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(-) Description

Title :  CRYSTAL STRUCTURE OF ARL1-GTP AND DCB DOMAIN OF BIG1 COMPLEX
 
Authors :  R. Wang, Z. Wang, T. Zhang, J. Ding
Date :  02 Apr 16  (Deposition) - 28 Sep 16  (Release) - 28 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.40
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Small Gtpase, Effector, Gef, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Wang, Z. Wang, K. Wang, T. Zhang, J. Ding
Structural Basis For Targeting Big1 To Golgi Apparatus Through Interaction Of Its Dcb Domain With Arl1
J Mol Cell Biol 2016
PubMed-ID: 27436755  |  Reference-DOI: 10.1093/JMCB/MJW033

(-) Compounds

Molecule 1 - ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Strain: BL21(DE3) CODON PLUS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: SMALL GTPASE, UNP RESIDUES 16-181
    Gene: ARL1
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
 
Molecule 2 - BREFELDIN A-INHIBITED GUANINE NUCLEOTIDE-EXCHANGE PROTEIN 1
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETDUET
    Expression System Strain: BL21(DE3) CODON PLUS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: DCB DOMAIN, UNP RESIDUES 1-224
    Gene: ARFGEF1, ARFGEP1, BIG1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BREFELDIN A-INHIBITED GEP 1,ADP-RIBOSYLATION FACTOR GUANINE NUCLEOTIDE-EXCHANGE FACTOR 1,P200 ARF GUANINE NUCLEOTIDE EXCHANGE FACTOR,P200 ARF-GEP1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric/Biological Unit (3, 4)
No.NameCountTypeFull Name
1GTP1Ligand/IonGUANOSINE-5'-TRIPHOSPHATE
2MG1Ligand/IonMAGNESIUM ION
3SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:31 , ILE A:46 , THR A:48 , GTP A:204binding site for residue MG A 201
2AC2SOFTWARETHR A:135 , SER A:136 , SER A:137 , LYS A:157binding site for residue SO4 A 202
3AC3SOFTWAREGLU A:17 , GLN A:64 , LEU B:149 , ASN B:187 , ILE B:189 , ASN B:190binding site for residue SO4 A 203
4AC4SOFTWARELEU A:25 , ASP A:26 , GLY A:27 , ALA A:28 , GLY A:29 , LYS A:30 , THR A:31 , THR A:32 , THR A:45 , PRO A:47 , THR A:48 , GLY A:70 , LEU A:71 , ASN A:126 , LYS A:127 , ASP A:129 , MET A:130 , SER A:159 , ALA A:160 , THR A:161 , MG A:201binding site for residue GTP A 204

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5J5C)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5J5C)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5J5C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5J5C)

(-) Exons   (0, 0)

(no "Exon" information available for 5J5C)

(-) 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:165
                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....hhhhhhhhhhhh..........eeeeeeee..eeeeeeee..hhhhhhhhhhhh....eeeeeee.....hhhhhhhhhhhhhhhhhhh..eeeeeee........hhhhhhhhhhhhhh....eeeeee......hhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5j5c A  17 EMRILILGLDGAGKTTILYRLQVGEVVTTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSRQ 181
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176     


Chain B from PDB  Type:PROTEIN  Length:194
                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5j5c B  14 RALEKILADKEVKKAHHSQLRKACEVALEEIKAETETLPPVKSKTNFIEADKYFLPFELACQSKCPRIVSTSLDCLQKLIAYGHLTGNAPDSTTPGKKLIDRIIETICGCFQGPQTDEGVQLQIIKALLTAVTSQHIEIHEGTVLQAVRTCYNIYLASKNLINQTTAKATLTQMLNVIFARMENQALQEAKQME 221
                                    23        33        43     || 67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217    
                                                              49|                                                                                                                                                             
                                                               64
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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  (0, 0)

(no "SCOP Domain" information available for 5J5C)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5J5C)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5J5C)

(-) Gene Ontology  (47, 54)

Asymmetric/Biological Unit(hide GO term definitions)

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  BIG1_HUMAN | Q9Y6D6
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 Related Entries

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

UniProtKB/Swiss-Prot
        ARL1_HUMAN | P40616: 1upt 4dcn 5ee5
        BIG1_HUMAN | Q9Y6D6: 3ltl 5ee5

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5J5C)