SMTL ID : 4mtl.1

Human Methyltransferase-Like Protein 21C

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-tetramer

Ligands

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

SAH.1: 22 residues within 4Å: Chain A: Y.67, G.68, V.70, V.71, W.72, A.75, E.98, G.100, A.101, G.102, D.121, L.122, V.125, L.150, V.151, W.152, S.173, D.174, Y.177, F.181 Chain D: K.27 Ligands: UNX.7 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:W.72, A:A.75, A:G.100, A:L.122, A:W.152, A:S.173 Water bridges: A:G.68, A:G.100, A:V.106, A:S.173 pi-Stacking: A:W.152, A:W.152, A:W.152 SAH.18: 18 residues within 4Å: Chain A: S.208 Chain B: V.70, V.71, W.72, A.75, E.98, G.100, A.101, G.102, D.121, L.122, V.125, L.150, V.151, W.152, S.173, D.174, Y.180 22 PLIP interactions: 18 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:W.72, B:A.75, B:E.98, B:G.100, B:G.102, B:W.152, B:S.173, B:S.173, A:S.208 Water bridges: B:G.100, B:V.106, B:W.152, B:S.173, B:K.184, B:K.184, A:S.208, A:Y.211, A:Y.211 pi-Stacking: B:W.152, B:W.152, B:W.152, B:Y.180 SAH.40: 22 residues within 4Å: Chain B: K.27 Chain C: Y.67, G.68, V.70, V.71, W.72, A.75, E.98, G.100, A.101, G.102, D.121, L.122, V.125, L.150, V.151, W.152, S.173, D.174, Y.177, F.181 Ligands: UNX.46 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:W.72, C:A.75, C:E.98, C:G.100, C:L.122, C:W.152, C:S.173 Water bridges: C:G.68, C:G.100, C:V.106, C:S.173 pi-Stacking: C:W.152, C:W.152, C:W.152 SAH.57: 18 residues within 4Å: Chain C: S.208 Chain D: V.70, V.71, W.72, A.75, E.98, G.100, A.101, G.102, D.121, L.122, V.125, L.150, V.151, W.152, S.173, D.174, Y.180 20 PLIP interactions: 17 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:W.72, D:A.75, D:G.100, D:G.102, D:W.152, D:S.173, D:S.173, C:S.208 Water bridges: D:G.100, D:V.106, D:W.152, D:S.173, D:K.184, D:K.184, C:S.208, C:Y.211 pi-Stacking: D:W.152, D:W.152, D:W.152, D:Y.180

