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(-) Description

Title :  CRYSTAL STRUCTURE OF TRANSCRIPTIONAL REGULATOR (TM1602) FROM THERMOTOGA MARITIMA AT 2.3 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  05 Jul 02  (Deposition) - 31 Jul 02  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (4x)
Keywords :  Structural Genomics, Tm1602, Transcriptional Regulator, Biotin Repressor Family, Jcsg, Conserved Hypothetical Protein, Psi, Protein Structure Initiative, Joint Center For Structural Genomics, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Weekes, M. D. Miller, S. S. Krishna, D. Mcmullan, T. M. Mcphillips, C. Acosta, J. M. Canaves, M. A. Elsliger, R. Floyd, S. K. Grzechnik, L. Jaroszewski, H. E. Klock, E. Koesema, J. S. Kovarik, A. Kreusch, A. T. Morse, K. Quijano, G. Spraggon, H. Van Den Bedem, G. Wolf, K. O. Hodgson, J. Wooley, A. M. Deacon, A. Godzik, S. A. Lesley, I. A. Wilson
Crystal Structure Of A Transcription Regulator (Tm1602) Fro Thermotoga Maritima At 2. 3 A Resolution.
Proteins V. 67 247 2007
PubMed-ID: 17256761  |  Reference-DOI: 10.1002/PROT.21221

(-) Compounds

Molecule 1 - TRANSCRIPTIONAL REGULATOR, BIOTIN REPRESSOR FAMILY
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: TM1602
    Organism Scientific: THERMOTOGA MARITIMA
    Organism Taxid: 2336

 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, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1K1Ligand/IonPOTASSIUM ION
2MSE5Mod. Amino AcidSELENOMETHIONINE
3NI1Ligand/IonNICKEL (II) ION
Biological Unit 1 (1, 5)
No.NameCountTypeFull Name
1K-1Ligand/IonPOTASSIUM ION
2MSE5Mod. Amino AcidSELENOMETHIONINE
3NI-1Ligand/IonNICKEL (II) ION
Biological Unit 2 (1, 20)
No.NameCountTypeFull Name
1K-1Ligand/IonPOTASSIUM ION
2MSE20Mod. Amino AcidSELENOMETHIONINE
3NI-1Ligand/IonNICKEL (II) ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:79 , GLU A:87 , HIS A:146 , HIS A:148 , HOH A:241BINDING SITE FOR RESIDUE NI A 201
2AC2SOFTWARELEU A:18 , GLU A:19 , SER A:21 , LEU A:64 , GLY A:66 , HOH A:223BINDING SITE FOR RESIDUE K A 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1J5Y)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1J5Y)

 Sequence-Structure Mapping

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(-) Exons   (0, 0)

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(-) 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:172
 aligned with NIAR_THEMA | Q9X1T8 from UniProtKB/Swiss-Prot  Length:175

    Alignment length:172
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172  
           NIAR_THEMA     3 MKTVRQERLKSIVRILERSKEPVSGAQLAEELSVSRQVIVQDIAYLRSLGYNIVATPRGYVLAGGKSGVSRLVAVKHAPEEIKEELLCVVRNGGRIVDVIVEHPVYGEIRGIIDVSSEEEVLKFVNLMEMAKTEPLLTLSGGVHLHTIEAPDEETMERIMRELKKKGFLIEE 174
               SCOP domains d1j5ya1 A:3-67                                                   d1j5ya2 A:68-174 Putative transcriptional regulator TM1602, C-terminal domain                               SCOP domains
               CATH domains -1j5yA01 A:4-67 'winged helix' repressor DNA binding domain      1j5yA02 A:68-174 Putative transcriptional regulator TM1602, C-terminal domain                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhhh...eee..eee.......eeeeeeee.hhhhhhhhhhhhhhh..eeeeeeeee...eeeeeeeee.hhhhhhhhhhhhhhh......hhhh.eeeeeeee.hhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1j5y A   3 mKTVRQERLKSIVRILERSKEPVSGAQLAEELSVSRQVIVQDIAYLRSLGYNIVATPRGYVLAGGKSGVSRLVAVKHAPEEIKEELLCVVRNGGRIVDVIVEHPVYGEIRGIIDVSSEEEVLKFVNLmEmAKTEPLLTLSGGVHLHTIEAPDEETmERImRELKKKGFLIEE 174
                            |       12        22        32        42        52        62        72        82        92       102       112       122       132       142       152     | 162       172  
                            |                                                                                                                            130-MSE                     158-MSE            
                            3-MSE                                                                                                                          132-MSE                       162-MSE
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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  (2, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (2, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1J5Y)

(-) Gene Ontology  (5, 5)

Asymmetric Unit(hide GO term definitions)
Chain A   (NIAR_THEMA | Q9X1T8)
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:0036094    small molecule binding    Interacting selectively and non-covalently with a small molecule, any low molecular weight, monomeric, non-encoded molecule.
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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