SMTL ID : 1kp8.1

Structural Basis for GroEL-assisted Protein Folding from the Crystal Structure of (GroEL-KMgATP)14 at 2.0 A Resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-14-mer

Ligands

22 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: R.35, L.455, N.456 Chain B: E.517 Ligand excluded by PLIP SO4.2: 4 residues within 4Å: Chain A: K.27, A.448, R.451, Q.452 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain A: R.444, E.447, R.451 Ligand excluded by PLIP SO4.7: 4 residues within 4Å: Chain B: K.27, A.448, R.451, Q.452 Ligand excluded by PLIP SO4.8: 3 residues within 4Å: Chain B: R.444, E.447, R.451 Ligand excluded by PLIP SO4.12: 4 residues within 4Å: Chain C: K.27, A.448, R.451, Q.452 Ligand excluded by PLIP SO4.13: 3 residues within 4Å: Chain C: R.444, E.447, R.451 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain E: K.27, A.448, R.451, Q.452, L.455 Ligand excluded by PLIP SO4.23: 3 residues within 4Å: Chain E: R.444, E.447, R.451 Ligand excluded by PLIP SO4.27: 4 residues within 4Å: Chain E: R.35 Chain F: V.106, P.112, E.517 Ligand excluded by PLIP SO4.31: 7 residues within 4Å: Chain G: E.101, K.104, A.105, M.110, V.437, R.444 Chain N: A.108 Ligand excluded by PLIP SO4.35: 4 residues within 4Å: Chain H: K.27, A.448, R.451, Q.452 Ligand excluded by PLIP SO4.36: 3 residues within 4Å: Chain H: R.444, E.447, R.451 Ligand excluded by PLIP SO4.43: 4 residues within 4Å: Chain J: K.27, A.448, R.451, Q.452 Ligand excluded by PLIP SO4.44: 3 residues within 4Å: Chain J: R.444, E.447, R.451 Ligand excluded by PLIP SO4.48: 4 residues within 4Å: Chain K: K.27, A.448, R.451, Q.452 Ligand excluded by PLIP SO4.49: 2 residues within 4Å: Chain K: R.444, R.451 Ligand excluded by PLIP SO4.53: 6 residues within 4Å: Chain K: R.17, V.21, L.61 Chain L: K.3, D.4, V.5 Ligand excluded by PLIP SO4.57: 5 residues within 4Å: Chain M: K.27, A.448, R.451, Q.452, L.455 Ligand excluded by PLIP SO4.58: 3 residues within 4Å: Chain M: R.444, E.447, R.451 Ligand excluded by PLIP SO4.62: 3 residues within 4Å: Chain N: K.27, R.451, Q.452 Ligand excluded by PLIP SO4.63: 3 residues within 4Å: Chain N: R.444, E.447, R.451 Ligand excluded by PLIP

14 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 2 residues within 4Å: Chain A: D.86 Ligands: AGS.6 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.86, H2O.6, H2O.6 MG.9: 2 residues within 4Å: Chain B: D.86 Ligands: AGS.11 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.86, H2O.15, H2O.15 MG.14: 2 residues within 4Å: Chain C: D.86 Ligands: AGS.16 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.86, H2O.20, H2O.20 MG.18: 2 residues within 4Å: Chain D: D.86 Ligands: AGS.20 3 PLIP interactions: 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.86, H2O.30, H2O.30 MG.24: 2 residues within 4Å: Chain E: D.86 Ligands: AGS.26 3 PLIP interactions: 1 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:D.86, H2O.39, H2O.39 MG.28: 2 residues within 4Å: Chain F: D.86 Ligands: AGS.30 3 PLIP interactions: 1 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:D.86, H2O.44, H2O.46 MG.32: 2 residues within 4Å: Chain G: D.86 Ligands: AGS.34 3 PLIP interactions: 1 interactions with chain G, 2 Ligand-Water interactions Metal complexes: G:D.86, H2O.57, H2O.57 MG.37: 2 residues within 4Å: Chain H: D.86 Ligands: AGS.39 3 PLIP interactions: 1 interactions with chain H, 2 Ligand-Water interactions Metal complexes: H:D.86, H2O.65, H2O.65 MG.40: 2 residues within 4Å: Chain I: D.86 Ligands: AGS.42 3 PLIP interactions: 1 interactions with chain I, 2 Ligand-Water interactions Metal complexes: I:D.86, H2O.70, H2O.70 MG.45: 2 residues within 4Å: Chain J: D.86 Ligands: AGS.47 3 PLIP interactions: 1 interactions with chain J, 2 Ligand-Water interactions Metal complexes: J:D.86, H2O.75, H2O.75 MG.50: 2 residues within 4Å: Chain K: D.86 Ligands: AGS.52 3 PLIP interactions: 1 interactions with chain K, 2 Ligand-Water interactions Metal complexes: K:D.86, H2O.81, H2O.81 MG.54: 2 residues within 4Å: Chain L: D.86 Ligands: AGS.56 3 PLIP interactions: 1 interactions with chain L, 2 Ligand-Water interactions Metal complexes: L:D.86, H2O.87, H2O.87 MG.59: 2 residues within 4Å: Chain M: D.86 Ligands: AGS.61 3 PLIP interactions: 1 interactions with chain M, 2 Ligand-Water interactions Metal complexes: M:D.86, H2O.92, H2O.92 MG.64: 2 residues within 4Å: Chain N: D.86 Ligands: AGS.66 3 PLIP interactions: 1 interactions with chain N, 2 Ligand-Water interactions Metal complexes: N:D.86, H2O.98, H2O.98

