SMTL ID : 4fmw.2 (1 other biounit)

Crystal structure of methyltransferase domain of human RNA (guanine-9-) methyltransferase domain containing protein 2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 19 residues within 4Å: Chain A: L.106, T.107, S.108, V.124, I.125, G.126, L.128, D.130, H.134, L.137, T.138, Q.151, L.152, L.154, K.164, V.165, L.166, V.168, V.171 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.165 Hydrogen bonds: A:G.126, A:H.134, A:L.137, A:T.138, A:T.138, A:L.152, A:K.164, A:L.166 Water bridges: A:T.107, A:S.108, A:G.136, A:G.136, A:Y.139

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 4 residues within 4Å: Chain A: E.76, N.77, D.78, K.79 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.76, A:K.79, A:K.79 Water bridges: A:D.78, A:G.80 EDO.3: 4 residues within 4Å: Chain A: R.182, D.183, W.184, Q.185 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.184, A:Q.185

1 x K: POTASSIUM ION(Non-covalent)

K.4: 6 residues within 4Å: Chain A: T.20, L.21, R.22, E.119, S.120, K.121 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:T.20, A:E.119, A:S.120, A:K.121

10 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.5: 1 residues within 4Å: Chain A: H.133 No protein-ligand interaction detected (PLIP) UNX.6: 1 residues within 4Å: Ligands: UNX.11 No protein-ligand interaction detected (PLIP) UNX.7: 1 residues within 4Å: Chain A: E.76 No protein-ligand interaction detected (PLIP) UNX.8: 2 residues within 4Å: Chain A: S.143, H.149 No protein-ligand interaction detected (PLIP) UNX.9: 4 residues within 4Å: Chain A: W.84, K.85, D.86, I.87 No protein-ligand interaction detected (PLIP) UNX.10: 1 residues within 4Å: Chain A: H.88 No protein-ligand interaction detected (PLIP) UNX.11: 3 residues within 4Å: Chain A: S.28, H.93 Ligands: UNX.6 No protein-ligand interaction detected (PLIP) UNX.12: 3 residues within 4Å: Chain A: E.101, D.102, K.121 No protein-ligand interaction detected (PLIP) UNX.13: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.14: 3 residues within 4Å: Chain A: N.132, H.133, K.135 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zeng, H. et al., Crystal structure of methyltransferase domain of human RNA (guanine-9-) methyltransferase domain containing protein 2. TO BE PUBLISHED

Release Date

2012-08-22

Peptides

RNA (guanine-9-)-methyltransferase domain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

RNA (guanine-9-)-methyltransferase domain-containing protein 2

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