SMTL ID : 4fmg.5 (5 other biounits)

Merkel Cell Polyomavirus VP1 Unassembled Pentamer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-10-mer

Ligands

17 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 6 residues within 4Å: Chain A: N.44, W.45, Y.112, W.113 Chain B: D.150, Q.152 Ligand excluded by PLIP GOL.2: 8 residues within 4Å: Chain A: N.131, H.133, Q.217, P.223, T.224, V.225, L.226 Ligands: CL.4 Ligand excluded by PLIP GOL.3: 5 residues within 4Å: Chain A: K.116, R.117, V.118, H.119, D.120 Ligand excluded by PLIP GOL.5: 8 residues within 4Å: Chain B: N.131, H.133, Q.217, P.223, T.224, V.225, L.226 Ligands: CL.7 Ligand excluded by PLIP GOL.6: 4 residues within 4Å: Chain B: K.116, R.117, H.119, D.120 Ligand excluded by PLIP GOL.8: 8 residues within 4Å: Chain C: N.131, H.133, S.215, Q.217, P.223, T.224, V.225 Ligands: CL.10 Ligand excluded by PLIP GOL.9: 4 residues within 4Å: Chain C: K.116, R.117, H.119, D.120 Ligand excluded by PLIP GOL.11: 8 residues within 4Å: Chain D: N.44, W.45, Y.112, W.113 Chain E: D.150, Y.151, Q.152, Q.179 Ligand excluded by PLIP GOL.12: 8 residues within 4Å: Chain D: N.131, H.133, Q.217, P.223, T.224, V.225, L.226 Ligands: CL.13 Ligand excluded by PLIP GOL.14: 6 residues within 4Å: Chain E: N.131, Q.217, P.223, T.224, V.225 Ligands: CL.15 Ligand excluded by PLIP GOL.16: 8 residues within 4Å: Chain F: N.131, H.133, S.215, Q.217, P.223, T.224, V.225 Ligands: CL.17 Ligand excluded by PLIP GOL.18: 6 residues within 4Å: Chain G: N.44, W.45, Y.112, W.113 Chain H: D.150, Q.152 Ligand excluded by PLIP GOL.19: 8 residues within 4Å: Chain G: N.131, H.133, Q.217, P.223, T.224, V.225, L.226 Ligands: CL.21 Ligand excluded by PLIP GOL.20: 4 residues within 4Å: Chain G: W.45, Y.50, D.51, K.264 Ligand excluded by PLIP GOL.22: 8 residues within 4Å: Chain H: N.131, H.133, S.215, Q.217, P.223, T.224, V.225 Ligands: CL.23 Ligand excluded by PLIP GOL.24: 8 residues within 4Å: Chain I: N.131, H.133, S.215, Q.217, P.223, T.224, V.225 Ligands: CL.25 Ligand excluded by PLIP GOL.26: 8 residues within 4Å: Chain J: N.131, H.133, Q.217, P.223, T.224, V.225, L.226 Ligands: CL.27 Ligand excluded by PLIP

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

CL.4: 6 residues within 4Å: Chain A: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.2 Ligand excluded by PLIP CL.7: 6 residues within 4Å: Chain B: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.5 Ligand excluded by PLIP CL.10: 6 residues within 4Å: Chain C: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.8 Ligand excluded by PLIP CL.13: 6 residues within 4Å: Chain D: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.12 Ligand excluded by PLIP CL.15: 6 residues within 4Å: Chain E: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.14 Ligand excluded by PLIP CL.17: 6 residues within 4Å: Chain F: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.16 Ligand excluded by PLIP CL.21: 6 residues within 4Å: Chain G: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.19 Ligand excluded by PLIP CL.23: 6 residues within 4Å: Chain H: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.22 Ligand excluded by PLIP CL.25: 6 residues within 4Å: Chain I: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.24 Ligand excluded by PLIP CL.27: 6 residues within 4Å: Chain J: N.131, H.133, S.215, I.216, Q.217 Ligands: GOL.26 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Neu, U. et al., Structures of Merkel Cell Polyomavirus VP1 Complexes Define a Sialic Acid Binding Site Required for Infection. Plos Pathog. (2012)

Release Date

2012-09-05

Peptides

VP1: ABCDEFGHIJ

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
K

G
L

H
M

I
N

J
O

VP1

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