16 x K: POTASSIUM ION(Non-covalent)

K.5: 3 residues within 4Å: Chain A: T.29, K.50 Ligands: AGS.6 Ligand excluded by PLIP K.10: 3 residues within 4Å: Chain B: T.29, K.50 Ligands: AGS.11 Ligand excluded by PLIP K.15: 3 residues within 4Å: Chain C: T.29, K.50 Ligands: AGS.16 Ligand excluded by PLIP K.17: 3 residues within 4Å: Chain D: K.131, A.132, S.134 Ligand excluded by PLIP K.19: 3 residues within 4Å: Chain D: T.29, K.50 Ligands: AGS.20 Ligand excluded by PLIP K.21: 3 residues within 4Å: Chain E: K.131, A.132, S.134 Ligand excluded by PLIP K.25: 3 residues within 4Å: Chain E: T.29, K.50 Ligands: AGS.26 Ligand excluded by PLIP K.29: 3 residues within 4Å: Chain F: T.29, K.50 Ligands: AGS.30 Ligand excluded by PLIP K.33: 3 residues within 4Å: Chain G: T.29, K.50 Ligands: AGS.34 Ligand excluded by PLIP K.38: 3 residues within 4Å: Chain H: T.29, K.50 Ligands: AGS.39 Ligand excluded by PLIP K.41: 3 residues within 4Å: Chain I: T.29, K.50 Ligands: AGS.42 Ligand excluded by PLIP K.46: 3 residues within 4Å: Chain J: T.29, K.50 Ligands: AGS.47 Ligand excluded by PLIP K.51: 3 residues within 4Å: Chain K: T.29, K.50 Ligands: AGS.52 Ligand excluded by PLIP K.55: 3 residues within 4Å: Chain L: T.29, K.50 Ligands: AGS.56 Ligand excluded by PLIP K.60: 3 residues within 4Å: Chain M: T.29, K.50 Ligands: AGS.61 Ligand excluded by PLIP K.65: 3 residues within 4Å: Chain N: T.29, K.50 Ligands: AGS.66 Ligand excluded by PLIP

