SMTL ID : 3wvh.2 (1 other biounit)

Time-Resolved Crystal Structure of HindIII with 25sec soaking

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.54 Å

Oligo State

homo-dimer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: D.94, D.109, A.110 Chain C: A.5 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.94, A:D.109, A:A.110, H2O.2, H2O.6 MN.4: 5 residues within 4Å: Chain B: D.94, D.109, A.110 Chain D: A.5 Ligands: MN.6 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.94, B:D.109, B:A.110, H2O.5, H2O.5 MN.5: 4 residues within 4Å: Chain A: A.92, D.94 Chain C: A.4, A.5 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.94, H2O.2, H2O.2, H2O.2 MN.6: 5 residues within 4Å: Chain B: A.92, D.94 Chain D: A.4, A.5 Ligands: MN.4 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.94, H2O.5, H2O.5, H2O.5

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 10 residues within 4Å: Chain A: R.297, Y.299 Chain B: F.146, F.147, Q.148, Y.149, P.150, T.151, N.211, M.213 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:F.147, B:Y.149, B:N.211, B:N.211, A:R.297, A:R.297 GOL.3: 8 residues within 4Å: Chain A: F.146, F.147, Y.149, P.150, N.211, M.213 Chain B: R.297, Y.299 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Y.149, A:N.211, A:N.211, B:R.297, B:R.297

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kawamura, T. et al., Analysis of the HindIII-catalyzed reaction by time-resolved crystallography. Acta Crystallogr.,Sect.D (2015)

Release Date

2015-04-08

Peptides

Type-2 restriction enzyme HindIII: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
C

Type-2 restriction enzyme HindIII

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