SMTL ID : 5g5o.1 (1 other biounit)

Structure of the snake adenovirus 1 hexon-interlacing LH3 protein, native

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

6 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 3 residues within 4Å: Chain A: D.107, N.141, R.173 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.173 Hydrogen bonds: A:N.141 Salt bridges: A:R.173 ACT.2: 6 residues within 4Å: Chain A: Y.187, N.208, N.239, H.242 Chain C: H.252, W.294 6 PLIP interactions: 2 interactions with chain C, 4 interactions with chain A Hydrophobic interactions: C:W.294 Salt bridges: C:H.252, A:H.242 Hydrogen bonds: A:Y.187, A:N.208, A:N.239 ACT.3: 10 residues within 4Å: Chain A: T.246, S.289, G.290 Chain B: S.247, S.289, G.290 Chain C: T.246, S.247, S.289, G.290 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:T.246 Hydrogen bonds: C:S.247 ACT.7: 7 residues within 4Å: Chain A: R.173, S.196 Chain B: R.131, G.161, R.162, G.163, Q.164 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain B Water bridges: A:S.196, A:S.196 Salt bridges: A:R.173, B:R.131, B:R.162 Hydrophobic interactions: B:Q.164 Hydrogen bonds: B:G.163 ACT.8: 6 residues within 4Å: Chain A: H.252, W.294 Chain B: Y.187, N.208, N.239, H.242 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.187, B:N.208, B:N.239 Salt bridges: B:H.242, A:H.252 Hydrophobic interactions: A:W.294 ACT.12: 6 residues within 4Å: Chain B: H.252, W.294 Chain C: Y.187, N.208, N.239, H.242 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:Y.187 Hydrogen bonds: C:Y.187, C:N.208, C:N.239, C:N.239 Salt bridges: C:H.242, B:H.252

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: T.120, Y.148, W.230, Y.231 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.231 Water bridges: A:E.232, A:E.232, A:E.232 GOL.5: 5 residues within 4Å: Chain A: L.112, P.114, P.261, E.263, Q.265 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.263, A:Q.265 Water bridges: A:L.112, A:V.113 GOL.9: 4 residues within 4Å: Chain B: T.120, Y.148, W.230, Y.231 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.231 Water bridges: B:Y.148, B:E.232, B:E.232 GOL.10: 4 residues within 4Å: Chain B: L.112, P.114, P.261, E.263 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:L.112 Water bridges: B:Q.265 GOL.13: 4 residues within 4Å: Chain A: R.284 Chain C: W.294, Y.295, N.344 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:R.284, A:R.284, C:N.344 Water bridges: A:N.239, A:H.242

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

CL.6: 6 residues within 4Å: Chain A: R.211, Y.223, A.241, H.242, G.243, P.286 Ligand excluded by PLIP CL.11: 6 residues within 4Å: Chain B: R.211, Y.223, A.241, H.242, G.243, P.286 Ligand excluded by PLIP CL.14: 6 residues within 4Å: Chain C: R.211, Y.223, A.241, H.242, G.243, P.286 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Menendez-Conejero, R. et al., Structure of a Reptilian Adenovirus Reveals a Phage Tailspike Fold Stabilizing a Vertebrate Virus Capsid. Structure (2017)

Release Date

2017-06-07

Peptides

LH3 HEXON-INTERLACING CAPSID PROTEIN: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
E

C
F

LH3 HEXON-INTERLACING CAPSID PROTEIN

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