SMTL ID : 9bht.1

Septin Hexameric Complex SEPT2/SEPT6/SEPT7 of Ciona intestinalis by Cryo-EM

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-mer

Ligands

4 x GDP: GUANOSINE-5'-DIPHOSPHATE(Covalent)(Non-covalent)

GDP.1: 16 residues within 4Å: Chain A: S.127, G.128, L.129, G.130, K.131, S.132, T.133, K.264, D.266, V.321, G.322, R.337, Y.339 Chain B: H.167, I.195, E.200 18 PLIP interactions: 16 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.128, A:L.129, A:G.130, A:S.132, A:S.132, A:T.133, A:T.133, A:K.264, A:G.322, A:R.337, B:I.195 Salt bridges: A:K.131, A:D.266, B:H.167 pi-Cation interactions: A:K.264, A:K.264, A:R.337, A:R.337 GDP.3: 19 residues within 4Å: Chain C: E.46, S.47, G.48, L.49, G.50, K.51, S.52, T.53, S.72, K.183, D.185, V.237, G.238, R.253, Y.255 Chain D: T.156, H.158, T.186, E.191 19 PLIP interactions: 16 interactions with chain C, 3 interactions with chain D Hydrogen bonds: C:G.48, C:L.49, C:G.50, C:K.51, C:S.52, C:T.53, C:T.53, C:K.183, C:G.238, C:R.253, C:R.253, D:T.186 Salt bridges: C:K.51, C:D.185, D:H.158, D:H.158 pi-Cation interactions: C:K.183, C:K.183, C:R.253 GDP.4: 19 residues within 4Å: Chain C: H.158, T.186, E.191 Chain D: G.48, L.49, G.50, K.51, S.52, T.53, S.72, L.73, K.183, D.185, T.186, V.236, V.237, G.238, R.253, Y.255 17 PLIP interactions: 14 interactions with chain D, 3 interactions with chain C Hydrogen bonds: D:G.48, D:L.49, D:G.50, D:K.51, D:S.52, D:T.53, D:S.72, D:K.183, D:A.184, D:G.238, D:R.253, D:R.253, C:T.186 Salt bridges: D:K.51, D:D.185, C:H.158, C:H.158 GDP.6: 15 residues within 4Å: Chain E: H.167, I.195, E.200 Chain F: G.128, L.129, G.130, K.131, S.132, T.133, K.264, D.266, V.321, G.322, R.337, Y.339 19 PLIP interactions: 15 interactions with chain F, 4 interactions with chain E Hydrogen bonds: F:G.128, F:L.129, F:G.130, F:S.132, F:S.132, F:S.132, F:T.133, F:K.264, F:G.322, F:R.337, F:R.337, E:I.195, E:E.200 Salt bridges: F:K.131, F:D.266, E:H.167, E:H.167 pi-Cation interactions: F:R.337, F:R.337

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Covalent)(Non-covalent)

GTP.2: 18 residues within 4Å: Chain A: H.239, S.267, E.272 Chain B: T.58, G.59, L.60, G.61, K.62, S.63, T.64, E.77, Q.79, K.192, D.194, V.245, G.246, R.261, Y.263 20 PLIP interactions: 16 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:G.59, B:L.60, B:K.62, B:S.63, B:S.63, B:S.63, B:T.64, B:E.77, B:E.77, B:Q.79, B:G.246, B:R.261, B:Y.263, A:S.267 Salt bridges: B:K.62, B:D.194, A:H.239, A:H.239, A:H.239 pi-Cation interactions: B:R.261 GTP.5: 18 residues within 4Å: Chain E: T.58, G.59, L.60, G.61, K.62, S.63, T.64, E.77, Q.79, D.108, K.192, D.194, V.245, G.246, R.261, Y.263 Chain F: H.239, S.267 21 PLIP interactions: 18 interactions with chain E, 3 interactions with chain F Hydrogen bonds: E:G.59, E:L.60, E:G.61, E:K.62, E:S.63, E:S.63, E:S.63, E:T.64, E:T.64, E:Q.79, E:D.108, E:K.192, E:G.246, E:R.261, E:R.261, F:S.267 Salt bridges: E:K.62, E:K.62, E:D.194, F:H.239, F:H.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mendonca, D.C. et al., Structural Insights into Ciona intestinalis Septins: Complexes Suggest a Mechanism for Nucleotide-dependent Interfacial Cross-talk. J.Mol.Biol. (2024)

Release Date

2024-07-10

Peptides

CiSeptin-2: AF
CiSeptin-6: BE
CiSeptin-7: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

F
F

B
B

E
E

C
C

D
D

CiSeptin-2

CiSeptin-6

CiSeptin-7

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