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Title :  CRYSTAL STRUCTURE OF GAF-B DOMAIN OF DEVS FROM MYCOBACTERIUM SMEGMATIS
 
Authors :  B. S. Kang, H. Y. Cho, H. J. Cho
Date :  25 Dec 07  (Deposition) - 26 Aug 08  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Gaf, Hypoxia Sensing, Histidine Kinase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. M. Lee, H. Y. Cho, H. J. Cho, I. J. Ko, S. W. Park, H. S. Baik, J. H. Oh, C. Y. Eom, Y. M. Kim, B. S. Kang, J. I. Oh
O2- And No-Sensing Mechanism Through The Devsr Two- Component System In Mycobacterium Smegmatis.
J. Bacteriol. V. 190 6795 2008
PubMed-ID: 18708494  |  Reference-DOI: 10.1128/JB.00401-08

(-) Compounds

Molecule 1 - GAF FAMILY PROTEIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGST-PARALLEL1
    Expression System StrainBL21
    Expression System Taxid511693
    FragmentRESIDUES 232-380
    Organism ScientificMYCOBACTERIUM SMEGMATIS
    Organism Taxid1772
    Other Details232-373 OF DEVS PROTEIN
    SynonymGAF-B

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2VKS)

(-) Sites  (0, 0)

(no "Site" information available for 2VKS)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2VKS)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:311 -Pro A:312

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2VKS)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2VKS)

(-) 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:137
 aligned with A0R2U9_MYCS2 | A0R2U9 from UniProtKB/TrEMBL  Length:571

    Alignment length:142
                                   241       251       261       271       281       291       301       311       321       331       341       351       361       371  
         A0R2U9_MYCS2   232 DPATVFRLVAAEALTLTGADGTLVAVPADPDASAAEELVIVEVAGAVPAEVEASAIPVQDNAIGQAFRDRAPRRLDVLDGPGLGGPALVLPLRATDTVAGVLVAVQGSGARPFTAEQLEMMTGFADQAAVAWQLASSQRRMS 373
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains GAF-2vksA01 A:232-363                                                                                                               ---------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh..eeeeeee.-----...eeeeeeeee..hhhhh..eee...hhhhhhhhhh..eee........eeeeeeeeee....eeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2vks A 232 DPATVFRLVAAEALTLTGADGTLVAVPA-----AAEELVIVEVAGAVPAEVEASAIPVQDNAIGQAFRDRAPRRLDVLDGPGLGGPALVLPLRATDTVAGVLVAVQGSGARPFTAEQLEMMTGFADQAAVAWQLASSQRRMS 373
                                   241       251       | -   |   271       281       291       301       311       321       331       341       351       361       371  
                                                     259   265                                                                                                            

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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 2VKS)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2VKS)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: GAF (44)

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (A0R2U9_MYCS2 | A0R2U9)
molecular function
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0000155    phosphorelay sensor kinase activity    Catalysis of the phosphorylation of a histidine residue in response to detection of an extracellular signal such as a chemical ligand or change in environment, to initiate a change in cell state or activity. The two-component sensor is a histidine kinase that autophosphorylates a histidine residue in its active site. The phosphate is then transferred to an aspartate residue in a downstream response regulator, to trigger a response.
    GO:0046983    protein dimerization activity    The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
    GO:0004673    protein histidine kinase activity    Catalysis of the reaction: ATP + protein L-histidine = ADP + protein phospho-L-histidine.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0070483    detection of hypoxia    The series of events in which a stimulus indicating lowered oxygen tension is received by a cell and converted into a molecular signal. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
    GO:0018106    peptidyl-histidine phosphorylation    The phosphorylation of peptidyl-histidine to form peptidyl-1'-phospho-L-histidine (otherwise known as tau-phosphohistidine, tele-phosphohistidine) or peptidyl-3'-phospho-L-histidine (otherwise known as pi-phosphohistidine, pros-phosphohistidine).
    GO:0000160    phosphorelay signal transduction system    A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0046777    protein autophosphorylation    The phosphorylation by a protein of one or more of its own amino acid residues (cis-autophosphorylation), or residues on an identical protein (trans-autophosphorylation).
    GO:0023014    signal transduction by protein phosphorylation    A process in which the transfer of one or more phosphate groups to a substrate transmits a signal to the phosphorylated substrate.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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  Cis Peptide Bonds
    Gly A:311 - Pro A:312   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/TrEMBL
        A0R2U9_MYCS2 | A0R2U92vjw

(-) Related Entries Specified in the PDB File

2vjw CRYSTAL STRUCTURE OF THE SECOND GAF DOMAIN OF DEVS FROM MYCOBACTERIUM SMEGMATIS