SMTL ID : 7tfc.1

B. subtilis GS(14)-Q-GlnR peptide

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-14-14-mer

Ligands

28 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.154, E.209, E.216 Ligands: GLN.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.209, A:E.216 MG.2: 3 residues within 4Å: Chain A: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.152, A:E.353 MG.4: 4 residues within 4Å: Chain B: E.154, E.209, E.216 Ligands: GLN.6 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.154, B:E.209, B:E.216 MG.5: 3 residues within 4Å: Chain B: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.152, B:E.353 MG.7: 4 residues within 4Å: Chain C: E.154, E.209, E.216 Ligands: GLN.9 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.154, C:E.209, C:E.216 MG.8: 3 residues within 4Å: Chain C: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:E.152, C:E.353 MG.10: 4 residues within 4Å: Chain F: E.154, E.209, E.216 Ligands: GLN.12 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:E.154, F:E.209, F:E.216 MG.11: 3 residues within 4Å: Chain F: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:E.152, F:E.353 MG.13: 4 residues within 4Å: Chain G: E.154, E.209, E.216 Ligands: GLN.15 3 PLIP interactions: 3 interactions with chain G Metal complexes: G:E.154, G:E.209, G:E.216 MG.14: 3 residues within 4Å: Chain G: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:E.152, G:E.353 MG.16: 5 residues within 4Å: Chain H: E.154, H.207, E.209, E.216 Ligands: GLN.18 3 PLIP interactions: 3 interactions with chain H Metal complexes: H:E.154, H:E.209, H:E.216 MG.17: 3 residues within 4Å: Chain H: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain H Metal complexes: H:E.152, H:E.353 MG.19: 4 residues within 4Å: Chain I: E.154, E.209, E.216 Ligands: GLN.21 3 PLIP interactions: 3 interactions with chain I Metal complexes: I:E.154, I:E.209, I:E.216 MG.20: 3 residues within 4Å: Chain I: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:E.152, I:E.353 MG.22: 4 residues within 4Å: Chain N: E.154, E.209, E.216 Ligands: GLN.24 3 PLIP interactions: 3 interactions with chain N Metal complexes: N:E.154, N:E.209, N:E.216 MG.23: 3 residues within 4Å: Chain N: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain N Metal complexes: N:E.152, N:E.353 MG.25: 5 residues within 4Å: Chain O: E.154, H.207, E.209, E.216 Ligands: GLN.27 3 PLIP interactions: 3 interactions with chain O Metal complexes: O:E.154, O:E.209, O:E.216 MG.26: 3 residues within 4Å: Chain O: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain O Metal complexes: O:E.152, O:E.353 MG.28: 4 residues within 4Å: Chain P: E.154, E.209, E.216 Ligands: GLN.30 3 PLIP interactions: 3 interactions with chain P Metal complexes: P:E.154, P:E.209, P:E.216 MG.29: 3 residues within 4Å: Chain P: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain P Metal complexes: P:E.152, P:E.353 MG.31: 4 residues within 4Å: Chain Q: E.154, E.209, E.216 Ligands: GLN.33 3 PLIP interactions: 3 interactions with chain Q Metal complexes: Q:E.154, Q:E.209, Q:E.216 MG.32: 3 residues within 4Å: Chain Q: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain Q Metal complexes: Q:E.152, Q:E.353 MG.34: 4 residues within 4Å: Chain R: E.154, E.209, E.216 Ligands: GLN.36 3 PLIP interactions: 3 interactions with chain R Metal complexes: R:E.154, R:E.209, R:E.216 MG.35: 3 residues within 4Å: Chain R: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain R Metal complexes: R:E.152, R:E.353 MG.37: 4 residues within 4Å: Chain S: E.154, E.209, E.216 Ligands: GLN.39 3 PLIP interactions: 3 interactions with chain S Metal complexes: S:E.154, S:E.209, S:E.216 MG.38: 3 residues within 4Å: Chain S: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain S Metal complexes: S:E.152, S:E.353 MG.40: 4 residues within 4Å: Chain T: E.154, E.209, E.216 Ligands: GLN.42 3 PLIP interactions: 3 interactions with chain T Metal complexes: T:E.154, T:E.209, T:E.216 MG.41: 3 residues within 4Å: Chain T: E.152, H.265, E.353 2 PLIP interactions: 2 interactions with chain T Metal complexes: T:E.152, T:E.353

14 x GLN: GLUTAMINE(Non-covalent)

