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(-) Description

Title :  CRYSTAL STRUCTURE OF LIGHT-EXPOSED FULL-LENGTH THERMUS THERMOPHILUS CARH BOUND TO COBALAMIN
 
Authors :  M. Jost, C. L. Drennan
Date :  25 Jun 15  (Deposition) - 30 Sep 15  (Release) - 04 Nov 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.65
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (4x)
Keywords :  Transcription Factor, Light Sensor, Adenosylcobalamin-Binding, Dna- Binding, Transcription, Transcriptional Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Jost, J. Fernandez-Zapata, M. C. Polanco, J. M. Ortiz-Guerrero, P. Y. Chen, G. Kang, S. Padmanabhan, M. Elias-Arnanz, C. L. Drennan
Structural Basis For Gene Regulation By A B12-Dependent Photoreceptor.
Nature V. 526 536 2015
PubMed-ID: 26416754  |  Reference-DOI: 10.1038/NATURE14950

(-) Compounds

Molecule 1 - LIGHT-DEPENDENT TRANSCRIPTIONAL REGULATOR CARH
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21 STAR PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TT_P0056
    Organism Scientific: THERMUS THERMOPHILUS (STRAIN HB27 / ATCC BAA- 163 / DSM 7039)
    Organism Taxid: 262724
    Strain: HB27 / ATCC BAA-163 / DSM 7039

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (4x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1B121Ligand/IonCOBALAMIN
2CL2Ligand/IonCHLORIDE ION
3GOL1Ligand/IonGLYCEROL
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1B121Ligand/IonCOBALAMIN
2CL-1Ligand/IonCHLORIDE ION
3GOL1Ligand/IonGLYCEROL
Biological Unit 2 (2, 8)
No.NameCountTypeFull Name
1B124Ligand/IonCOBALAMIN
2CL-1Ligand/IonCHLORIDE ION
3GOL4Ligand/IonGLYCEROL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:125 , GLY A:128 , GLU A:129 , TRP A:131 , HIS A:132 , ARG A:176 , HIS A:177 , GLU A:178 , ILE A:179 , GLY A:180 , ARG A:213 , VAL A:220 , SER A:222 , VAL A:224 , LEU A:225 , GLY A:247 , GLY A:248 , GLN A:249 , MET A:264 , ASP A:266 , LEU A:267binding site for residue B12 A 301
2AC2SOFTWAREARG A:43binding site for residue CL A 302
3AC3SOFTWARELYS A:67 , ALA A:68 , ARG A:71binding site for residue CL A 303
4AC4SOFTWARELEU A:143 , THR A:146 , PHE A:147 , ARG A:151 , ASP A:157 , ARG A:189binding site for residue GOL A 304

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5C8F)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Phe A:32 -Pro A:33

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5C8F)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5C8F)

(-) Exons   (0, 0)

(no "Exon" information available for 5C8F)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:274
                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhhhhhhh.hhhhhhhhhhhhh....ee.....eeeehhhhhhhhhhhhhhhh..hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.......eeee.......hhhhhhhhhhhhhh...eeeee...hhhhhhhhhhhhh..eeeee...hhhhhhh..........eeeee....hhhhhhhhh.ee..hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c8f A   5 GVYTIAEVEAMTGLSAEVLRQWERRYGFPKPRRTPGGHRLYSAEDVEALKTIKRWLEEGATPKAAIRRYLAQEVRPEDLGTGLLEALLRGDLAGAEALFRRGLRFWGPEGVLEHLLLPVLREVGEAWHRGEIGVAEEHLASTFLRARLQELLDLAGFPPGPPVLVTTPPGERHEIGAMLAAYHLRRKGVPALYLGPDTPLPDLRALARRLGAGAVVLSAVLSEPLRALPDGALKDLAPRVFLGGQGAGPEEARRLGAEYMEDLKGLAEALWLPR 278
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5C8F)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5C8F)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5C8F)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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        Q746J7_THET2 | Q746J7: 3whp 5c8a 5c8d 5c8e

(-) Related Entries Specified in the PDB File

5c8a 5c8d 5c8e