OCA Atlas for 3GSN

3GSN

Immune System

date

Mar 27, 2009

title

Crystal Structure Of The Public Ra14 Tcr In Complex With The Dominant Nlvhla-A2 Epitope

authors

S.Gras, X.Saulquin, J.B.Reiser, E.Debeaupuis, K.Echasserieau, A.Kissenpfennig, F.Legoux, A.Chouquet, M.Le Gorrec, P.Machillot N.Thielens, B.Malissen, M.Bonneville, D.Housset

compound

source

Molecule: Hla Class I Histocompatibility Antigen, A-2 Alpha
Chain: H
Synonym: Mhc Class I Antigen A2
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hla, Hla-A, Hlaa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: X90f Laqq1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phn1

Molecule: Hcmv Pp65 Fragment 495-503 (Nlvpmvatv)
Chain: P
Engineered: Yes

Synthetic: Yes

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

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m, Beta-2 Microglubulin, Cdabp0092, Hdcma22p
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: X90f Laqq1
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phn1

Molecule: Ra14 Tcr Alpha Chain (Trav24, Traj49)
Chain: A
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tcr
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm1

Molecule: Ra14 Tcr Beta Chain (Trbv6-5, Trbd1, Trbj1-2)
Chain: B
Engineered: Yes

symmetry

Space Group: P 1 21 1

R_factor

0.215

R_Free

0.290

crystal
cell

length a	length b	length c	angle alpha	angle beta	angle gamma
75.450	77.060	87.220	90.00	101.95	90.00

method

X-Ray Diffraction

resolution

2.80 Å

ligand

CL, SO4

enzyme

Gene
Ontology

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

Primary reference

Structural bases for the affinity-driven selection of a public TCR against a dominant human cytomegalovirus epitope., Gras S, Saulquin X, Reiser JB, Debeaupuis E, Echasserieau K, Kissenpfennig A, Legoux F, Chouquet A, Le Gorrec M, Machillot P, Neveu B, Thielens N, Malissen B, Bonneville M, Housset D, J Immunol. 2009 Jul 1;183(1):430-7. PMID:19542454

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (140 Kb) [Save to disk]

Biological Unit Coordinates (3gsn.pdb1.gz) 132 Kb

LPC: Ligand-Protein Contacts for 3GSN

CSU: Contacts of Structural Units for 3GSN

Structure Factors (405 Kb)

Retrieve 3GSN in mmCIF format [Save to disk]

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

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

View 3GSN 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 3GSN

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 3GSN, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3gsn_L] [3gsn] [3gsn_A] [3gsn_H] [3gsn_P] [3gsn_B]

SWISS-PROT database: [P01892] [P61769] [P01848]

Domain organization of [1A02_HUMAN] [B2MG_HUMAN] [TCA_HUMAN] by SWISSPFAM

Domains found in 3GSN: [IG] [IG_like] [IGc1 ] by SMART

Other resources with information on 3GSN

Community annotation for 3GSN 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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