SMTL ID : 9wf6.1 (1 other biounit)

Crystal Structure of Escherichia coli GroEL with Magnesium Ions and a Phosphorylated Serine Residue-3.0 A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

homo-14-mer

Ligands

20 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.1: 5 residues within 4Å: Chain A: V.29, R.36, Q.453, N.457 Chain B: E.518 Ligand excluded by PLIP BME.5: 3 residues within 4Å: Chain B: P.137, Q.146, I.489 Ligand excluded by PLIP BME.6: 5 residues within 4Å: Chain B: V.29, R.36, Q.453, N.457 Chain C: E.518 Ligand excluded by PLIP BME.9: 6 residues within 4Å: Chain C: V.29, R.36, Q.453, L.456, N.457 Chain D: E.518 Ligand excluded by PLIP BME.11: 2 residues within 4Å: Chain D: Q.146, I.489 Ligand excluded by PLIP BME.12: 2 residues within 4Å: Chain D: E.216 Chain E: E.252 Ligand excluded by PLIP BME.13: 3 residues within 4Å: Chain D: R.445, E.448, R.452 Ligand excluded by PLIP BME.17: 4 residues within 4Å: Chain E: V.189, V.190, E.191, A.373 Ligand excluded by PLIP BME.18: 2 residues within 4Å: Chain E: E.409, G.410 Ligand excluded by PLIP BME.19: 2 residues within 4Å: Chain E: N.457 Chain F: E.518 Ligand excluded by PLIP BME.24: 6 residues within 4Å: Chain F: V.29, R.36, Q.453, L.456, N.457 Chain G: E.518 Ligand excluded by PLIP BME.28: 5 residues within 4Å: Chain G: P.137, C.138, A.143, V.147, I.489 Ligand excluded by PLIP BME.29: 4 residues within 4Å: Chain A: E.518 Chain G: V.29, R.36, N.457 Ligand excluded by PLIP BME.30: 5 residues within 4Å: Chain G: D.83, A.84, A.85, G.86, H.401 Ligand excluded by PLIP BME.31: 4 residues within 4Å: Chain G: K.425, K.470, G.472, D.473 Ligand excluded by PLIP BME.34: 5 residues within 4Å: Chain H: V.29, R.36, Q.453, N.457 Chain I: E.518 Ligand excluded by PLIP BME.40: 2 residues within 4Å: Chain J: N.457 Chain K: E.518 Ligand excluded by PLIP BME.42: 4 residues within 4Å: Chain K: V.29, Q.453, L.456, N.457 Ligand excluded by PLIP BME.45: 5 residues within 4Å: Chain M: V.29, R.36, Q.453, N.457 Chain N: E.518 Ligand excluded by PLIP BME.48: 5 residues within 4Å: Chain H: E.518 Chain N: R.36, Q.453, L.456, N.457 Ligand excluded by PLIP

21 x HEZ: HEXANE-1,6-DIOL(Non-covalent)

HEZ.2: 4 residues within 4Å: Chain A: R.501, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.3: 7 residues within 4Å: Chain A: N.82, D.83, A.84, A.85, G.86, N.326, H.401 Ligand excluded by PLIP HEZ.7: 5 residues within 4Å: Chain B: A.84, R.501, S.502, Q.505, Y.506 Ligand excluded by PLIP HEZ.8: 9 residues within 4Å: Chain A: A.384, T.385, E.386 Chain B: G.280, F.281, R.284, M.288, K.364, E.367 Ligand excluded by PLIP HEZ.10: 3 residues within 4Å: Chain C: R.501, Q.505, Y.506 Ligand excluded by PLIP HEZ.14: 6 residues within 4Å: Chain D: A.84, R.501, S.502, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.15: 8 residues within 4Å: Chain D: D.83, A.84, A.85, N.326, H.401, R.404, A.405, K.498 Ligand excluded by PLIP HEZ.20: 4 residues within 4Å: Chain E: R.501, S.502, Q.505, Y.506 Ligand excluded by PLIP HEZ.21: 8 residues within 4Å: Chain E: V.136, P.137, C.138, A.143, Q.146, I.150, V.411, I.489 Ligand excluded by PLIP HEZ.22: 5 residues within 4Å: Chain E: D.83, A.84, H.401, A.405, K.498 Ligand excluded by PLIP HEZ.25: 6 residues within 4Å: Chain F: A.84, R.501, S.502, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.26: 10 residues within 4Å: Chain F: V.136, P.137, C.138, A.143, Q.146, V.147, I.150, I.489, D.490, L.494 Ligand excluded by PLIP HEZ.32: 6 residues within 4Å: Chain G: A.84, R.501, S.502, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.35: 4 residues within 4Å: Chain H: R.501, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.38: 6 residues within 4Å: Chain I: A.84, R.501, S.502, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.39: 5 residues within 4Å: Chain I: V.136, P.137, Q.146, V.147, I.489 Ligand excluded by PLIP HEZ.41: 6 residues within 4Å: Chain J: A.84, R.501, S.502, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.43: 6 residues within 4Å: Chain K: A.84, R.501, S.502, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.44: 5 residues within 4Å: Chain L: A.84, R.501, S.502, Q.505, Y.506 Ligand excluded by PLIP HEZ.46: 5 residues within 4Å: Chain M: R.501, S.502, Q.505, Y.506, S.509 Ligand excluded by PLIP HEZ.49: 5 residues within 4Å: Chain N: A.84, R.501, S.502, Q.505, Y.506 Ligand excluded by PLIP

9 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: G.86, D.398 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:G.86, A:D.398, H2O.1, H2O.1, H2O.1 MG.16: 3 residues within 4Å: Chain D: G.86, D.87, D.398 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:G.86, D:D.398, H2O.1, H2O.1 MG.23: 2 residues within 4Å: Chain E: G.86, D.398 5 PLIP interactions: 2 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:G.86, E:D.398, H2O.2, H2O.2, H2O.2 MG.27: 2 residues within 4Å: Chain F: G.86, D.398 5 PLIP interactions: 2 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:G.86, F:D.398, H2O.2, H2O.2, H2O.2 MG.33: 3 residues within 4Å: Chain G: G.86, D.87, D.398 4 PLIP interactions: 1 interactions with chain G, 3 Ligand-Water interactions Metal complexes: G:G.86, H2O.2, H2O.2, H2O.2 MG.36: 2 residues within 4Å: Chain H: G.86, D.398 5 PLIP interactions: 2 interactions with chain H, 3 Ligand-Water interactions Metal complexes: H:G.86, H:D.398, H2O.2, H2O.2, H2O.2 MG.37: 1 residues within 4Å: Chain H: E.315 No protein-ligand interaction detected (PLIP) MG.47: 2 residues within 4Å: Chain M: G.86, D.398 5 PLIP interactions: 2 interactions with chain M, 3 Ligand-Water interactions Metal complexes: M:G.86, M:D.398, H2O.3, H2O.3, H2O.4 MG.50: 2 residues within 4Å: Chain N: G.86, D.398 4 PLIP interactions: 2 interactions with chain N, 2 Ligand-Water interactions Metal complexes: N:G.86, N:D.398, H2O.4, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guo, Y. et al., Crystal Structure of Escherichia coli GroEL with Magnesium Ions and a Phosphorylated Serine Residue. To Be Published

Release Date

2025-09-03

Peptides

Chaperonin GroEL: ABCDEFGHIJKLMN

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

J
J

K
K

L
L

M
M

N
N

Chaperonin GroEL

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