SMTL ID : 3ut1.1

Crystal structure of the 3-MBT repeat domain of L3MBTL3

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

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

CO.1: 2 residues within 4Å: Chain A: H.195, H.276 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.195, A:H.276, H2O.2, H2O.3, H2O.3 CO.2: 2 residues within 4Å: Chain A: H.177, N.180 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.177, H2O.3 CO.3: 3 residues within 4Å: Chain A: W.201, H.205 Chain B: D.275 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.205 CO.4: 1 residues within 4Å: Chain A: H.103 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.103 CO.5: 1 residues within 4Å: Chain A: H.50 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.50 CO.19: 2 residues within 4Å: Chain B: H.195, H.276 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.195, B:H.276, H2O.5, H2O.6, H2O.6 CO.20: 2 residues within 4Å: Chain B: H.177, N.180 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.177, H2O.6 CO.21: 3 residues within 4Å: Chain A: D.275 Chain B: W.201, H.205 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.205 CO.22: 1 residues within 4Å: Chain B: H.103 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.103 CO.23: 1 residues within 4Å: Chain B: H.50 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.50

2 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.6: 8 residues within 4Å: Chain A: D.154, N.157, F.160, C.162, F.178, W.181, Y.185, I.210 4 PLIP interactions: 4 interactions with chain A Salt bridges: A:D.154 pi-Cation interactions: A:F.160, A:W.181, A:W.181 EPE.24: 8 residues within 4Å: Chain B: D.154, N.157, F.160, C.162, F.178, W.181, Y.185, I.210 4 PLIP interactions: 4 interactions with chain B Salt bridges: B:D.154 pi-Cation interactions: B:F.160, B:W.181, B:W.181

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

UNX.7: 7 residues within 4Å: Chain A: E.44, G.93, W.94, C.95, E.96, L.102, W.115 Ligand excluded by PLIP UNX.8: 4 residues within 4Å: Chain A: P.48, E.49, F.80 Ligands: UNX.9 Ligand excluded by PLIP UNX.9: 3 residues within 4Å: Chain A: Y.78, F.80 Ligands: UNX.8 Ligand excluded by PLIP UNX.10: 1 residues within 4Å: Chain A: D.47 Ligand excluded by PLIP UNX.11: 2 residues within 4Å: Chain A: K.38, V.39 Ligand excluded by PLIP UNX.12: 2 residues within 4Å: Chain A: Y.74, S.75 Ligand excluded by PLIP UNX.13: 1 residues within 4Å: Chain A: Y.74 Ligand excluded by PLIP UNX.14: 3 residues within 4Å: Chain A: F.221, S.222, W.223 Ligand excluded by PLIP UNX.15: 2 residues within 4Å: Chain A: Q.249, K.250 Ligand excluded by PLIP UNX.16: 4 residues within 4Å: Chain A: P.91, W.94, K.97, Q.135 Ligand excluded by PLIP UNX.17: 2 residues within 4Å: Chain A: P.236, A.237 Ligand excluded by PLIP UNX.18: 4 residues within 4Å: Chain A: K.25, E.26, H.27, Q.28 Ligand excluded by PLIP UNX.25: 7 residues within 4Å: Chain B: E.44, G.93, W.94, C.95, E.96, L.102, W.115 Ligand excluded by PLIP UNX.26: 4 residues within 4Å: Chain B: P.48, E.49, F.80 Ligands: UNX.27 Ligand excluded by PLIP UNX.27: 3 residues within 4Å: Chain B: Y.78, F.80 Ligands: UNX.26 Ligand excluded by PLIP UNX.28: 1 residues within 4Å: Chain B: D.47 Ligand excluded by PLIP UNX.29: 2 residues within 4Å: Chain B: K.38, V.39 Ligand excluded by PLIP UNX.30: 2 residues within 4Å: Chain B: Y.74, S.75 Ligand excluded by PLIP UNX.31: 1 residues within 4Å: Chain B: Y.74 Ligand excluded by PLIP UNX.32: 3 residues within 4Å: Chain B: F.221, S.222, W.223 Ligand excluded by PLIP UNX.33: 2 residues within 4Å: Chain B: Q.249, K.250 Ligand excluded by PLIP UNX.34: 4 residues within 4Å: Chain B: P.91, W.94, K.97, Q.135 Ligand excluded by PLIP UNX.35: 2 residues within 4Å: Chain B: P.236, A.237 Ligand excluded by PLIP UNX.36: 4 residues within 4Å: Chain B: K.25, E.26, H.27, Q.28 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhong, N. et al., Crystal structure of the 3-MBT repeat domain of L3MBTL3. to be published

Release Date

2011-12-28

Peptides

Lethal(3)malignant brain tumor-like protein 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Lethal(3)malignant brain tumor-like protein 3