SMTL ID : 2py6.1

Crystal structure of Methyltransferase FkbM (YP_546752.1) from Methylobacillus flagellatus KT at 2.20 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-tetramer

Ligands

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

CL.1: 3 residues within 4Å: Chain A: N.41, I.138, H.140 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain B: N.41, I.138, H.140 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain C: N.41, I.138, H.140 Ligand excluded by PLIP CL.22: 3 residues within 4Å: Chain D: N.41, I.138, H.140 Ligand excluded by PLIP

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

EDO.2: 8 residues within 4Å: Chain A: E.144, D.161, D.162, W.163, F.196, H.197, C.200, R.401 Ligand excluded by PLIP EDO.3: 4 residues within 4Å: Chain A: H.287, G.288, C.289, R.326 Ligand excluded by PLIP EDO.4: 8 residues within 4Å: Chain A: P.16, L.17, A.18, M.19, N.20, V.187, Q.188, Y.191 Ligand excluded by PLIP EDO.5: 1 residues within 4Å: Chain A: R.169 Ligand excluded by PLIP EDO.9: 8 residues within 4Å: Chain B: E.144, D.161, D.162, W.163, F.196, H.197, C.200, R.401 Ligand excluded by PLIP EDO.10: 4 residues within 4Å: Chain B: H.287, G.288, C.289, R.326 Ligand excluded by PLIP EDO.11: 8 residues within 4Å: Chain B: P.16, L.17, A.18, M.19, N.20, V.187, Q.188, Y.191 Ligand excluded by PLIP EDO.12: 1 residues within 4Å: Chain B: R.169 Ligand excluded by PLIP EDO.16: 8 residues within 4Å: Chain C: E.144, D.161, D.162, W.163, F.196, H.197, C.200, R.401 Ligand excluded by PLIP EDO.17: 4 residues within 4Å: Chain C: H.287, G.288, C.289, R.326 Ligand excluded by PLIP EDO.18: 8 residues within 4Å: Chain C: P.16, L.17, A.18, M.19, N.20, V.187, Q.188, Y.191 Ligand excluded by PLIP EDO.19: 1 residues within 4Å: Chain C: R.169 Ligand excluded by PLIP EDO.23: 8 residues within 4Å: Chain D: E.144, D.161, D.162, W.163, F.196, H.197, C.200, R.401 Ligand excluded by PLIP EDO.24: 4 residues within 4Å: Chain D: H.287, G.288, C.289, R.326 Ligand excluded by PLIP EDO.25: 8 residues within 4Å: Chain D: P.16, L.17, A.18, M.19, N.20, V.187, Q.188, Y.191 Ligand excluded by PLIP EDO.26: 1 residues within 4Å: Chain D: R.169 Ligand excluded by PLIP

4 x UNL: UNKNOWN LIGAND

UNL.6: 9 residues within 4Å: Chain A: C.233, G.234, I.258, P.260, G.290, A.291, I.343, E.344, G.345 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.234, A:A.291, A:E.344, A:G.345 Water bridges: A:S.346, A:S.346 UNL.13: 9 residues within 4Å: Chain B: C.233, G.234, I.258, P.260, G.290, A.291, I.343, E.344, G.345 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.234, B:A.291, B:E.344, B:G.345 Water bridges: B:S.346, B:S.346 UNL.20: 9 residues within 4Å: Chain C: C.233, G.234, I.258, P.260, G.290, A.291, I.343, E.344, G.345 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:G.234, C:A.291, C:E.344, C:G.345 Water bridges: C:S.346, C:S.346 UNL.27: 9 residues within 4Å: Chain D: C.233, G.234, I.258, P.260, G.290, A.291, I.343, E.344, G.345 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:G.234, D:A.291, D:E.344, D:G.345 Water bridges: D:S.346, D:S.346

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 7 residues within 4Å: Chain A: I.237, G.238, E.239, A.242, V.271, R.274 Chain B: R.127 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:I.237, A:R.274, B:R.127 PEG.14: 7 residues within 4Å: Chain A: R.127 Chain B: I.237, G.238, E.239, A.242, V.271, R.274 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:I.237, B:R.274, A:R.127 PEG.21: 7 residues within 4Å: Chain C: I.237, G.238, E.239, A.242, V.271, R.274 Chain D: R.127 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:I.237, C:R.274, D:R.127 PEG.28: 7 residues within 4Å: Chain C: R.127 Chain D: I.237, G.238, E.239, A.242, V.271, R.274 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:I.237, D:R.274, C:R.127

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of Methyltransferase FkbM (YP_546752.1) from Methylobacillus flagellatus KT at 2.20 A resolution. To be published

Release Date

2007-05-29

Peptides

Methyltransferase FkbM: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Methyltransferase FkbM