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(-) Description

Title :  CRYSTAL STRUCTURE OF THE GTP-BINDING PROTEIN YSXC COMPLEXED WITH GDP
 
Authors :  S. N. Ruzheinikov, S. K. Das, S. E. Sedelnikova, P. J. Baker, P. J. Artymiuk, J. Garcia-Lara, S. J. Foster, D. W. Rice
Date :  29 Mar 04  (Deposition) - 25 May 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym./Biol. Unit :  A
Keywords :  Ysxc, Engb, Gtpase, Gtp-Binding Protein, Gdp, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. N. Ruzheinikov, S. K. Das, S. E. Sedelnikova, P. J. Baker, P. J. Artymiuk, J. Garcia-Lara, S. J. Foster, D. W. Rice
Analysis Of The Open And Closed Conformations Of The Gtp-Binding Protein Ysxc From Bacillus Subtilis.
J. Mol. Biol. V. 339 265 2004
PubMed-ID: 15136032  |  Reference-DOI: 10.1016/J.JMB.2004.03.043
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - GTP-BINDING PROTEIN YSXC
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: YSXC, ENGB, BSU28190
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:33 , VAL A:34 , GLY A:35 , LYS A:36 , SER A:37 , SER A:38 , THR A:142 , LYS A:143 , ASP A:145 , LYS A:146 , SER A:175 , SER A:176 , HOH A:409 , HOH A:412 , HOH A:414 , HOH A:546 , HOH A:565BINDING SITE FOR RESIDUE GDP A 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1SVI)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1G_ENGBPS51706 EngB-type guanine nucleotide-binding (G) domain profile.ENGB_BACSU22-195  1A:22-195

(-) Exons   (0, 0)

(no "Exon" information available for 1SVI)

(-) 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:182
 aligned with ENGB_BACSU | P38424 from UniProtKB/Swiss-Prot  Length:195

    Alignment length:195
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190     
           ENGB_BACSU     1 MKVTKSEIVISAVKPEQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMINR 195
               SCOP domains d1svia_ A: Probable GTPase EngB                                                                                                                                                                     SCOP domains
               CATH domains 1sviA00 A:1-195 P-loop containing nucleotide t             riphosphate hydrolases                                                                                                                   CATH domains
               Pfam domains ------------------------MMR_HSR1-1sviA01 A:25-             143                                                                                 ---------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee.hhhhh......eeeeee....hhhhhhhhhhh.-------------..eeeeee...eeeee.........hhhhhhhhhhhhhhhhhhh..eeeeeeeee.....hhhhhhhhhhhhhh...eeeeeehhhhhhhhhhhhhhhhhhhhhh.....eeee.......hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------G_ENGB  PDB: A:22-195 UniProt: 22-195                                                                                                                                          PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1svi A   1 MKVTKSEIVISAVKPEQYPEGGLPEIALAGRSNVGKSSFINSLINR-------------QTLNFYIINDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMINR 195
                                    10        20        30        40     |   -        60        70        80        90       100       110       120       130       140       150       160       170       180       190     
                                                                        46            60
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 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: P-loop_NTPase (1112)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (ENGB_BACSU | P38424)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    GO:0003924    GTPase activity    Catalysis of the reaction: GTP + H2O = GDP + phosphate.
    GO:0000287    magnesium ion binding    Interacting selectively and non-covalently with magnesium (Mg) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0051301    cell division    The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.

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  1svi
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 Related Entries

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

UniProtKB/Swiss-Prot
        ENGB_BACSU | P38424: 1sul 1svw

(-) Related Entries Specified in the PDB File

1sul CRYSTAL STRUCTURE OF THE APO-YSXC
1svw CRYSTAL STRUCTURE OF YSXC COMPLEXED WITH GMPPNP