg-kPYAVVVCPIYQLPTKSSQIY 165 Pelomonas sp. HMWF004
TAA74198   91 GFTSLVLKERADAADVECVCa---DYSFVADAKTFRLSRTAKNQKDFKIQALDTWKHg-kSFAMVVCPVYQLPARTSQIY 166 Candidatus Electro...

Feature 1                                                                                     
2E52_A    158 KQSLDENVLLFSWEHLAILLql---dLEETnIFSFEQLWNFPKKQSKKTSvsDAENNFMRDFNKYFMDLFKi--dKDTLN 232 Haemophilus influe...
3A4K_A    159 KQSLDENVLLFSWEHLAILLql---dLEETnIFSFEQLWNFPKKQSKKTSvsDAENNFMRDFNKYFMDLFKi--dKDTLN 233 Haemophilus influe...
RHR65916  166 SKALMDNVCLLSWEHIYIMLky---nVKEDtSFTLESIWDASKMIYRNDSksLGDAKNSLMPKMDAYIAKKigidTNEMN 242 Coprococcus sp. AF...
BBM52067  158 KQSLEDNVCLFSWEYFIFLIen---nIVESnEVSFASIWDFSNNFEINGTmkKAKNSFIGELDNKILELVNnqkiYCEFK 234 Leptotrichia trevi...
TCU44888  156 VEADRYRVTLLSYSHLALMI------DSGSgPDQLEGIWRRGTEHATVTLqaPTYWGALDSALREALAWDVae-wSRARR 228 Streptomyces sp. B...
OXE36266  162 HQAITRTVCIFTYSHLSVLVrlaevtNTKNaMDALHSILRCTSTLNPSKDaiPYWHQINKAMLDSHSSVESl--wREEKI 239 Phenylobacterium z...
KXK03935  166 QQATTQNVCVFTYSHLALLLaysekeGQAKaQQLLKKIFETVKALNPSKNatDYWLAINKTILSFSKAVEPl--wSIEKG 243 Chlorobi bacterium...
TKZ28586  166 EQASTRNVCVFTYSHLAVVVrfslleSKLKtEDIIHEIFKTISTLNPSKDasYYWLAVNRKMLELSNQMECl--wKEEKQ 243 Hormoscilla sp. GU...
PTT92864  166 EQASVRNVCVFTYSHLAMLVrfagmeGPERsEALLERVLKVTAALNPSKDasAYWLAINRSMLEYSDSLRDl--wQDEKK 243 Pelomonas sp. HMWF004
TAA74198  167 QQAAARSVCICTYTHLAVLVryaesvGRSQtISLLHNIFKAVEAMNPSQNagAYWQTLNRTLLDVDDSITSv--wREEKL 244 Candidatus Electro...

Feature 1                                                                   
2E52_A    233 QLLQKEINFIEERSLIEKEYWKKQINIIKnftreEAIEALLKdinmSSKIETIDSFIKGIKS 294 Haemophilus influenzae Rd KW20
3A4K_A    234 QLLQKEINFIEERSLIEKEYWKKQINIIKnftreEAIEALLKdinmSSKIETIDSFIKGIKS 295 Haemophilus influenzae Rd KW20
RHR65916  243 IEINKCKEEILKRGKLGTQYWNDYIDKINqydreTAIIELIKigklNEKRNAIEKYVKSLIK 304 Coprococcus sp. AF16-5
BBM52067  235 AIIEQQIKSLTDRGNIEKKFWKEEENRIRnltyeKAIEELIItkklNNKIKQIEKYIGDLKK 296 Leptotrichia trevisanii
TCU44888  229 EYFESLLHSAEEELGYFDDEKEFIAGLSReelveIAIGALKIds-kMRTIRARVIKTRALMR 289 Streptomyces sp. BK215
OXE36266  240 ANLESIEAARNESLTALAVERQRILQMSHd----EAIQSLIR----YKNIDGRRKVISAVSD 293 Phenylobacterium zucineum
KXK03935  244 VATESIAISKEEALTFLAQEREKIMRMSHk----EALKELIK----VHKIESRIKTISAISD 297 Chlorobi bacterium OLB4
TKZ28586  244 AAVESIVVAKEEALTFLAQEREKIMRMSYe----EALQELVK----FHRIDKRTEVINSVTY 297 Hormoscilla sp. GUM007
PTT92864  244 AAVESIAAAKEEALTFLAREREKIMRMSHe----EALLELVR----VHKIESRMNVIRSLSD 297 Pelomonas sp. HMWF004
TAA74198  245 AAVESIKIAQEEALTFLAAERERIMRLSRe----EAIREVLK----WQKIENRIRAVKSVAD 298 Candidatus Electronema sp. GS

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