SMTL ID : 4zxs.3 (2 other biounits)

HSV-1 nuclear egress complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.77 Å

Oligo State

hetero-12-12-mer

Ligands

12 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 3 residues within 4Å: Chain A: H.53, H.55 Ligands: CL.2 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:H.53, A:H.55 NI.6: 4 residues within 4Å: Chain C: R.30, H.53, H.55 Ligands: CL.7 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.53, C:H.55, H2O.3 NI.10: 3 residues within 4Å: Chain E: H.53, H.55 Ligands: CL.11 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:H.53, E:H.55 NI.15: 4 residues within 4Å: Chain G: R.30, H.53, H.55 Ligands: CL.16 3 PLIP interactions: 2 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:H.53, G:H.55, H2O.5 NI.19: 3 residues within 4Å: Chain I: H.53, H.55 Ligands: CL.20 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:H.53, I:H.55 NI.24: 4 residues within 4Å: Chain K: R.30, H.53, H.55 Ligands: CL.25 3 PLIP interactions: 2 interactions with chain K, 1 Ligand-Water interactions Metal complexes: K:H.53, K:H.55, H2O.8 NI.28: 3 residues within 4Å: Chain M: H.53, H.55 Ligands: CL.29 2 PLIP interactions: 2 interactions with chain M Metal complexes: M:H.53, M:H.55 NI.33: 4 residues within 4Å: Chain O: R.30, H.53, H.55 Ligands: CL.34 3 PLIP interactions: 2 interactions with chain O, 1 Ligand-Water interactions Metal complexes: O:H.53, O:H.55, H2O.11 NI.37: 3 residues within 4Å: Chain Q: H.53, H.55 Ligands: CL.38 2 PLIP interactions: 2 interactions with chain Q Metal complexes: Q:H.53, Q:H.55 NI.42: 4 residues within 4Å: Chain S: R.30, H.53, H.55 Ligands: CL.43 3 PLIP interactions: 2 interactions with chain S, 1 Ligand-Water interactions Metal complexes: S:H.53, S:H.55, H2O.14 NI.46: 3 residues within 4Å: Chain U: H.53, H.55 Ligands: CL.47 2 PLIP interactions: 2 interactions with chain U Metal complexes: U:H.53, U:H.55 NI.51: 4 residues within 4Å: Chain W: R.30, H.53, H.55 Ligands: CL.52 3 PLIP interactions: 2 interactions with chain W, 1 Ligand-Water interactions Metal complexes: W:H.53, W:H.55, H2O.17

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

CL.2: 1 residues within 4Å: Ligands: NI.1 Ligand excluded by PLIP CL.3: 5 residues within 4Å: Chain A: G.57, S.58, D.59, V.155, R.156 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain C: H.55 Ligands: NI.6 Ligand excluded by PLIP CL.11: 1 residues within 4Å: Ligands: NI.10 Ligand excluded by PLIP CL.12: 5 residues within 4Å: Chain E: G.57, S.58, D.59, V.155, R.156 Ligand excluded by PLIP CL.16: 2 residues within 4Å: Chain G: H.55 Ligands: NI.15 Ligand excluded by PLIP CL.20: 1 residues within 4Å: Ligands: NI.19 Ligand excluded by PLIP CL.21: 5 residues within 4Å: Chain I: G.57, S.58, D.59, V.155, R.156 Ligand excluded by PLIP CL.25: 2 residues within 4Å: Chain K: H.55 Ligands: NI.24 Ligand excluded by PLIP CL.29: 1 residues within 4Å: Ligands: NI.28 Ligand excluded by PLIP CL.30: 5 residues within 4Å: Chain M: G.57, S.58, D.59, V.155, R.156 Ligand excluded by PLIP CL.34: 2 residues within 4Å: Chain O: H.55 Ligands: NI.33 Ligand excluded by PLIP CL.38: 1 residues within 4Å: Ligands: NI.37 Ligand excluded by PLIP CL.39: 5 residues within 4Å: Chain Q: G.57, S.58, D.59, V.155, R.156 Ligand excluded by PLIP CL.43: 2 residues within 4Å: Chain S: H.55 Ligands: NI.42 Ligand excluded by PLIP CL.47: 1 residues within 4Å: Ligands: NI.46 Ligand excluded by PLIP CL.48: 5 residues within 4Å: Chain U: G.57, S.58, D.59, V.155, R.156 Ligand excluded by PLIP CL.52: 2 residues within 4Å: Chain W: H.55 Ligands: NI.51 Ligand excluded by PLIP

