SMTL ID : 6vzu.2 (3 other biounits)

TTLL6 bound to alpha-elongation analog

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

monomer

Ligands

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: R.18, Y.19, D.20, S.317 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.20, A:D.20, A:S.317 Water bridges: A:D.20, A:S.21, A:T.318 GOL.2: 6 residues within 4Å: Chain A: N.186, N.240, E.251, W.254, R.255, R.395 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:E.251, A:R.255, A:R.255, A:R.395 Water bridges: A:N.186, A:N.186, A:N.240, A:N.240, A:R.395 GOL.3: 6 residues within 4Å: Chain A: E.258, I.262, I.397, N.402, K.405, Y.406 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.255, A:I.397, A:K.405, A:K.405 Water bridges: A:R.255 GOL.4: 6 residues within 4Å: Chain A: S.83, R.98, T.99, W.100, D.105, D.108 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.83, A:R.98, A:W.100, A:D.105 Water bridges: A:T.99

1 x RZP: (2~{S})-2-[[[(1~{R})-1-acetamido-4-oxidanyl-4-oxidanylidene-butyl]-phosphonooxy-phosphoryl]methyl]pentanedioic acid(Non-covalent)

RZP.5: 22 residues within 4Å: Chain A: Y.19, C.129, Q.130, R.169, L.189, R.191, N.214, Y.215, S.216, K.233, D.296, E.309, N.311, H.312, S.313, P.314, S.315, D.323, K.327 Ligands: ADP.6, MG.7, MG.8 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:N.311 Hydrogen bonds: A:Q.130, A:R.169, A:R.169, A:N.214, A:Y.215, A:S.216, A:N.311, A:H.312, A:S.313, A:S.313, A:S.313, A:S.315 Water bridges: A:K.75, A:Y.171, A:R.191, A:N.214, A:H.312, A:H.312 Salt bridges: A:R.169, A:R.191, A:R.191, A:K.233, A:H.312, A:K.327

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

ADP.6: 27 residues within 4Å: Chain A: K.75, P.97, I.122, K.124, G.128, C.129, Q.130, G.131, I.134, Q.152, L.153, Y.154, I.155, K.165, D.167, R.191, H.211, L.212, T.213, N.214, D.296, L.298, L.308, E.309 Ligands: RZP.5, MG.7, MG.8 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:K.124, A:C.129, A:Q.130, A:G.131, A:Q.152, A:I.155, A:K.165, A:T.213, A:T.213, A:N.214, A:D.296 Water bridges: A:R.191, A:R.191 Salt bridges: A:K.75, A:K.75, A:K.124

2 x MG: MAGNESIUM ION(Non-covalent)

MG.7: 6 residues within 4Å: Chain A: N.214, D.296, E.309 Ligands: RZP.5, ADP.6, MG.8 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.296, A:E.309, H2O.3 MG.8: 6 residues within 4Å: Chain A: K.75, E.309, N.311 Ligands: RZP.5, ADP.6, MG.7 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.309, A:E.309, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mahalingan, K.K. et al., Structural basis for polyglutamate chain initiation and elongation by TTLL family enzymes. Nat.Struct.Mol.Biol. (2020)

Release Date

2020-08-12

Peptides

Tubulin polyglutamylase TTLL6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Tubulin polyglutamylase TTLL6

Related Entries With Identical Sequence