6S53 Ligase date Jun 30, 2019
title Crystal Structure Of Trim21 Ring Domain In Complex With An I Linked Ube2n~Ubiquitin Conjugate
authors L.Kiss, A.Boland, D.Neuhaus, L.C.James
compound source
Molecule: Ubiquitin-Conjugating Enzyme E2 N
Chain: E, C, K, I
Synonym: Bendless-Like Ubiquitin-Conjugating Enzyme,E2 Ubiq Conjugating Enzyme N,Ubc13,Ubch13,Ubiquitin Carrier Protein Ubiquitin-Protein Ligase N;
Ec: 2.3.2.23
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ube2n, Blu
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693

Molecule: Polyubiquitin-C
Chain: F, D, L, J
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ubc
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_variant: Rosetta 2

Molecule: E3 Ubiquitin-Protein Ligase Trim21
Chain: B, A, H, G
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
symmetry Space Group: P 1
R_factor 0.209 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
49.750 83.310 86.750 89.90 89.05 88.70
method X-Ray Diffractionresolution 2.80 Å
ligand MPD, ZN enzyme Transferase E.C.2.3.2.23 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B, H, G


K, E, C, I


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (197 Kb) [Save to disk]
  • Biological Unit Coordinates (6s53.pdb1.gz) 98 Kb
  • Biological Unit Coordinates (6s53.pdb2.gz) 96 Kb
  • LPC: Ligand-Protein Contacts for 6S53
  • CSU: Contacts of Structural Units for 6S53
  • Structure Factors (942 Kb)
  • Retrieve 6S53 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6S53 from S2C, [Save to disk]
    • View 6S53 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 6S53
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6s53_F] [6s53_E] [6s53_H] [6s53_D] [6s53_B] [6s53_C] [6s53_G] [6s53_J] [6s53_A] [6s53_K] [6s53_I] [6s53_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6S53
  • Community annotation for 6S53 at PDBWiki (http://pdbwiki.org)

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