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

UNX.2: 2 residues within 4Å: Chain A: S.208, E.212 Ligand excluded by PLIP UNX.3: 4 residues within 4Å: Chain A: W.72, P.73, K.204, R.206 Ligand excluded by PLIP UNX.4: 2 residues within 4Å: Chain A: A.227, E.228 Ligand excluded by PLIP UNX.5: 2 residues within 4Å: Chain A: A.77, Q.80 Ligand excluded by PLIP UNX.6: 2 residues within 4Å: Chain A: Y.229, E.231 Ligand excluded by PLIP UNX.7: 5 residues within 4Å: Chain A: V.151, W.152, F.181, K.184 Ligands: SAH.1 Ligand excluded by PLIP UNX.8: 2 residues within 4Å: Chain A: D.157, Y.191 Ligand excluded by PLIP UNX.9: 4 residues within 4Å: Chain A: D.157, P.161, K.162, Y.191 Ligand excluded by PLIP UNX.10: 5 residues within 4Å: Chain A: Y.166, Y.167, L.192, Q.194, T.197 Ligand excluded by PLIP UNX.11: 2 residues within 4Å: Chain A: W.243, D.244 Ligand excluded by PLIP UNX.12: 5 residues within 4Å: Chain A: R.206, F.207 Chain D: S.25, N.26, K.27 Ligand excluded by PLIP UNX.13: 2 residues within 4Å: Chain A: Q.80, Y.229 Ligand excluded by PLIP UNX.14: 2 residues within 4Å: Chain A: V.198, K.238 Ligand excluded by PLIP UNX.15: 3 residues within 4Å: Chain A: V.70, V.71, W.72 Ligand excluded by PLIP UNX.16: 6 residues within 4Å: Chain A: E.98, A.101, G.104, L.105, V.106, S.107 Ligand excluded by PLIP UNX.17: 1 residues within 4Å: Chain A: Y.51 Ligand excluded by PLIP UNX.19: 5 residues within 4Å: Chain A: P.230 Chain B: F.181, L.182, D.183, K.184 Ligand excluded by PLIP UNX.20: 5 residues within 4Å: Chain A: E.212 Chain B: S.63, S.66, Y.67, G.68 Ligand excluded by PLIP UNX.21: 5 residues within 4Å: Chain B: V.39, P.40, T.41, G.127 Ligands: UNX.28 Ligand excluded by PLIP UNX.22: 2 residues within 4Å: Chain B: P.73, R.206 Ligand excluded by PLIP UNX.23: 2 residues within 4Å: Chain B: F.207, S.208 Ligand excluded by PLIP UNX.24: 2 residues within 4Å: Chain B: A.227, E.228 Ligand excluded by PLIP UNX.25: 3 residues within 4Å: Chain B: Q.130, E.146, V.147 Ligand excluded by PLIP UNX.26: 4 residues within 4Å: Chain B: G.153, E.154, D.155, L.156 Ligand excluded by PLIP UNX.27: 3 residues within 4Å: Chain D: N.26, H.33, Q.36 Ligand excluded by PLIP UNX.28: 4 residues within 4Å: Chain B: P.40, T.41 Ligands: UNX.21, UNX.67 Ligand excluded by PLIP UNX.29: 7 residues within 4Å: Chain B: Y.43, Y.46, Q.61 Chain D: Y.43 Ligands: UNX.39, UNX.68, UNX.78 Ligand excluded by PLIP UNX.30: 3 residues within 4Å: Chain B: Q.48, Q.61 Chain D: A.44 Ligand excluded by PLIP UNX.31: 5 residues within 4Å: Chain B: R.52, F.53, A.54, G.55, E.83 Ligand excluded by PLIP UNX.32: 4 residues within 4Å: Chain B: L.182, T.209, E.212, F.213 Ligand excluded by PLIP UNX.33: 1 residues within 4Å: Chain B: L.225 Ligand excluded by PLIP UNX.34: 7 residues within 4Å: Chain A: E.228, K.235 Chain B: H.178, H.179, Y.180 Ligands: UNX.35, UNX.36 Ligand excluded by PLIP UNX.35: 4 residues within 4Å: Chain B: H.178, Y.180 Ligands: UNX.34, UNX.36 Ligand excluded by PLIP UNX.36: 4 residues within 4Å: Chain B: Y.180, L.182 Ligands: UNX.34, UNX.35 Ligand excluded by PLIP UNX.37: 2 residues within 4Å: Chain B: Q.139, T.141 Ligand excluded by PLIP UNX.38: 6 residues within 4Å: Chain B: E.98, A.101, G.104, L.105, V.106, S.107 Ligand excluded by PLIP UNX.39: 6 residues within 4Å: Chain B: Y.43, A.44, Y.46 Ligands: UNX.29, UNX.68, UNX.78 Ligand excluded by PLIP UNX.41: 2 residues within 4Å: Chain C: S.208, E.212 Ligand excluded by PLIP UNX.42: 4 residues within 4Å: Chain C: