1IHF,2NP2,1IHF,2NP2


Conserved Protein Domain Family
IHF
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cd13832: IHF 
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Integration host factor (IHF) and similar proteins
This subfamily includes integration host factor (IHF) and IHF-like domains. IHF is a nucleoid-associated protein (NAP) that binds and sharply bends many DNA targets in a sequence specific manner. It is a heterodimeric protein composed of two highly homologous subunits IHFA (IHF-alpha) and IHFB (IHF-beta). It is known to act as a transcription factor at many gene regulatory regions in E. coli. IHF is an essential cofactor in phage lambda site-specific recombination, having an architectural role during assembly of specialized nucleoprotein structures (snups). IHF is also involved in formation as well as maintenance of bacterial biofilms since it is found in complex with extracellular DNA (eDNA) within the extracellular polymeric substances (EPS) matrix of many biofilms. This subfamily also includes the protein Hbb from tick-borne spirochete Borrelia burgdorferi, responsible for causing Lyme disease in humans. Hbb, a homodimer, shows DNA sequence preferences that are related, yet distinct from those of IHF.
Links
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Statistics
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PSSM-Id: 259854
Aligned: 104 rows
Threshold Bit Score: 61.3536
Created: 8-Feb-2013
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
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dimer interfaceDNA binding
Conserved site includes 33 residues -Click on image for an interactive view with Cn3D
Feature 1:dimer interface [polypeptide binding site]
Evidence:
  • Structure:1IHF; Escherichia coli IHF heterodimer (IHF beta subunit binds the IHF alpha subunit); contacts at 4.0A
  • Citation:PMID 8980235
  • Structure:2NP2: Borrelia burgdorferi Hbb homodimer; contacts at 4.0A
Scroll to Sequence Alignment Display
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1     #  #  ##  #    #   #  ### ##########    ###### #                          ## # #
1IHF_B      3 KSELIERLATQqs-hIPAKTVEDAVKEMLEHMASTLaq-gERIEIRgFGSFSLHYRAprtgrnpktgdkveleGKYVPHF 80  Escherichia coli
YP_053698 283 KNDLVNSIFSNnenkLTKVKIKKIVDSLFELMENNLvnegSEIKINnFAKFSTVFVDettmkdmktgelkmvpSRKTIKF 362 Mesoplasma florum L1
YP_053671 159 KKYLVERLTEMyp-dYKKKTIDEIVKNLFQNVENHLis-gEEVIIEnFGKLIKVEKPvkqainpsngeivevpATTIIKF 236 Mesoplasma florum L1
ABR42913    3 KAELIEALADKt--gLQKQEAKKVLDAYIEIVTERMse-nEEIVLVgFGTLIPRPQTqrlarnpktgtpvmipARTTVKF 79  Parabacteroides di...
EMZ30558    3 KIELARAIQEAc--gCTQTEAAGLLNTVIDVFTEQLsn-gNSINLQgFGTLKPWHQTlrdgrnpktgvpvtipPRISVKF 79  Parabacteroides sp...
EKN09633    3 KSKLIGQIAADt--gMTRAAIKAVLNSFIDNTTEALqe-gDTVVFQgFGTFLPWEQTerparnpqtgepvmikPRTSVKF 79  Parabacteroides go...
EKN07287    3 KRDLVVSLSERl--sLTQSQSVEIVNAWEGVLTDALqs-gERLTLQgFGTFFAWSQTertgrnprtgetcrieARVSVKF 79  Parabacteroides go...
EMZ29480    3 KSDLMREIAKKm--sISQKDSLRFINIFEDVMANELlk-dGSIMLQgFGTFSSWKQSerlgrnprtgisvvikSRTSVKF 79  Parabacteroides sp...
EMZ28928    3 KADFISKLAVEm--nISQQQSRQFMKAFQVVLTEAMkq-dSPVMLQgFGTFTPWSQKerigrnphtgiscaipARTSVKF 79  Parabacteroides sp...
EMZ30026    3 KTEIVNDLAERl--sLPKTECYRFLQAWQTLMTERLsk-sDSLILQgFGTFHPWSQTaregrnprtgetclirPRRSVKF 79  Parabacteroides sp...

Feature 1      #   #  
1IHF_B     81 KPGKeLRD 88  Escherichia coli
YP_053698 363 KSLKgLRE 370 Mesoplasma florum L1
YP_053671 237 KPSRnLKL 244 Mesoplasma florum L1
ABR42913   80 KPGKfLLE 87  Parabacteroides distasonis ATCC 8503
EMZ30558   80 RPGKfLLE 87  Parabacteroides sp. ASF519
EKN09633   80 RAGSdLIK 87  Parabacteroides goldsteinii CL02T12C30
EKN07287   80 KPGKfLLA 87  Parabacteroides goldsteinii CL02T12C30
EMZ29480   80 RPGKdLLK 87  Parabacteroides sp. ASF519
EMZ28928   80 KPGKfLLR 87  Parabacteroides sp. ASF519
EMZ30026   80 KPGKmLLQ 87  Parabacteroides sp. ASF519

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