GLN.3: 15 residues within 4Å: Chain A: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain N: R.82 Ligands: MG.1 9 PLIP interactions: 7 interactions with chain A, 2 Ligand-Ligand interactions Hydrogen bonds: A:E.154, A:Y.176, A:E.209, A:N.260, A:G.261, Q.3, Q.3 Salt bridges: A:H.265, A:R.318 GLN.6: 15 residues within 4Å: Chain B: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain C: R.82 Ligands: MG.4 8 PLIP interactions: 2 Ligand-Ligand interactions, 6 interactions with chain B Hydrogen bonds: Q.6, Q.6, B:E.154, B:Y.176, B:N.260, B:G.261 Salt bridges: B:H.265, B:R.318 GLN.9: 15 residues within 4Å: Chain C: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain Q: R.82 Ligands: MG.7 8 PLIP interactions: 6 interactions with chain C, 2 Ligand-Ligand interactions Hydrogen bonds: C:E.154, C:Y.176, C:N.260, C:G.261, Q.9, Q.9 Salt bridges: C:H.265, C:R.318 GLN.12: 15 residues within 4Å: Chain F: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain G: R.82 Ligands: MG.10 7 PLIP interactions: 1 Ligand-Ligand interactions, 6 interactions with chain F Hydrogen bonds: Q.12, F:E.154, F:Y.176, F:N.260, F:E.324 Salt bridges: F:H.265, F:R.318 GLN.15: 16 residues within 4Å: Chain G: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain H: D.73, R.82 Ligands: MG.13 7 PLIP interactions: 6 interactions with chain G, 1 Ligand-Ligand interactions Hydrogen bonds: G:E.154, G:Y.176, G:N.260, G:E.324, Q.15 Salt bridges: G:H.265, G:R.318 GLN.18: 15 residues within 4Å: Chain H: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain S: R.82 Ligands: MG.16 7 PLIP interactions: 6 interactions with chain H, 1 Ligand-Ligand interactions Hydrogen bonds: H:E.154, H:Y.176, H:N.260, H:E.324, Q.18 Salt bridges: H:H.265, H:R.318 GLN.21: 15 residues within 4Å: Chain I: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain R: R.82 Ligands: MG.19 7 PLIP interactions: 6 interactions with chain I, 1 Ligand-Ligand interactions Hydrogen bonds: I:Y.176, I:N.260, I:G.261, I:E.324, Q.21 Salt bridges: I:H.265, I:R.318 GLN.24: 15 residues within 4Å: Chain N: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain O: R.82 Ligands: MG.22 8 PLIP interactions: 6 interactions with chain N, 2 Ligand-Ligand interactions Hydrogen bonds: N:Y.176, N:N.260, N:G.261, N:G.261, Q.24, Q.24 Salt bridges: N:H.265, N:R.318 GLN.27: 15 residues within 4Å: Chain O: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain P: R.82 Ligands: MG.25 8 PLIP interactions: 6 interactions with chain O, 2 Ligand-Ligand interactions Hydrogen bonds: O:E.154, O:Y.176, O:N.260, O:G.261, Q.27, Q.27 Salt bridges: O:H.265, O:R.318 GLN.30: 16 residues within 4Å: Chain B: D.73, R.82 Chain P: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Ligands: MG.28 8 PLIP interactions: 6 interactions with chain P, 2 Ligand-Ligand interactions Hydrogen bonds: P:E.154, P:Y.176, P:N.260, P:G.261, Q.30, Q.30 Salt bridges: P:H.265, P:R.318 GLN.33: 15 residues within 4Å: Chain A: R.82 Chain Q: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Ligands: MG.31 8 PLIP interactions: 6 interactions with chain Q, 2 Ligand-Ligand interactions Hydrogen bonds: Q:Y.176, Q:N.260, Q:G.261, Q:G.261, Q.33, Q.33 Salt bridges: Q:H.265, Q:R.318 GLN.36: 15 residues within 4Å: Chain F: R.82 Chain R: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Ligands: MG.34 7 PLIP interactions: 5 interactions with chain R, 1 interactions with chain F, 1 Ligand-Ligand interactions Hydrogen bonds: R:E.154, R:Y.176, R:N.260, F:R.82, Q.36 Salt bridges: R:H.265, R:R.318 GLN.39: 15 residues within 4Å: Chain S: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Chain T: R.82 Ligands: MG.37 6 PLIP interactions: 5 interactions with chain S, 1 Ligand-Ligand interactions Hydrogen bonds: S:E.154, S:Y.176, S:N.260, Q.39 Salt bridges: S:H.265, S:R.318 GLN.42: 15 residues within 4Å: Chain I: R.82 Chain T: E.154, Y.176, E.209, V.210, Q.214, N.260, G.261, S.262, G.263, H.265, R.318, Y.323, E.324 Ligands: MG.40 7 PLIP interactions: 6 interactions with chain T, 1 Ligand-Ligand interactions Hydrogen bonds: T:E.154, T:Y.176, T:N.260, T:E.324, Q.42 Salt bridges: T:H.265, T:R.318

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Travis, B.A. et al., Molecular dissection of the glutamine synthetase-GlnR nitrogen regulatory circuitry in Gram-positive bacteria. Nat Commun (2022)

Release Date

2022-06-29

Peptides

Glutamine synthetase: ABCFGHINOPQRST
GlnR C-tail peptide: DEJKLMUVWXYZ01

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

F
F

G
G

H
H

I
I

N
N

O
O

P
P

Q
Q

R
R

S
S

T
T

D
D

E
E

J
J

K
K

L
L

M
M

U
U

V
V

W
W

X
X

Y
Y

Z
Z

0
a

1
b

Glutamine synthetase

GlnR C-tail peptide