W.72, P.73, K.204, R.206 Ligand excluded by PLIP UNX.43: 2 residues within 4Å: Chain C: A.227, E.228 Ligand excluded by PLIP UNX.44: 2 residues within 4Å: Chain C: A.77, Q.80 Ligand excluded by PLIP UNX.45: 2 residues within 4Å: Chain C: Y.229, E.231 Ligand excluded by PLIP UNX.46: 5 residues within 4Å: Chain C: V.151, W.152, F.181, K.184 Ligands: SAH.40 Ligand excluded by PLIP UNX.47: 2 residues within 4Å: Chain C: D.157, Y.191 Ligand excluded by PLIP UNX.48: 4 residues within 4Å: Chain C: D.157, P.161, K.162, Y.191 Ligand excluded by PLIP UNX.49: 5 residues within 4Å: Chain C: Y.166, Y.167, L.192, Q.194, T.197 Ligand excluded by PLIP UNX.50: 2 residues within 4Å: Chain C: W.243, D.244 Ligand excluded by PLIP UNX.51: 5 residues within 4Å: Chain B: S.25, N.26, K.27 Chain C: R.206, F.207 Ligand excluded by PLIP UNX.52: 2 residues within 4Å: Chain C: Q.80, Y.229 Ligand excluded by PLIP UNX.53: 2 residues within 4Å: Chain C: V.198, K.238 Ligand excluded by PLIP UNX.54: 3 residues within 4Å: Chain C: V.70, V.71, W.72 Ligand excluded by PLIP UNX.55: 6 residues within 4Å: Chain C: E.98, A.101, G.104, L.105, V.106, S.107 Ligand excluded by PLIP UNX.56: 1 residues within 4Å: Chain C: Y.51 Ligand excluded by PLIP UNX.58: 5 residues within 4Å: Chain C: P.230 Chain D: F.181, L.182, D.183, K.184 Ligand excluded by PLIP UNX.59: 5 residues within 4Å: Chain C: E.212 Chain D: S.63, S.66, Y.67, G.68 Ligand excluded by PLIP UNX.60: 5 residues within 4Å: Chain D: V.39, P.40, T.41, G.127 Ligands: UNX.67 Ligand excluded by PLIP UNX.61: 2 residues within 4Å: Chain D: P.73, R.206 Ligand excluded by PLIP UNX.62: 2 residues within 4Å: Chain D: F.207, S.208 Ligand excluded by PLIP UNX.63: 2 residues within 4Å: Chain D: A.227, E.228 Ligand excluded by PLIP UNX.64: 3 residues within 4Å: Chain D: Q.130, E.146, V.147 Ligand excluded by PLIP UNX.65: 4 residues within 4Å: Chain D: G.153, E.154, D.155, L.156 Ligand excluded by PLIP UNX.66: 3 residues within 4Å: Chain B: N.26, H.33, Q.36 Ligand excluded by PLIP UNX.67: 4 residues within 4Å: Chain D: P.40, T.41 Ligands: UNX.28, UNX.60 Ligand excluded by PLIP UNX.68: 7 residues within 4Å: Chain B: Y.43 Chain D: Y.43, Y.46, Q.61 Ligands: UNX.29, UNX.39, UNX.78 Ligand excluded by PLIP UNX.69: 3 residues within 4Å: Chain B: A.44 Chain D: Q.48, Q.61 Ligand excluded by PLIP UNX.70: 5 residues within 4Å: Chain D: R.52, F.53, A.54, G.55, E.83 Ligand excluded by PLIP UNX.71: 4 residues within 4Å: Chain D: L.182, T.209, E.212, F.213 Ligand excluded by PLIP UNX.72: 1 residues within 4Å: Chain D: L.225 Ligand excluded by PLIP UNX.73: 7 residues within 4Å: Chain C: E.228, K.235 Chain D: H.178, H.179, Y.180 Ligands: UNX.74, UNX.75 Ligand excluded by PLIP UNX.74: 4 residues within 4Å: Chain D: H.178, Y.180 Ligands: UNX.73, UNX.75 Ligand excluded by PLIP UNX.75: 4 residues within 4Å: Chain D: Y.180, L.182 Ligands: UNX.73, UNX.74 Ligand excluded by PLIP UNX.76: 2 residues within 4Å: Chain D: Q.139, T.141 Ligand excluded by PLIP UNX.77: 6 residues within 4Å: Chain D: E.98, A.101, G.104, L.105, V.106, S.107 Ligand excluded by PLIP UNX.78: 6 residues within 4Å: Chain D: Y.43, A.44, Y.46 Ligands: UNX.29, UNX.39, UNX.68 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hong, B.S. et al., Human Methyltransferase-Like Protein 21C. To be Published

Release Date

2013-10-23

Peptides

Protein-lysine methyltransferase METTL21C: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Protein-lysine methyltransferase METTL21C