SMTL ID : 2c5u.1 (1 other biounit)

T4 RNA Ligase (Rnl1) Crystal Structure

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

monomer

Ligands

1 x APC: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER(Non-covalent)

APC.1: 20 residues within 4Å: Chain A: Y.38, R.55, M.74, K.76, F.77, L.98, T.99, K.100, E.101, L.105, K.120, E.160, L.180, V.231, K.241, K.243, D.273 Ligands: CA.2, MG.3, CL.4 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:R.55, A:R.55, A:K.76, A:K.76, A:T.99, A:T.99, A:K.100, A:E.101, A:K.241, A:K.243, A:K.243 Water bridges: A:Y.38, A:Y.38, A:Y.38, A:K.120, A:D.273, A:D.273 Salt bridges: A:R.55, A:K.120

1 x CA: CALCIUM ION(Non-functional Binders)

CA.2: 1 residues within 4Å: Ligands: APC.1 No protein-ligand interaction detected (PLIP)

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: G.270, D.273 Ligands: APC.1 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:G.270, A:D.273, H2O.305, H2O.306, H2O.309

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

CL.4: 3 residues within 4Å: Chain A: R.55, L.105 Ligands: APC.1 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: A.28, L.116 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

El Omari, K. et al., Molecular Architecture and Ligand Recognition Determinants for T4 RNA Ligase. J.Biol.Chem. (2006)

Release Date

2005-11-04

Peptides

RNA LIGASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

RNA LIGASE

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