SMTL ID : 3bp9.1 (3 other biounits)

Structure of B-tropic MLV capsid N-terminal domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-hexamer

Ligands

6 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.1: 6 residues within 4Å: Chain A: S.17, L.20, Y.21, Q.57, T.61 Chain B: W.23 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.20 IPA.2: 7 residues within 4Å: Chain B: S.17, L.20, Y.21, Q.57, T.61 Chain C: W.23, V.44 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:V.44, B:Q.57 Water bridges: B:Q.57 IPA.3: 7 residues within 4Å: Chain C: S.17, L.20, Y.21, Q.57, T.61 Chain D: W.23, V.44 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:W.23, D:V.44, C:L.20 Water bridges: C:Q.57 IPA.4: 6 residues within 4Å: Chain D: L.20, Y.21, Q.57, T.61 Chain E: W.23, V.44 3 PLIP interactions: 1 interactions with chain E, 2 interactions with chain D Hydrophobic interactions: E:V.44 Hydrogen bonds: D:Q.57 Water bridges: D:Q.57 IPA.5: 6 residues within 4Å: Chain E: L.20, Y.21, Q.57, T.61 Chain F: W.23, V.44 4 PLIP interactions: 1 interactions with chain F, 3 interactions with chain E Hydrophobic interactions: F:V.44, E:L.20, E:Q.57 Hydrogen bonds: E:Q.57 IPA.7: 7 residues within 4Å: Chain A: W.23, V.44 Chain F: S.17, L.20, Y.21, Q.57, T.61 2 PLIP interactions: 1 interactions with chain F, 1 interactions with chain A Hydrophobic interactions: F:L.20, A:V.44

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 3 residues within 4Å: Chain F: T.107, T.108, T.109 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:T.109

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mortuza, G.B. et al., Structure of B-MLV capsid amino-terminal domain reveals key features of viral tropism, gag assembly and core formation. J.Mol.Biol. (2008)

Release Date

2008-02-12

Peptides

Gag protein: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Gag protein

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