SMTL ID : 1x7q.1

Crystal structure of HLA-A*1101 with sars nucleocapsid peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

hetero-1-1-mer

Ligands

1 x LYS- THR- PHE- PRO- PRO- THR- GLU- PRO- LYS: SARS NUCLEOCAPSID PEPTIDE(Non-covalent)

LYS-THR-PHE-PRO-PRO-THR-GLU-PRO-LYS.1: 30 residues within 4Å: Chain A: M.5, Y.7, Y.9, M.45, E.58, Y.59, Q.62, E.63, N.66, A.69, Q.70, T.73, D.77, T.80, L.81, Y.84, Y.99, R.114, D.116, T.143, K.146, W.147, A.150, Q.155, Q.156, Y.159, R.163, W.167, Y.171 Ligands: SO4.3 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:Y.7, A:Y.59, A:A.69, A:L.81, A:Y.99, A:T.143, A:A.150, A:Q.156, A:Y.159, A:Y.159, A:Y.159, A:W.167 Hydrogen bonds: A:Q.62, A:E.63, A:N.66, A:D.77, A:Y.84, A:Y.99, A:D.116, A:T.143, A:Y.159, A:R.163, A:R.163, A:Y.171 Water bridges: A:Q.70, A:Q.70, A:D.77, A:D.77, A:R.114 Salt bridges: A:K.146

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 1 residues within 4Å: Chain A: R.75 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.75 SO4.3: 4 residues within 4Å: Chain A: Q.62, R.163, W.167 Ligands: LYS-THR-PHE-PRO-PRO-THR-GLU-PRO-LYS.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.62 Salt bridges: A:R.163 SO4.9: 2 residues within 4Å: Chain A: R.21 Chain B: H.51 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Water bridges: A:R.21, B:H.51 Salt bridges: A:R.21, B:H.51

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 2 residues within 4Å: Chain A: G.18, E.19 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.19, A:E.19 Water bridges: A:E.19, A:E.19 GOL.5: 2 residues within 4Å: Chain A: Q.226, D.227 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.226, A:D.227 GOL.6: 5 residues within 4Å: Chain A: F.8, Y.27, D.29, D.30 Chain B: Y.63 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Water bridges: B:Y.63, A:D.30 Hydrogen bonds: A:D.29, A:D.30 GOL.7: 3 residues within 4Å: Chain A: E.232, T.233, K.243 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:E.232, A:E.232, A:T.233, A:K.243 Water bridges: A:I.213, A:I.213, A:T.233 GOL.8: 5 residues within 4Å: Chain A: E.148, H.151, A.152, A.153, E.154 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.151, A:H.151, A:A.153, A:E.154 Water bridges: A:A.152 GOL.10: 4 residues within 4Å: Chain A: V.231, R.234 Chain B: Q.8, M.99 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Water bridges: B:V.9, B:V.9 Hydrogen bonds: A:R.234 GOL.11: 2 residues within 4Å: Chain B: S.20, E.69 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.20, B:E.69, B:E.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blicher, T. et al., High-resolution structure of HLA-A*1101 in complex with SARS nucleocapsid peptide. Acta Crystallogr.,Sect.D (2005)

Release Date

2005-08-02

Peptides

HLA class I histocompatibility antigen, A-11 alpha chain: A
Beta-2-microglobulin: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

HLA class I histocompatibility antigen, A-11 alpha chain

Beta-2-microglobulin

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