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(-) Description

Title :  ZN2+-BOUND FCD DOMAIN OF TM0439, A PUTATIVE TRANSCRIPTIONAL REGULATOR
 
Authors :  G. P. Czelakowski, Z. S. Derewenda, Integrated Center For Structur Function Innovation (Isfi)
Date :  15 Jul 11  (Deposition) - 16 Nov 11  (Release) - 16 Nov 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.63
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transcription Factor, Transcription, Metal-Binding, Structural Genomics, Psi-2, Protein Structure Initiative, Integrated Center For Structure And Function Innovation, Isfi, Fadr-C, Fadr, Gntr, Transcriptional Regulator, Transcription Repressor, Zinc-Binding, Nickel-Binding, Dna-Binding, Surface Entropy Reduction, Transcription Regulator (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. P. Czelakowski, Z. S. Derewenda
Zn2+-Bound Fcd Domain Of Tm0439, A Putative Transcriptional Regulator
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR, GNTR FAMILY
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: SEQUENCE DATABASE RESIDUES 75-211
    Gene: TM_0439
    Mutation: YES
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336
    Strain: MSB8 / DSM 3109 / JCM 10099

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric/Biological Unit (3, 8)
No.NameCountTypeFull Name
1BCT2Ligand/IonBICARBONATE ION
2SO42Ligand/IonSULFATE ION
3ZN4Ligand/IonZINC ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREZN A:4 , HOH A:19 , ARG A:86 , ASP A:130 , HIS A:134 , ARG A:161 , HIS A:174 , HIS A:196 , VAL A:200BINDING SITE FOR RESIDUE SO4 A 1
2AC2SOFTWARESO4 A:1 , ASP A:130 , HIS A:134 , HIS A:174 , HIS A:196BINDING SITE FOR RESIDUE ZN A 4
3AC3SOFTWAREASP A:127 , HIS A:162 , HOH A:220 , HOH A:268BINDING SITE FOR RESIDUE ZN A 6
4AC4SOFTWARESER A:104 , GLU A:105 , GLU A:106BINDING SITE FOR RESIDUE BCT A 212
5AC5SOFTWAREZN B:3 , HOH B:13 , ARG B:86 , ASP B:130 , HIS B:134 , ARG B:161 , HIS B:174 , HIS B:196 , VAL B:200BINDING SITE FOR RESIDUE SO4 B 2
6AC6SOFTWARESO4 B:2 , ASP B:130 , HIS B:134 , HIS B:174 , HIS B:196BINDING SITE FOR RESIDUE ZN B 3
7AC7SOFTWAREASP B:127 , HIS B:162 , HOH B:242 , HOH B:271BINDING SITE FOR RESIDUE ZN B 5
8AC8SOFTWAREGLU B:105 , GLU B:106BINDING SITE FOR RESIDUE BCT B 212

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3SXK)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3SXK)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SXK)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SXK)

(-) Exons   (0, 0)

(no "Exon" information available for 3SXK)

(-) Sequences/Alignments

Asymmetric/Biological 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:140
 aligned with Q9WYS0_THEMA | Q9WYS0 from UniProtKB/TrEMBL  Length:214

    Alignment length:140
                                    81        91       101       111       121       131       141       151       161       171       181       191       201       211
         Q9WYS0_THEMA    72 TDVDEKFIRETIETRIMMEVFCLENYFDKIAGSEELLEIKGEIDDVEKSAKREIFDDSDERLHKLFIRASGNELIISLYEKIWDRIDLVRHLNERYVVSNREHKELIERIISGDKEGAIEKLKEHLKNVEAETIKNLYTY 211
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sxk A  72 GAMDEKFIRETIETRIMMEVFCLENYFDKIAGSEELLEIKGEIDDVAASAAREIFDDSDERLHKLFIRASGNELIISLYEKIWDRIDLVRHLNERYVVSNREHKELIERIISGDKEGAIEKLKEHLKNVEAETIKNLYTY 211
                                    81        91       101       111       121       131       141       151       161       171       181       191       201       211


Chain B from PDB  Type:PROTEIN  Length:138
 aligned with Q9WYS0_THEMA | Q9WYS0 from UniProtKB/TrEMBL  Length:214

    Alignment length:140
                                    81        91       101       111       121       131       141       151       161       171       181       191       201       211
         Q9WYS0_THEMA    72 TDVDEKFIRETIETRIMMEVFCLENYFDKIAGSEELLEIKGEIDDVEKSAKREIFDDSDERLHKLFIRASGNELIISLYEKIWDRIDLVRHLNERYVVSNREHKELIERIISGDKEGAIEKLKEHLKNVEAETIKNLYTY 211
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..--....hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3sxk B  72 GAMDEKFIRETIETRIMMEVFCLENYFDKIAGSEELLEIKGEIDDVA--AAREIFDDSDERLHKLFIRASGNELIISLYEKIWDRIDLVRHLNERYVVSNREHKELIERIISGDKEGAIEKLKEHLKNVEAETIKNLYTY 211
                                    81        91       101       111      |121       131       141       151       161       171       181       191       201       211
                                                                        118  |                                                                                          
                                                                           121
   Legend:   → Mismatch (orange background)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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 3SXK)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3SXK)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SXK)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q9WYS0_THEMA | Q9WYS0)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0003700    transcription factor activity, sequence-specific DNA binding    Interacting selectively and non-covalently with a specific DNA sequence in order to modulate transcription. The transcription factor may or may not also interact selectively with a protein or macromolecular complex.
biological process
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q9WYS0_THEMA | Q9WYS0: 3fms 3sxm 3sxy 3sxz

(-) Related Entries Specified in the PDB File

3fms FULL-LENGTH NI2+-BOUND STRUCTURE OF TM0439, A FCD FAMILY TRANSCRIPTIONAL REGULATOR
3sxm METAL-FREE FCD DOMAIN OF TM0439 A PUTATIVE TRANSCRIPTIONAL REGULATOR (SER MUTATION E118A, K119A, K122A)
3sxy FULL-LENGTH METAL-FREE STRUCTURE OF TM0439, A FCD FAMILY TRANSCRIPTIONAL REGULATOR
3sxz RELATED ID: ISFI335 RELATED DB: TARGETDB