12 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain B: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.60, B:C.76, B:C.79, B:H.179 ZN.8: 4 residues within 4Å: Chain D: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.60, D:C.76, D:C.79, D:H.179 ZN.13: 4 residues within 4Å: Chain F: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.60, F:C.76, F:C.79, F:H.179 ZN.17: 4 residues within 4Å: Chain H: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.60, H:C.76, H:C.79, H:H.179 ZN.22: 4 residues within 4Å: Chain J: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.60, J:C.76, J:C.79, J:H.179 ZN.26: 4 residues within 4Å: Chain L: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain L Metal complexes: L:C.60, L:C.76, L:C.79, L:H.179 ZN.31: 4 residues within 4Å: Chain N: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain N Metal complexes: N:C.60, N:C.76, N:C.79, N:H.179 ZN.35: 4 residues within 4Å: Chain P: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain P Metal complexes: P:C.60, P:C.76, P:C.79, P:H.179 ZN.40: 4 residues within 4Å: Chain R: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain R Metal complexes: R:C.60, R:C.76, R:C.79, R:H.179 ZN.44: 4 residues within 4Å: Chain T: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain T Metal complexes: T:C.60, T:C.76, T:C.79, T:H.179 ZN.49: 4 residues within 4Å: Chain V: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain V Metal complexes: V:C.60, V:C.76, V:C.79, V:H.179 ZN.53: 4 residues within 4Å: Chain X: C.60, C.76, C.79, H.179 4 PLIP interactions: 4 interactions with chain X Metal complexes: X:C.60, X:C.76, X:C.79, X:H.179

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

NA.5: 6 residues within 4Å: Chain B: V.56, A.57, N.59, Y.182, I.185, D.186 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.56, B:N.59 Water bridges: B:D.186 NA.9: 4 residues within 4Å: Chain D: F.173, G.175, T.205, F.206 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:F.173, D:F.206 NA.14: 6 residues within 4Å: Chain F: V.56, A.57, N.59, Y.182, I.185, D.186 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:N.59, F:Y.182 Water bridges: F:D.186 NA.18: 4 residues within 4Å: Chain H: F.173, G.175, T.205, F.206 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:G.175, H:F.206 NA.23: 6 residues within 4Å: Chain J: V.56, A.57, N.59, Y.182, I.185, D.186 3 PLIP interactions: 3 interactions with chain J Hydrogen bonds: J:N.59, J:Y.182 Water bridges: J:D.186 NA.27: 4 residues within 4Å: Chain L: F.173, G.175, T.205, F.206 2 PLIP interactions: 2 interactions with chain L Hydrogen bonds: L:G.175, L:F.206 NA.32: 6 residues within 4Å: Chain N: V.56, A.57, N.59, Y.182, I.185, D.186 3 PLIP interactions: 3 interactions with chain N Hydrogen bonds: N:N.59, N:N.59 Water bridges: N:D.186 NA.36: 4 residues within 4Å: Chain P: F.173, G.175, T.205, F.206 2 PLIP interactions: 2 interactions with chain P Hydrogen bonds: P:G.175, P:F.206 NA.41: 6 residues within 4Å: Chain R: V.56, A.57, N.59, Y.182, I.185, D.186 3 PLIP interactions: 3 interactions with chain R Hydrogen bonds: R:N.59, R:N.59 Water bridges: R:D.186 NA.45: 4 residues within 4Å: Chain T: F.173, G.175, T.205, F.206 2 PLIP interactions: 2 interactions with chain T Hydrogen bonds: T:F.206, T:F.206 NA.50: 6 residues within 4Å: Chain V: V.56, A.57, N.59, Y.182, I.185, D.186 3 PLIP interactions: 3 interactions with chain V Hydrogen bonds: V:A.57, V:N.59 Water bridges: V:D.186 NA.54: 4 residues within 4Å: Chain X: F.173, G.175, T.205, F.206 2 PLIP interactions: 2 interactions with chain X Hydrogen bonds: X:G.175, X:F.206

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bigalke, J.M. et al., Structural basis of membrane budding by the nuclear egress complex of herpesviruses. Embo J. (2015)

Release Date

2015-11-11

Peptides

Virion egress protein UL34: ACEGIKMOQSUW
Virion egress protein UL31: BDFHJLNPRTVX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
A

G
C

I
A

K
C

M
A

O
C

Q
A

S
C

U
A

W
C

B
B

D
D

F
B

H
D

J
B

L
D

N
B

P
D

R
B

T
D

V
B

X
D

Virion egress protein UL34

Virion egress protein UL31

Related Entries With Identical Sequence