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(-) Description

Title :  CRYSTAL STRUCTURE OF PLASMODIUM FALCIPARUM RAB6 COMPLEXED WITH GDP
 
Authors :  D. Chattopadhyay, G. Langsley, M. Carson, R. Recacha, L. Delucas, C. Smith
Date :  06 Oct 99  (Deposition) - 30 Aug 00  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  G-Protein, Gtpase, Rab, Rab6, Vesicular Trafficking, Endocytosis/Exocytosis Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Chattopadhyay, G. Langsley, M. Carson, R. Recacha, L. Delucas, C. Smith
Structure Of The Nucleotide-Binding Domain Of Plasmodium Falciparum Rab6 In The Gdp-Bound Form.
Acta Crystallogr. , Sect. D V. 56 937 2000
PubMed-ID: 10944329  |  Reference-DOI: 10.1107/S0907444900007575
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RAB6 GTPASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21
    Expression System Taxid: 562
    Organism Common: MALARIA PARASITE P. FALCIPARUM
    Organism Scientific: PLASMODIUM FALCIPARUM
    Organism Taxid: 5833

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
2MG1Ligand/IonMAGNESIUM ION
3MSE3Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:25 , GDP A:201 , HOH A:350 , HOH A:351 , HOH A:352 , HOH A:353BINDING SITE FOR RESIDUE MG A 300
2AC2SOFTWAREGLN A:20 , ALA A:21 , VAL A:22 , GLY A:23 , LYS A:24 , THR A:25 , SER A:26 , PHE A:36 , TYR A:40 , SER A:42 , ASN A:124 , LYS A:125 , ASP A:127 , SER A:154 , ALA A:155 , LYS A:156 , MG A:300 , HOH A:326 , HOH A:332 , HOH A:344 , HOH A:350 , HOH A:351 , HOH A:352BINDING SITE FOR RESIDUE GDP A 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1D5C)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1D5C)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1D5C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1D5C)

(-) Exons   (0, 0)

(no "Exon" information available for 1D5C)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:162
 aligned with Q26000_PLAFA | Q26000 from UniProtKB/TrEMBL  Length:207

    Alignment length:162
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170  
         Q26000_PLAFA    11 KYKLVFLGEQAVGKTSIITRFMYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKTASKL 172
               SCOP domains d1d5ca_ A: Rab6                                                                                                                                                    SCOP domains
               CATH domains 1d5cA00 A:11-172 P-loop containing nucleotide triphosphate hydrolases                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee.....hhhhhhhhhhhh............eeeeeeeee..eeeeeeeee...hhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhhhhhhhh...eeeeeeehhhhhhhh..hhhhhhhhhhhh..eeee........hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1d5c A  11 KYKLVFLGEQAVGKTSIITRFmYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGmQKAQEYNTmFHETSAKAGHNIKVLFKKTASKL 172
                                    20        30 |      40        50        60        70        80        90       100       110       120       130       140       150       160       170  
                                                32-MSE                                                                                                     140-MSE  149-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  (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  (0, 0)

(no "Pfam Domain" information available for 1D5C)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q26000_PLAFA | Q26000)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
biological process
    GO:0007264    small GTPase mediated signal transduction    Any series of molecular signals in which a small monomeric GTPase relays one or more of the signals.
cellular component
    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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