1HCR,1JKR


Conserved Protein Domain Family
HTH_Hin_like
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cd00569: HTH_Hin_like 
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Helix-turn-helix domain of Hin and related proteins
This domain model summarizes a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a C-terminal DNA-binding domain (HTH_Hin) and a catalytic domain.
Links
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Statistics
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PSSM-Id: 259851
Aligned: 251 rows
Threshold Bit Score: 45.3941
Created: 7-Mar-2002
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
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DNA-binding
Conserved site includes 8 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA-binding interface [nucleic acid binding site]
Evidence:
  • Structure:1JKR_C, Salmonella typhimurium Hin binds DNA, contacts at 4 A
  • Comment:A water molecule within the major groove interface is an essential determinant for sequence-specific binding by HTH_Hin.
  • Comment:HTH_Hin DNA interaction requires both major groove and minor groove interactions.
  • Structure:1HCR_A: A subset of Hin recombinase HTH domain residues is involved in minor groove interactions
  • Structure:1HCR_A: A subset of Hin recombinase HTH domain residues is involve in major groove sequence-specific binding interactions
  • Structure:1HCR_A: A subset of Hin recombinase HTH domain residues is involve in major groove nonspecific binding
  • Citation:PMID 8278807
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1      ###                               ## ### 
1HCR_A      1 GRPRaINKHEQEQISRLLEKGhPRQQLAIIFGIGVSTLYRYF 42  Salmonella typhimurium
EED69655  138 GRKSaLSPEQAAEALRLRQDGmTQKEVAEVLGVSRSTISRLE 179 Comamonas testosteroni KF-1
AET93153  147 GRPSsLTSAQQRQAMLALDAGlTVTEIARTLNTSRQTIMRLR 188 Burkholderia sp. YI23
NP_950206 139 GRPYkLTPAQQDEARAMLAAGrGVREIAPIFNVSPPTISRLK 180 Rhodopseudomonas palustris CGA009
EDZ42341  140 GRKPkLTDHQRQLARQRMADGdTCRAIARDLGVAHTTISRLR 181 Rhodobacterales bacterium HTCC2083
EGO93416  139 GRKPkLSLHQRQEALRRRNAGeAVREIARSYNVSHSTISRLS 180 Acidiphilium sp. PM
EBA04516  140 GRPKkLSETDRAEALSLLSMGkTAAEIGRLLGVSRSTISRLK 181 Rhodobacterales bacterium HTCC2150
NP_068724 139 GRPAaLTAEQQASARDMRAAGaSLGSIARILGVSTRTITRVT 180 Propionibacterium acidipropionici
ABS67488  139 GRKSvLTVDQRAYVAKLRAEGeSVRHIARIMGVSKATISRIA 180 Xanthobacter autotrophicus Py2
1JKR_C      1 GRPRaINKHEQEQISRLLEKGhPRQQLAIIFGIGVSTLYRYF 42  Salmonella typhimurium

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