SMTL ID : 7d8v.1

Crystal Structure of A Kinesin-3 KIF13B mutant-T192Y

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.1: 6 residues within 4Å: Chain A: A.190, V.191, D.196, S.199, L.200 Ligands: TRS.4 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.196, A:D.196, A:D.196, A:S.199 TRS.4: 6 residues within 4Å: Chain B: A.190, V.191, D.196, S.199, L.200 Ligands: TRS.1 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.196, B:D.196, B:S.199

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 13 residues within 4Å: Chain A: R.11, R.13, P.14, S.64, Q.104, T.105, G.106, S.107, G.108, K.109, S.110, Y.111 Ligands: MG.3 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:R.11, A:G.106, A:S.107, A:G.108, A:K.109, A:S.110, A:Y.111 Water bridges: A:T.105, A:K.109 Salt bridges: A:K.109 pi-Stacking: A:Y.111, A:Y.111 pi-Cation interactions: A:R.13 ADP.5: 13 residues within 4Å: Chain B: R.11, R.13, P.14, S.64, Q.104, T.105, G.106, S.107, G.108, K.109, S.110, Y.111 Ligands: MG.6 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:R.11, B:G.106, B:S.107, B:G.108, B:K.109, B:S.110, B:Y.111 Water bridges: B:T.105, B:K.109 Salt bridges: B:K.109 pi-Stacking: B:Y.111, B:Y.111 pi-Cation interactions: B:R.13

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: S.110 Ligands: ADP.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.110, H2O.1, H2O.3, H2O.3, H2O.4 MG.6: 2 residues within 4Å: Chain B: S.110 Ligands: ADP.5 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:S.110, H2O.5, H2O.7, H2O.7, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cong, D.Z. et al., Motor domain-mediated autoinhibition dictates axonal transport by the kinesin UNC-104/KIF1A. Plos Genet. (2021)

Release Date

2021-10-13

Peptides

Kinesin family member 13B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Kinesin family member 13B