SMTL ID : 4fo0.1 (1 other biounit)

Human actin-related protein Arp8 in its ATP-bound state

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: K.257 Ligands: ATP.2 No protein-ligand interaction detected (PLIP)

1 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.2: 21 residues within 4Å: Chain A: G.23, S.24, T.25, T.26, R.28, G.254, D.255, Q.256, K.257, G.280, S.281, Q.313, K.316, E.317, G.508, G.509, G.510, M.512, F.513, R.551 Ligands: MG.1 31 PLIP interactions: 31 interactions with chain A Hydrogen bonds: A:S.24, A:S.24, A:T.25, A:T.26, A:T.26, A:D.255, A:D.255, A:Q.256, A:K.257, A:K.257, A:Q.313, A:Q.313, A:K.316, A:E.317, A:G.509, A:G.510, A:M.512 Water bridges: A:P.22, A:P.22, A:R.28, A:R.28, A:R.28, A:R.28, A:K.257, A:K.257, A:K.257, A:R.551 Salt bridges: A:R.28, A:R.28, A:K.257 pi-Stacking: A:F.513

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 9 residues within 4Å: Chain A: Q.74, P.364, A.365, F.367, G.368, I.369, M.374, G.475, A.477 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.365, A:F.367, A:G.368, A:I.369, A:A.477 GOL.4: 4 residues within 4Å: Chain A: G.122, N.123, K.124, Y.142 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.122, A:N.123, A:K.124 GOL.5: 4 residues within 4Å: Chain A: Q.76, L.79, K.80, D.83 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.76, A:L.79, A:D.83 Water bridges: A:R.293 GOL.6: 5 residues within 4Å: Chain A: Y.298, E.300, C.301, Q.302, D.308 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.302, A:Q.302 Water bridges: A:H.338, A:H.338 GOL.7: 6 residues within 4Å: Chain A: T.318, F.319, H.321, I.326, H.332, K.354 No protein-ligand interaction detected (PLIP) GOL.8: 7 residues within 4Å: Chain A: W.125, T.126, N.127, T.128, S.129, N.144, D.147 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.128, A:S.129, A:S.129, A:N.144, A:D.147 Water bridges: A:N.144 GOL.9: 6 residues within 4Å: Chain A: K.57, P.145, T.304, N.305, K.306, M.307 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:K.57, A:K.57, A:T.304, A:N.305, A:N.305, A:K.306, A:K.306, A:M.307 Water bridges: A:T.304 GOL.10: 5 residues within 4Å: Chain A: I.12, Q.13, S.14, A.562, C.563 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.13, A:Q.13, A:S.14

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

CL.11: 4 residues within 4Å: Chain A: M.548, D.549, L.552, K.556 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gerhold, C.B. et al., Structure of Actin-related protein 8 and its contribution to nucleosome binding. Nucleic Acids Res. (2012)

Release Date

2012-09-26

Peptides

Actin-related protein 8: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Actin-related protein 8

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