1GH6 Antitumor Protein date Nov 15, 2000
title Retinoblastoma Pocket Complexed With Sv40 Large T Antigen
authors H.Y.Kim, Y.Cho
compound source
Molecule: Large T Antigen
Chain: A
Synonym: Lt-Ag
Ec: 3.6.4.-
Engineered: Yes
Organism_scientific: Simian Virus 40
Organism_common: Sv40
Organism_taxid: 1891767
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15

Molecule: Retinoblastoma-Associated Protein
Chain: B
Fragment: Unp Residues 379-577 And 645-772
Synonym: P105-Rb,Prb,Rb,Pp110,P105-Rb,Prb,Rb,Pp110
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
symmetry Space Group: I 4
R_factor 0.248 R_Free 0.314
crystal
cell
length a length b length c angle alpha angle beta angle gamma
127.130 127.130 96.190 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
ligand
enzyme Hydrolase E.C.3.6.4 BRENDA
note 1GH6 (Molecule of the Month:pdb47)
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceStructural basis for the inactivation of retinoblastoma tumor suppressor by SV40 large T antigen., Kim HY, Ahn BY, Cho Y, EMBO J 2001 Jan 15;20(1-2):295-304. PMID:11226179
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (1gh6.pdb1.gz) 74 Kb
  • CSU: Contacts of Structural Units for 1GH6
  • Likely Quarternary Molecular Structure file(s) for 1GH6
  • Retrieve 1GH6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GH6 from S2C, [Save to disk]
  • View 1GH6 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1GH6
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1GH6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gh6a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1gh6b1, region B:379-583 [Jmol] [rasmolscript] [script source]
        - Domain d1gh6b2, region B:645-772 [Jmol] [rasmolscript] [script source]
  • Fold representative 1gh6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1gh6_B] [1gh6_A] [1gh6]
  • SWISS-PROT database: [P03070] [P06400]
  • Domain organization of [LT_SV40] [RB_HUMAN] by SWISSPFAM
  • Domains found in 1GH6: [CYCLIN] [DnaJ] [RB_A ] by SMART
  • Other resources with information on 1GH6
  • Community annotation for 1GH6 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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