14 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.6: 22 residues within 4Å: Chain A: T.29, L.30, G.31, P.32, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, G.415, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.4, K.5 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:G.31, A:D.86, A:G.87, A:G.87, A:T.88, A:T.89, A:T.89, A:T.90, A:T.90, A:G.414, A:G.415, A:N.478, A:A.479, A:A.480, A:D.494 Water bridges: A:D.51, A:D.86, A:T.88, A:T.88, A:T.90, A:T.90, A:V.416 AGS.11: 23 residues within 4Å: Chain B: T.29, L.30, G.31, P.32, D.51, G.52, V.53, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.9, K.10 22 PLIP interactions: 22 interactions with chain B Hydrogen bonds: B:G.31, B:D.86, B:G.87, B:G.87, B:T.88, B:T.89, B:T.89, B:T.90, B:G.414, B:G.415, B:N.478, B:A.479, B:A.480, B:D.494 Water bridges: B:G.52, B:G.52, B:D.86, B:D.86, B:T.90, B:T.90, B:T.90, B:L.493 AGS.16: 21 residues within 4Å: Chain C: T.29, L.30, G.31, P.32, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.14, K.15 21 PLIP interactions: 21 interactions with chain C Hydrogen bonds: C:G.31, C:D.86, C:G.87, C:G.87, C:T.88, C:T.89, C:T.89, C:T.90, C:G.414, C:G.415, C:N.478, C:A.479, C:A.480, C:D.494 Water bridges: C:D.51, C:D.51, C:D.86, C:T.90, C:T.90, C:T.90, C:D.494 AGS.20: 22 residues within 4Å: Chain D: T.29, L.30, G.31, P.32, D.51, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.18, K.19 22 PLIP interactions: 22 interactions with chain D Hydrogen bonds: D:G.31, D:D.86, D:G.87, D:G.87, D:T.88, D:T.89, D:T.89, D:T.90, D:T.90, D:G.414, D:G.415, D:N.478, D:A.479, D:A.480, D:D.494 Water bridges: D:D.51, D:D.51, D:G.52, D:D.86, D:T.88, D:T.88, D:T.90 AGS.26: 22 residues within 4Å: Chain E: T.29, L.30, G.31, P.32, D.51, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, G.415, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.24, K.25 21 PLIP interactions: 21 interactions with chain E Hydrogen bonds: E:G.31, E:D.86, E:G.87, E:G.87, E:T.88, E:T.89, E:T.89, E:T.90, E:T.90, E:G.414, E:G.415, E:N.478, E:A.479, E:A.480, E:D.494 Water bridges: E:G.52, E:G.52, E:D.86, E:T.90, E:T.90, E:V.416 AGS.30: 21 residues within 4Å: Chain F: T.29, L.30, G.31, P.32, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.28, K.29 20 PLIP interactions: 20 interactions with chain F Hydrogen bonds: F:G.31, F:G.87, F:G.87, F:T.88, F:T.89, F:T.89, F:T.90, F:T.90, F:G.414, F:N.478, F:A.479, F:A.480, F:D.494 Water bridges: F:D.51, F:T.88, F:T.88, F:T.90, F:T.90, F:G.415, F:L.493 AGS.34: 22 residues within 4Å: Chain G: T.29, L.30, G.31, P.32, D.51, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.32, K.33 20 PLIP interactions: 20 interactions with chain G Hydrogen bonds: G:G.31, G:D.86, G:G.87, G:G.87, G:T.88, G:T.89, G:T.89, G:T.90, G:T.90, G:G.414, G:G.415, G:N.478, G:A.479, G:A.480, G:D.494 Water bridges: G:D.51, G:D.51, G:D.86, G:T.90, G:L.493 AGS.39: 21 residues within 4Å: Chain H: T.29, L.30, G.31, P.32, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.37, K.38 19 PLIP interactions: 19 interactions with chain H Hydrogen bonds: H:G.31, H:G.87, H:G.87, H:T.88, H:T.89, H:T.89, H:T.90, H:T.90, H:G.414, H:N.478, H:A.479, H:A.480, H:D.494 Water bridges: H:D.86, H:T.90, H:T.90, H:G.415, H:D.494, H:D.494 AGS.42: 21 residues within 4Å: Chain I: T.29, L.30, G.31, P.32, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.40, K.41 20 PLIP interactions: 20 interactions with chain I Hydrogen bonds: I:G.31, I:D.86, I:G.87, I:G.87, I:T.88, I:T.89, I:T.90, I:T.90, I:G.414, I:G.415, I:N.478, I:A.479, I:A.480, I:D.494 Water bridges: I:D.51, I:D.86, I:T.88, I:T.89, I:T.90, I:T.90 AGS.47: 22 residues within 4Å: Chain J: T.29, L.30, G.31, P.32, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, G.415, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.45, K.46 19 PLIP interactions: 19 interactions with chain J Hydrogen bonds: J:G.31, J:G.87, J:G.87, J:T.88, J:T.89, J:T.90, J:G.414, J:G.415, J:N.478, J:A.479, J:A.480, J:D.494 Water bridges: J:T.29, J:D.51, J:D.86, J:T.88, J:T.89, J:T.90, J:T.90 AGS.52: 22 residues within 4Å: Chain K: T.29, L.30, G.31, P.32, D.51, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.50, K.51 16 PLIP interactions: 16 interactions with chain K Hydrogen bonds: K:G.31, K:G.87, K:G.87, K:T.88, K:T.89, K:T.90, K:G.414, K:N.478, K:A.479, K:A.480, K:D.494 Water bridges: K:T.89, K:T.90, K:T.90, K:T.90, K:G.415 AGS.56: 23 residues within 4Å: Chain L: T.29, L.30, G.31, P.32, D.51, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, G.415, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.54, K.55 18 PLIP interactions: 18 interactions with chain L Hydrogen bonds: L:G.31, L:G.87, L:G.87, L:T.88, L:T.89, L:T.89, L:T.90, L:G.414, L:G.415, L:N.478, L:A.479, L:A.480, L:D.494 Water bridges: L:D.51, L:D.86, L:T.90, L:T.90, L:T.90 AGS.61: 21 residues within 4Å: Chain M: T.29, L.30, G.31, P.32, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.59, K.60 19 PLIP interactions: 19 interactions with chain M Hydrogen bonds: M:G.31, M:D.86, M:G.87, M:G.87, M:T.88, M:T.89, M:T.90, M:G.414, M:G.415, M:N.478, M:A.479, M:A.480, M:D.494 Water bridges: M:D.86, M:T.88, M:T.89, M:T.90, M:T.90, M:T.90 AGS.66: 22 residues within 4Å: Chain N: T.29, L.30, G.31, P.32, D.51, G.52, D.86, G.87, T.88, T.89, T.90, G.413, G.414, I.453, Y.477, N.478, A.479, A.480, I.492, D.494 Ligands: MG.64, K.65 16 PLIP interactions: 16 interactions with chain N Hydrogen bonds: N:G.31, N:G.87, N:G.87, N:T.88, N:T.89, N:T.89, N:T.90, N:G.414, N:N.478, N:A.479, N:A.480, N:D.494 Water bridges: N:T.90, N:T.90, N:T.90, N:G.415

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, J. et al., Structural Basis for GroEL-assisted Protein Folding from theCrystal Structure of (GroEL-KMgATP)14 at 2.0 A Resolution. J.Mol.Biol. (2003)

Release Date

2003-03-25

Peptides

groEL protein: 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

groEL protein