POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

crystal structure of human Atlastin-1 (residues 1-447) bound to GDP, crystal form 2
Biology and Chemistry Report
3Q5E
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE
    Text G protein, GTPase, GDP/GTP binding, HYDROLASE

    Polymeric Molecules

    Chain A,C,E,G
    Description Atlastin-1 
    Fragment G and middle domain, UNP residues 1-447 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 51318.7 
    Source Method genetically manipulated  
    Entity Name Brain-specific GTP-binding protein, GTP-binding protein 3, GBP-3, hGBP3, Guanine nucleotide-binding protein 3, Spastic paraplegia 3 protein A 

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    GDP  GUANOSINE-5'-DIPHOSPHATE  C10 H15 N5 O11 P2   443.20  View 
    MG  MAGNESIUM ION  Mg   24.31  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A,C,E,G ATLA1_HUMAN A6NND5     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc
    A C E G  3.6.5      
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A,C,E,G
    GO ID   Ontology GO Term Definition
    3924   Gtpase Activity  Catalysis of the Reaction: GTP + H2o = GDP + Phosphate. 
    5525   GTP Binding  Interacting Selectively and Non Covalently with GTP Guanosine Triphosphate. 


     
  •   Gene Details   Hide

    Genetic Source

    Chain A,C,E,G
    Common Name Human
    Scientific Name Homo sapiens  
    Gene atl1, gbp3, spg3a
    Host Scientific Name Escherichia coli  
    Host Strain Bl21de3
    Host Vector Type Plasmid
    Host Plasmid Name pET28a


    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    14 14q22.1 51062     atlastin GTPase 1 ATL1    

    Single Nucleotide Polymorphisms (from LS-SNP database)

    SNP ID LsSnp Link dbSNP Link Chain PDB position Amino acid changes Secondary structure Solvent Accessibility Chromosome Chromosome position Ligand
    rs17850684 LS-SNP   dbSNP   A 43 D - > E Turn 63% (Exposed) 14 51054643
    rs149901427 LS-SNP   dbSNP   A 55 R - > W Helix 87% (Exposed) 14 51054677
    rs200314808 LS-SNP   dbSNP   A 66 E - > Q Beta 29% (Intermediate) 14 51054710
    rs182963739 LS-SNP   dbSNP   A 75 A - > T Coil 26% (Intermediate) 14 51054737 GDP
    rs145204580 LS-SNP   dbSNP   A 102 D - > E Coil 64% (Exposed) 14 51057682
    rs112496709 LS-SNP   dbSNP   A 108 T - > A Coil 75% (Exposed) 14 51057698
    rs149031604 LS-SNP   dbSNP   A 147 T - > I Beta Ladder 2% (Buried) 14 51058275
    rs137852657 LS-SNP   dbSNP   A 156 T - > I Helix 35% (Intermediate) 14 51058302
    rs119476051 LS-SNP   dbSNP   A 157 L - > W Helix 27% (Intermediate) 14 51058305
    rs17850683 LS-SNP   dbSNP   A 193 F - > C Helix 1% (Buried) 14 51062298
    rs147839037 LS-SNP   dbSNP   A 208 P - > S Bend 17% (Intermediate) 14 51062342
    rs119476049 LS-SNP   dbSNP   A 217 R - > Q Beta Ladder 4% (Buried) 14 51079996 GDP
    rs119476046 LS-SNP   dbSNP   A 239 R - > C Helix 22% (Intermediate) 14 51080061
    rs119476048 LS-SNP   dbSNP   A 258 H - > R Helix 37% (Exposed) 14 51081140
    rs119476047 LS-SNP   dbSNP   A 259 S - > Y Helix 1% (Buried) 14 51081143
    rs145745189 LS-SNP   dbSNP   A 265 S - > F Beta Ladder 5% (Buried) 14 51081161
    rs75554510 LS-SNP   dbSNP   A 272 P - > H Coil 10% (Intermediate) 14 51081182 GDP
    rs113993376 LS-SNP   dbSNP   A 274 L - > S Helix 74% (Exposed) 14 51081188
    rs185344018 LS-SNP   dbSNP   A 282 F - > V Coil 18% (Intermediate) 14 51081211 GDP
    rs199780752 LS-SNP   dbSNP   A 314 E - > Q Beta Ladder 36% (Exposed) 14 51087394
    rs138807792 LS-SNP   dbSNP   A 366 T - > I Helix 29% (Intermediate) 14 51089944
    rs148203226 LS-SNP   dbSNP   A 397 E - > K Helix 34% (Intermediate) 14 51094818
    rs201240362 LS-SNP   dbSNP   A 405 V - > M Bend 18% (Intermediate) 14 51094842
    rs28939094 LS-SNP   dbSNP   A 408 M - > V Bend 3% (Buried) 14 51094851
    rs119476050 LS-SNP   dbSNP   A 415 R - > W Helix 58% (Exposed) 14 51094872
    rs143038913 LS-SNP   dbSNP   A 420 Q - > R Helix 27% (Intermediate) 14 51094888