OCA Atlas for 3MV8

3MV8

Immune System

date

May 03, 2010

title

Crystal Structure Of The Tk3-Gln55his Tcr In Complex With Hl B3501hpvg

authors

S.Gras, Z.Chen, J.J.Miles, Y.C.Liu, M.J.Bell, L.C.Sullivan, L.Kjer R.M.Brennan, J.M.Burrows, M.A.Neller, R.Khanna, A.W.Purcell, A.G J.Mccluskey, J.Rossjohn, S.R.Burrows

compound

source

Molecule: Hla Class I Histocompatibility Antigen, B-35 Alph
Chain: A
Fragment: Extracellular Domain
Synonym: Hla B3501 Heavy Chain, Mhc Class I Antigen B35
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla-B, Hlab
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Beta-2-Microglobulin
Chain: B
Synonym: Beta-2-Microglobulin Form Pi 5.3
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m, Cdabp0092, Hdcma22p
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Hpvg Peptide From Epstein-Barr Nuclear Antigen 1
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Peptide

Molecule: Alpha Chain Of The Tk3 Tcr
Chain: D
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Beta Chain Of The Tk3 Tcr
Chain: E
Engineered: Yes
Other_details: Q55h Mutant

symmetry

Space Group: P 1

R_factor

0.229

R_Free

0.276

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
44.760	63.610	88.140	101.12	97.60	112.00

method

X-Ray Diffraction

resolution

2.10 Å

ligand

SO4

enzyme

Gene
Ontology

Chain	Function	Process	Component
B		cellular response to iron io...

Primary reference

Allelic polymorphism in the T cell receptor and its impact on immune responses., Gras S, Chen Z, Miles JJ, Liu YC, Bell MJ, Sullivan LC, Kjer-Nielsen L, Brennan RM, Burrows JM, Neller MA, Khanna R, Purcell AW, Brooks AG, McCluskey J, Rossjohn J, Burrows SR, J Exp Med. 2010 Jul 5;207(7):1555-67. Epub 2010 Jun 21. PMID:20566715

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (153 Kb) [Save to disk]

Biological Unit Coordinates (3mv8.pdb1.gz) 144 Kb

LPC: Ligand-Protein Contacts for 3MV8

CSU: Contacts of Structural Units for 3MV8

Structure Factors (703 Kb)

Retrieve 3MV8 in mmCIF format [Save to disk]

SEQRES to COORDINATES correlation for 3MV8 from S2C, [Save to disk]

Re-refined 3mv8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3MV8 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 3MV8

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala

Dipole moment, from Dipole Server at Weizmann Institute

3D motif for 3MV8, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3mv8_A] [3mv8_E] [3mv8_D] [3mv8_C] [3mv8] [3mv8_B]

SWISS-PROT database:

Domain organization of by SWISSPFAM

Domains found in 3MV8: [IG_like] [IGc1] [IGv ] by SMART

Other resources with information on 3MV8

Community annotation for 3MV8 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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