SMTL ID : 3v9z.1

Crystal structure of RNase T in complex with a product ssDNA (ACC) with one Mg in the active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x DA- DC- DC: DNA (5'-D(*TP*TP*AP*CP*AP*CP*C)-3')(Non-covalent)

DA-DC-DC.1: 18 residues within 4Å: Chain A: E.45, T.46, F.49, E.93, A.94, F.97, N.98, H.140, N.141, F.144, T.182, V.183, L.184 Chain B: R.35, F.37, H.164, F.166 Ligands: MG.3 Protein-ligand interaction information (PLIP) not available DA-DC-DC.2: 19 residues within 4Å: Chain A: R.35, F.37, H.164, F.166 Chain B: E.45, T.46, F.49, E.93, A.94, F.97, N.98, H.140, N.141, F.144, T.182, V.183, L.184, K.186 Ligands: MG.5 Protein-ligand interaction information (PLIP) not available

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.43 Ligands: DA-DC-DC.1, DA-DC-DC.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.43, H2O.1, H2O.1, H2O.2 MG.5: 3 residues within 4Å: Chain B: D.43 Ligands: DA-DC-DC.2, DA-DC-DC.2 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.43, H2O.12, H2O.13, H2O.14

1 x CO: COBALT (II) ION(Non-covalent)

CO.4: 2 residues within 4Å: Chain A: H.81, R.107 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hsiao, Y.-Y. et al., How an exonuclease decides where to stop in trimming of nucleic acids: crystal structures of RNase T-product complexes. Nucleic Acids Res. (2012)

Release Date

2012-07-11

Peptides

Ribonuclease T: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribonuclease T

Related Entries With Identical Sequence