4jrx.1 | SWISS-MODEL Template Library

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SMTL ID : 4jrx.1

Crystal Structure of CA5 TCR-HLA B*3505-LPEP complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-1-1-1-1-1-mer

Ligands

3 x NA: SODIUM ION(Non-functional Binders)

NA.1:	3 residues within 4Å: Chain A: R.14, G.16, G.18 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.14, A:G.18
NA.6:	5 residues within 4Å: Chain D: Q.5, Q.7, T.8, T.106, G.107 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.106 Water bridges: D:T.106
NA.10:	3 residues within 4Å: Chain E: K.112, Q.219, R.221 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:Q.219, E:R.221, E:R.221

8 x IOD: IODIDE ION(Non-functional Binders)

IOD.2:	4 residues within 4Å: Chain A: T.31, W.51, T.178, R.239 Ligand excluded by PLIP
IOD.3:	2 residues within 4Å: Chain A: Y.59, R.62 Ligand excluded by PLIP
IOD.4:	2 residues within 4Å: Chain A: P.43, K.68 Ligand excluded by PLIP
IOD.5:	3 residues within 4Å: Chain C: P.6, Q.9, T.11 Ligand excluded by PLIP
IOD.7:	2 residues within 4Å: Chain D: I.103 Chain E: E.57 Ligand excluded by PLIP
IOD.8:	5 residues within 4Å: Chain D: P.114, I.116, D.143, S.144, Q.145 Ligand excluded by PLIP
IOD.9:	1 residues within 4Å: Chain D: A.87 Ligand excluded by PLIP
IOD.11:	3 residues within 4Å: Chain E: D.147, V.149, P.170 Ligand excluded by PLIP

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Liu, Y.C. et al., Highly divergent T-cell receptor binding modes underlie specific recognition of a bulged viral peptide bound to a human leukocyte antigen class I molecule. J.Biol.Chem. (2013)

Release Date

2013-04-10

Peptides

MHC class I antigen: A
Beta-2-microglobulin: B
Trans-activator protein BZLF1: C
CA5 TCR alpha chain: D
CA5 TCR beta chain: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

MHC class I antigen

Beta-2-microglobulin

Trans-activator protein BZLF1

CA5 TCR alpha chain

CA5 TCR beta chain

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Cartoon
Tube
Trace
Lines
Ball+Stick
Licorice
Hyperball
Rope
Surface
Spacefill
Outline
Fog

Background

Transparent

Resolution

Low
Medium
High
Extreme

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