SMTL ID : 3g9r.1 (1 other biounit)

Structure of the HIV-1 gp41 Membrane-Proximal Ectodomain Region in a Putative Prefusion Conformation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-trimer

Ligands

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 3 residues within 4Å: Chain A: R.32, I.33, E.36 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.29, A:R.32 Salt bridges: A:R.32 PO4.2: 2 residues within 4Å: Chain A: R.39, K.42 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.39, A:K.42 PO4.7: 1 residues within 4Å: Chain B: R.39 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.39 PO4.9: 2 residues within 4Å: Chain C: R.39, K.42 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:R.39 Salt bridges: C:R.39, C:K.42

6 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 1 residues within 4Å: Chain A: N.10 No protein-ligand interaction detected (PLIP) MPD.4: 10 residues within 4Å: Chain A: F.12, T.15, N.16, W.19 Chain B: N.16, W.19 Chain C: F.12, T.15, N.16, W.19 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:T.15 Hydrophobic interactions: C:F.12, C:T.15, C:W.19 MPD.5: 3 residues within 4Å: Chain A: K.27, K.31 Chain C: E.25 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:K.27 MPD.6: 1 residues within 4Å: Chain A: E.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.1 MPD.8: 2 residues within 4Å: Chain A: K.22 Chain B: K.27 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.27, B:K.27 MPD.10: 1 residues within 4Å: Chain C: W.17 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:W.17

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, J. et al., Structure of the HIV-1 gp41 Membrane-Proximal Ectodomain Region in a Putative Prefusion Conformation. Biochemistry (2009)

Release Date

2009-05-12

Peptides

Fusion complex of HIV-1 Envelope glycoprotein and Saccharomyces cerevisiae General control protein GCN4: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Fusion complex of HIV-1 Envelope glycoprotein and Saccharomyces cerevisiae General control protein GCN4

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