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(-) Description

Title :  COMPLEX STRUCTURE OF THE GAP DOMAIN OF MGCRACGAP AND CDC42
 
Authors :  K. Murayama, M. Kato-Murayama, T. Hosaka, T. Kitamura, S. Yokoyama, M.
Date :  16 Jun 15  (Deposition) - 22 Jun 16  (Release) - 22 Jun 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Gtpase Activation, Complex, Small G-Protein, Hydrolase Activator- Signaling Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Murayama, M. Kato-Murayama, T. Hosaka, T. Kawashima, T. Kitamura, S. Yokoyama, M. Shirouzu
Structural Basis Of G-Protein Target Alternation Of Mgcracgap By Phospholylation
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - RAC GTPASE-ACTIVATING PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: KRX
    Expression System Taxid: 562
    Fragment: GAP DOMAIN, UNP RESIDUES 346-546
    Gene: RACGAP1, KIAA1478, MGCRACGAP
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: MALE GERM CELL RACGAP,MGCRACGAP,PROTEIN CYK4 HOMOLOG,HSCYK- 4
 
Molecule 2 - CELL DIVISION CONTROL PROTEIN 42 HOMOLOG
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: KRX
    Expression System Taxid: 562
    Gene: CDC42
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: G25K GTP-BINDING PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1AF31Ligand/IonALUMINUM FLUORIDE
2GDP1Ligand/IonGUANOSINE-5'-DIPHOSPHATE
3MG1Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR B:17 , THR B:35 , GDP B:501 , AF3 B:502 , HOH B:602 , HOH B:618binding site for residue MG B 500
2AC2SOFTWAREARG A:385 , ALA B:13 , VAL B:14 , GLY B:15 , LYS B:16 , THR B:17 , CYS B:18 , PHE B:28 , TYR B:32 , GLN B:116 , ASP B:118 , LEU B:119 , SER B:158 , ALA B:159 , LEU B:160 , MG B:500 , AF3 B:502 , HOH B:602 , HOH B:607 , HOH B:608 , HOH B:618 , HOH B:631binding site for residue GDP B 501
3AC3SOFTWAREARG A:385 , GLY B:12 , ALA B:13 , LYS B:16 , THR B:35 , GLY B:60 , GLN B:61 , MG B:500 , GDP B:501 , HOH B:602 , HOH B:613 , HOH B:618binding site for residue AF3 B 502

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1B:105 -B:188

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser A:359 -Pro A:360

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5C2J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5C2J)

(-) Exons   (0, 0)

(no "Exon" information available for 5C2J)

(-) 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:201
                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhh.......hhhhhhhhhhhhhh............hhhhhhhhhhhhhh............hhhhhhhhhhhhhh.........hhhhhhhhhh..hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c2j A 346 IGEGMLADFVSQTSPMIPSIVVHCVNEIEQRGLTETGLYRISGCDRTVKELKEKFLRVKTVPLLSKVDDIHAICSLLKDFLRNLKEPLLTFRLNRAFMEAAEITDEDNSIAAMYQAVGELPQANRDTLAFLMIHLQRVAQSPHTKMDVANLAKVFGPTIVAHAVPNPDPVTMSQDIKRQPKVVERLLSLPLEYWSQFMMVE 546
                                   355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545 


Chain B from PDB  Type:PROTEIN  Length:191
                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.....hhhhhhhhhhhh..........eeeeeeeeee..eeeeeeeeee..hhhhh.hhhhhh....eeeeeee..hhhhhhhhhhhhhhhhhhhh....eeeeeehhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh....eee.......hhhhhhhhhhhhhhh...hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c2j B   1 MQTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEPKKSRRCVLL 191
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 5C2J)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5C2J)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5C2J)

(-) Gene Ontology  (139, 153)

Asymmetric/Biological Unit(hide GO term definitions)

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    Ser A:359 - Pro A:360   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        CDC42_MOUSE | P60766: 1e0a 1gzs 3eg5
        RGAP1_HUMAN | Q9H0H5: 2ovj 3w6r 3wpq 3wps 4b6d 5c2k

(-) Related Entries Specified in the PDB File

5c2k