6FGA Ligase date Jan 10, 2018
title Crystal Structure Of Trim21 E3 Ligase, Ring Domain In Comple Cognate E2 Conjugating Enzyme Ube2e1
authors M.Anandapadamanaban, M.Moche, M.Sunnerhagen
compound source
Molecule: E3 Ubiquitin-Protein Ligase Trim21
Chain: A, B, C, D, E, F, G, H
Synonym: 52 Kda Ro Protein,52 Kda Ribonucleoprotein Autoant Ross-A,Ring Finger Protein 81,Ring-Type E3 Ubiquitin Trans Trim21,Ro(Ss-A),Sjoegren Syndrome Type A Antigen,Ss-A,Tripa Motif-Containing Protein 21;
Ec: 2.3.2.27
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Trim21, Rnf81, Ro52, Ssa1
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_variant: Ros-2

Molecule: Ubiquitin-Conjugating Enzyme E2 E1
Chain: I, J, K, L, M, N, O
Synonym: (E3-Independent) E2 Ubiquitin-Conjugating Enzyme E Ubiquitin-Conjugating Enzyme E1,Ubch6,Ubiquitin Carrier Pro Ubiquitin-Protein Ligase E1;
Ec: 2.3.2.23,2.3.2.24
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ube2e1, Ubch6
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_variant: Ros-2
symmetry Space Group: C 1 2 1
R_factor 0.253 R_Free 0.294
crystal
cell
length a length b length c angle alpha angle beta angle gamma
103.835 95.871 235.097 90.00 93.15 90.00
method X-Ray Diffractionresolution 2.82 Å
ligand GOL, ZN enzyme Transferase E.C.2.3.2.27 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Primary referenceE3 ubiquitin-protein ligase TRIM21-mediated lysine capture by UBE2E1 reveals substrate-targeting mode of a ubiquitin-conjugating E2., Anandapadamanaban M, Kyriakidis NC, Csizmok V, Wallenhammar A, Espinosa AC, Ahlner A, Round AR, Trewhella J, Moche M, Wahren-Herlenius M, Sunnerhagen M, J Biol Chem. 2019 Jun 3. pii: RA119.008485. doi: 10.1074/jbc.RA119.008485. PMID:31160341
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (279 Kb) [Save to disk]
  • Biological Unit Coordinates (6fga.pdb1.gz) 78 Kb
  • Biological Unit Coordinates (6fga.pdb2.gz) 77 Kb
  • Biological Unit Coordinates (6fga.pdb3.gz) 77 Kb
  • Biological Unit Coordinates (6fga.pdb4.gz) 54 Kb
  • LPC: Ligand-Protein Contacts for 6FGA
  • CSU: Contacts of Structural Units for 6FGA
  • Structure Factors (1091 Kb)
  • Retrieve 6FGA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6FGA from S2C, [Save to disk]
  • View 6FGA 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 6FGA
  • 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
  • Fold representative 6fga from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6fga_J] [6fga_O] [6fga_L] [6fga_B] [6fga_K] [6fga_F] [6fga_D] [6fga_A] [6fga_E] [6fga_N] [6fga_C] [6fga_I] [6fga_G] [6fga_M] [6fga_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6FGA
  • Community annotation for 6FGA at PDBWiki (http://pdbwiki.org)

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