SMTL ID : 4qpi.3 (3 other biounits)

Crystal structure of hepatitis A virus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

hetero-6-6-6-mer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: S.102, N.103, N.237, H.238 Ligand excluded by PLIP SO4.2: 5 residues within 4Å: Chain A: D.154, R.189, Q.232, I.233, A.234 Ligand excluded by PLIP SO4.6: 1 residues within 4Å: Chain B: H.76 Ligand excluded by PLIP SO4.7: 6 residues within 4Å: Chain B: P.218, L.219, S.220, T.221 Chain F: G.146, Q.151 Ligand excluded by PLIP SO4.8: 3 residues within 4Å: Chain B: R.67 Chain O: S.71, R.209 Ligand excluded by PLIP SO4.9: 6 residues within 4Å: Chain C: V.78, I.142, D.143, V.144, T.145, K.201 Ligand excluded by PLIP SO4.10: 2 residues within 4Å: Chain C: P.65, R.221 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain D: S.102, N.103, N.237, H.238 Ligand excluded by PLIP SO4.12: 5 residues within 4Å: Chain D: D.154, R.189, Q.232, I.233, A.234 Ligand excluded by PLIP SO4.16: 1 residues within 4Å: Chain E: H.76 Ligand excluded by PLIP SO4.17: 4 residues within 4Å: Chain E: P.218, L.219, S.220, T.221 Ligand excluded by PLIP SO4.18: 1 residues within 4Å: Chain E: R.67 Ligand excluded by PLIP SO4.19: 6 residues within 4Å: Chain F: V.78, I.142, D.143, V.144, T.145, K.201 Ligand excluded by PLIP SO4.20: 2 residues within 4Å: Chain F: P.65, R.221 Ligand excluded by PLIP SO4.21: 4 residues within 4Å: Chain G: S.102, N.103, N.237, H.238 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain G: D.154, R.189, Q.232, I.233, A.234 Ligand excluded by PLIP SO4.26: 1 residues within 4Å: Chain H: H.76 Ligand excluded by PLIP SO4.27: 4 residues within 4Å: Chain H: P.218, L.219, S.220, T.221 Ligand excluded by PLIP SO4.28: 1 residues within 4Å: Chain H: R.67 Ligand excluded by PLIP SO4.29: 6 residues within 4Å: Chain I: V.78, I.142, D.143, V.144, T.145, K.201 Ligand excluded by PLIP SO4.30: 2 residues within 4Å: Chain I: P.65, R.221 Ligand excluded by PLIP SO4.31: 4 residues within 4Å: Chain J: S.102, N.103, N.237, H.238 Ligand excluded by PLIP SO4.32: 5 residues within 4Å: Chain J: D.154, R.189, Q.232, I.233, A.234 Ligand excluded by PLIP SO4.36: 1 residues within 4Å: Chain K: H.76 Ligand excluded by PLIP SO4.37: 6 residues within 4Å: Chain I: G.146, Q.151 Chain K: P.218, L.219, S.220, T.221 Ligand excluded by PLIP SO4.38: 3 residues within 4Å: Chain C: S.71, R.209 Chain K: R.67 Ligand excluded by PLIP SO4.39: 6 residues within 4Å: Chain L: V.78, I.142, D.143, V.144, T.145, K.201 Ligand excluded by PLIP SO4.40: 2 residues within 4Å: Chain L: P.65, R.221 Ligand excluded by PLIP SO4.41: 4 residues within 4Å: Chain M: S.102, N.103, N.237, H.238 Ligand excluded by PLIP SO4.42: 5 residues within 4Å: Chain M: D.154, R.189, Q.232, I.233, A.234 Ligand excluded by PLIP SO4.46: 1 residues within 4Å: Chain N: H.76 Ligand excluded by PLIP SO4.47: 6 residues within 4Å: Chain N: P.218, L.219, S.220, T.221 Chain R: G.146, Q.151 Ligand excluded by PLIP SO4.48: 3 residues within 4Å: Chain L: S.71, R.209 Chain N: R.67 Ligand excluded by PLIP SO4.49: 6 residues within 4Å: Chain O: V.78, I.142, D.143, V.144, T.145, K.201 Ligand excluded by PLIP SO4.50: 2 residues within 4Å: Chain O: P.65, R.221 Ligand excluded by PLIP SO4.51: 4 residues within 4Å: Chain P: S.102, N.103, N.237, H.238 Ligand excluded by PLIP SO4.52: 5 residues within 4Å: Chain P: D.154, R.189, Q.232, I.233, A.234 Ligand excluded by PLIP SO4.56: 1 residues within 4Å: Chain Q: H.76 Ligand excluded by PLIP SO4.57: 4 residues within 4Å: Chain Q: P.218, L.219, S.220, T.221 Ligand excluded by PLIP SO4.58: 1 residues within 4Å: Chain Q: R.67 Ligand excluded by PLIP SO4.59: 6 residues within 4Å: Chain R: V.78, I.142, D.143, V.144, T.145, K.201 Ligand excluded by PLIP SO4.60: 2 residues within 4Å: Chain R: P.65, R.221 Ligand excluded by PLIP

18 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: R.193 Chain D: R.193 Ligands: CL.13 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain A: R.193 Chain D: R.193 Ligands: CL.14 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Chain A: E.174 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain A: R.193 Chain D: R.193 Ligands: CL.3 Ligand excluded by PLIP CL.14: 3 residues within 4Å: Chain A: R.193 Chain D: R.193 Ligands: CL.4 Ligand excluded by PLIP CL.15: 1 residues within 4Å: Chain D: E.174 Ligand excluded by PLIP CL.23: 3 residues within 4Å: Chain G: R.193 Chain J: R.193 Ligands: CL.33 Ligand excluded by PLIP CL.24: 3 residues within 4Å: Chain G: R.193 Chain J: R.193 Ligands: CL.34 Ligand excluded by PLIP CL.25: 1 residues within 4Å: Chain G: E.174 Ligand excluded by PLIP CL.33: 3 residues within 4Å: Chain G: R.193 Chain J: R.193 Ligands: CL.23 Ligand excluded by PLIP CL.34: 3 residues within 4Å: Chain G: R.193 Chain J: R.193 Ligands: CL.24 Ligand excluded by PLIP CL.35: 1 residues within 4Å: Chain J: E.174 Ligand excluded by PLIP CL.43: 3 residues within 4Å: Chain M: R.193 Chain P: R.193 Ligands: CL.53 Ligand excluded by PLIP CL.44: 3 residues within 4Å: Chain M: R.193 Chain P: R.193 Ligands: CL.54 Ligand excluded by PLIP CL.45: 1 residues within 4Å: Chain M: E.174 Ligand excluded by PLIP CL.53: 3 residues within 4Å: Chain M: R.193 Chain P: R.193 Ligands: CL.43 Ligand excluded by PLIP CL.54: 3 residues within 4Å: Chain M: R.193 Chain P: R.193 Ligands: CL.44 Ligand excluded by PLIP CL.55: 1 residues within 4Å: Chain P: E.174 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, X. et al., Hepatitis A virus and the origins of picornaviruses. Nature (2015)

Release Date

2014-10-15

Peptides

Capsid protein VP1: ADGJMP
Capsid protein VP2: BEHKNQ
Capsid protein VP3: CFILOR

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
A

G
A

J
A

M
A

P
A

B
B

E
B

H
B

K
B

N
B

Q
B

C
C

F
C

I
C

L
C

O
C

R
C

Capsid protein VP1

Capsid protein VP2

Capsid protein VP3

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