SMTL ID : 1h2d.1

Ebola virus matrix protein VP40 N-terminal domain in complex with RNA (Low-resolution VP40[31-212] variant).

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-octamer

Ligands

8 x U- G- A: 5'-R(*UP*GP*AP)-3'(Non-covalent)

U-G-A.1: 15 residues within 4Å: Chain A: T.93, H.94, F.95, G.96, K.97, R.104 Chain C: F.95, L.102, R.104, I.122, N.124, A.126 Ligands: U-G-A.5, U-G-A.5, U-G-A.14 Protein-ligand interaction information (PLIP) not available U-G-A.2: 18 residues within 4Å: Chain B: T.93, H.94, F.95, G.96, K.97, A.98, R.104, Y.141 Chain F: F.95, L.102, R.104, I.122, N.124, A.126, L.128 Ligands: U-G-A.10, U-G-A.10, U-G-A.13 Protein-ligand interaction information (PLIP) not available U-G-A.5: 15 residues within 4Å: Chain A: F.95, L.102, R.104, I.122, N.124, A.126 Chain C: T.93, H.94, F.95, G.96, K.97, R.104 Ligands: U-G-A.1, U-G-A.1, U-G-A.10 Protein-ligand interaction information (PLIP) not available U-G-A.6: 18 residues within 4Å: Chain D: T.93, H.94, F.95, G.96, K.97, A.98, R.104, Y.141 Chain H: F.95, L.102, R.104, I.122, N.124, A.126, L.128 Ligands: U-G-A.9, U-G-A.14, U-G-A.14 Protein-ligand interaction information (PLIP) not available U-G-A.9: 15 residues within 4Å: Chain E: T.93, H.94, F.95, G.96, K.97, R.104 Chain G: F.95, L.102, R.104, I.122, N.124, A.126 Ligands: U-G-A.6, U-G-A.13, U-G-A.13 Protein-ligand interaction information (PLIP) not available U-G-A.10: 18 residues within 4Å: Chain B: F.95, L.102, R.104, I.122, N.124, A.126, L.128 Chain F: T.93, H.94, F.95, G.96, K.97, A.98, R.104, Y.141 Ligands: U-G-A.2, U-G-A.2, U-G-A.5 Protein-ligand interaction information (PLIP) not available U-G-A.13: 15 residues within 4Å: Chain E: F.95, L.102, R.104, I.122, N.124, A.126 Chain G: T.93, H.94, F.95, G.96, K.97, R.104 Ligands: U-G-A.2, U-G-A.9, U-G-A.9 Protein-ligand interaction information (PLIP) not available U-G-A.14: 18 residues within 4Å: Chain D: F.95, L.102, R.104, I.122, N.124, A.126, L.128 Chain H: T.93, H.94, F.95, G.96, K.97, A.98, R.104, Y.141 Ligands: U-G-A.1, U-G-A.6, U-G-A.6 Protein-ligand interaction information (PLIP) not available

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

CL.3: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.4: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.11: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.12: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.15: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.16: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gomis-Ruth, F.X. et al., The Matrix Protein Vp40 from Ebola Virus Octamerizes Into Pore-Like Structures with Specific RNA Binding Properties. Structure (2003)

Release Date

2003-04-10

Peptides

MATRIX PROTEIN VP40: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

MATRIX PROTEIN VP40