Conserved Protein Domain Family
HTH_GlnR-like

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cd01105: HTH_GlnR-like 
Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators
Helix-turn-helix (HTH) transcription regulator GlnR and related proteins, N-terminal domain. The GlnR and TnrA (also known as ScgR) proteins have been shown to regulate expression of glutamine synthetase as well as several genes involved in nitrogen metabolism. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Statistics
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PSSM-Id: 133380
View PSSM: cd01105
Aligned: 30 rows
Threshold Bit Score: 84.589
Threshold Setting Gi: 116490984
Created: 30-Apr-2009
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
DNA bindingputative dimer
Feature 1:DNA binding residues [nucleic acid binding site]
Evidence:
  • Comment:Based on sequence similarity to BmrR and the structure of Bacillus subtilis BmrR bound to DNA (1EXI).

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1          ###             #                  ###                                        
gi 585206     11 LFPIGIVMQLTELSARQIRYYEENGLIf-PARSEg--NRRLFS-FHDVDKLLEIKHLIE---QGVNMAGIKQILAkae-- 81
gi 2632050    13 VISIGIVSELTGLSVRQIRYYEERKLIy-PQRSSr--GTRKYS-FADVERLMDIANKRE---DGVQTAEILKDMRkk--- 82
gi 106892183  58 TVSIGRATELTGLKDTQIRYFEELYRQe-RDTSTpagATRSYS-LADLRRLAVFAELLK---QGYRPAQAAEVVRscahl 132
gi 6093208    12 VLPIGTVMLLTDLTARQIRYYETQGLVk-PQRNAg--NHRTYS-LNDVDELLEIRSQMA---DGFTLADVKRLKHpr--- 81
gi 116617828  12 ILPIGTVRELTLLTDRQIRYYEQQKLIa-PGRGKg--GQRRFS-LNDVDRLLEIRDFLD---AGDSIKDIQEIFAkqrr- 83
gi 116490984  12 ILPISTVRALTNLSDRQIRYYESQDLLt-TKRGKg--GQRRFS-LNDVERLIEIRMMME---SGDSLKDIHNLYEthr-- 82
gi 89209542    7 DIPMRIVKERTGLTSRQIRYYDEMGLVf-PERTRg--NQRLFS-EEDIDRLKKIKKLLE---EGYTIAAIKEKLTpp--- 76
gi 75907383    5 FFTSKEASKITGCTLRQLQYWREKGVVv-PVISDtgtGRSIYYsKTNLVELAAMVYWLS---VGLSFDIACETLKtlk-- 78
gi 17231106   23 FYTSTEASEITHCSRRQLQYWREKGVIvpTVNSSg-kGRNVYYsKADLLALTVMEQLLStglNFDLCYAALQTLRkqep- 100
gi 94968347   20 RFSSKEVISLTSITARQLQWWDERGIVv-PAREG---HKRFYS-LDDLAEVAVLCELRQ---RGFSLQRVRKVMRflqre 91
                         90       100
                 ....*....|....*....|....
Feature 1                                
gi 585206     82 ---aePEQKQNEKTKKPMKHDLSD 102
gi 2632050    83 ---eqMLKNDPQVRKKMLEGQLNA 103
gi 106892183 133 -idrgATRNIADVLRREGDAITDG 155
gi 6093208    82 ----hREDSDAEVRKVLRDELLNQ 101
gi 116617828  84 -kaqeKQDSEAALRRSLQKEFAQL 106
gi 116490984  83 --vsnRRNEKTEFVHSLENEFLKI 104
gi 89209542   77 ---ppVKGNPEDVTLDPVFDKLNK 97
gi 75907383   79 --dqePELFSSGTGRRFMLLSEAQ 100
gi 17231106  101 --wlfDESVPEEKMKRLMLLPTRS 122
gi 94968347   92 lgkrlVETVTDGSEYHLLTDGRNL 115

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