SMTL ID : 5ftb.1

Crystal structure of Pif1 helicase from Bacteroides in complex with AMPPNP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.38 Å

Oligo State

monomer

Ligands

9 x K: POTASSIUM ION(Non-covalent)

K.1: 1 residues within 4Å: Chain A: G.134 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:G.134, H2O.2, H2O.3, H2O.12, H2O.12 K.2: 4 residues within 4Å: Chain A: D.3, M.4, T.36 Ligands: ANP.3 No protein-ligand interaction detected (PLIP) K.5: 3 residues within 4Å: Chain A: T.7, E.8, E.9 No protein-ligand interaction detected (PLIP) K.6: 4 residues within 4Å: Chain A: C.234, T.235, H.236, D.239 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.235, A:D.239, H2O.18 K.7: 3 residues within 4Å: Chain A: L.6, Q.11, M.14 No protein-ligand interaction detected (PLIP) K.8: 4 residues within 4Å: Chain A: N.199, N.200, N.203, Q.205 No protein-ligand interaction detected (PLIP) K.9: 6 residues within 4Å: Chain A: F.168, N.169, A.170, F.173, K.174, Y.428 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:F.168, H2O.14 K.10: 4 residues within 4Å: Chain A: R.254, Y.256, D.307, R.324 No protein-ligand interaction detected (PLIP) K.11: 6 residues within 4Å: Chain A: F.25, T.27, D.142, L.143, F.144, R.202 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.27, H2O.13

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.3: 20 residues within 4Å: Chain A: D.3, M.4, I.5, M.10, K.29, A.30, G.31, S.32, G.33, K.34, T.35, T.36, Q.145, F.187, R.188, G.365, T.367, R.390 Ligands: K.2, MG.4 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:I.5, A:I.5, A:G.31, A:S.32, A:G.33, A:K.34, A:K.34, A:T.35, A:T.35, A:T.36, A:T.36, A:Q.145, A:Q.145, A:R.188, A:R.188, A:G.365, A:R.390, A:R.390 Water bridges: A:T.35 pi-Stacking: A:F.187, A:F.187

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 4 residues within 4Å: Chain A: K.34, T.35, G.365 Ligands: ANP.3 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.35, H2O.4, H2O.4, H2O.4, H2O.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, W.-F. et al., Crystal Structures of the Bspif1 Helicase Reveal that a Major Movement of the 2B SH3 Domain is Required for DNA Unwinding. Nucleic Acids Res. (2016)

Release Date

2016-02-03

Peptides

TPR DOMAIN PROTEIN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

TPR DOMAIN PROTEIN

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