5NIG Immune System date Mar 24, 2017
title Crystal Structure Of Hla-Drb104:01 With Modified Alpha-Enol Peptide 326-340 (Arginine 327 To Citrulline)
authors C.Gerstner, A.Dubnovitsky
compound source
Molecule: Hla Class II Histocompatibility Antigen, Dr Alpha
Chain: A
Synonym: Mhc Class II Antigen Dra
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Dra, Hla-Dra1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Hla Class II Histocompatibility Antigen, Drb1-4 B
Chain: B
Synonym: Mhc Class II Antigen Drb14,Dr4
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-Drb1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Alpha-Enolase
Chain: C
Fragment: Unp Residues 326-340
Synonym: 2-Phospho-D-Glycerate Hydro-Lyase,C-Myc Promoter-B Protein,Enolase 1,Mbp-1,Mpb-1,Non-Neural Enolase,Nne,Phosph Hydratase,Plasminogen-Binding Protein;
Ec: 4.2.1.11
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 2
R_factor 0.142 R_Free 0.181
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.606 128.319 53.521 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.35 Å
ligand CIR, MPD, PGE, URE enzyme Lyase E.C.4.2.1.11 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceMemory T cells specific to citrullinated alpha-enolase are enriched in the rheumatic joint., Pieper J, Dubnovitsky A, Gerstner C, James EA, Rieck M, Kozhukh G, Tandre K, Pellegrino S, Gebe JA, Ronnblom L, Sandalova T, Kwok WW, Klareskog L, Buckner JH, Achour A, Malmstrom V, J Autoimmun. 2018 May 28. pii: S0896-8411(18)30128-8. doi:, 10.1016/j.jaut.2018.04.004. PMID:29853344
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (160 Kb) [Save to disk]
  • Biological Unit Coordinates (5nig.pdb1.gz) 155 Kb
  • LPC: Ligand-Protein Contacts for 5NIG
  • CSU: Contacts of Structural Units for 5NIG
  • Structure Factors (672 Kb)
  • Retrieve 5NIG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5NIG from S2C, [Save to disk]
  • View 5NIG 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 5NIG
  • 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 5nig from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5nig_B] [5nig_A] [5nig_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5NIG
  • Community annotation for 5NIG at PDBWiki (http://pdbwiki.org)

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