- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.07 Å
- Oligo State
- hetero-2-2-2-2-2-2-2-2-2-2-2-2-2-2-mer
- Ligands
- 2 x LEU- LEU- 6VF: LLY-ketoaldehyde peptide(Non-covalent)
- 55 x CL: CHLORIDE ION(Non-functional Binders)
CL.3: 4 residues within 4Å:- Chain A: Y.6, S.7, F.8
- Chain C: R.5
Ligand excluded by PLIPCL.4: 2 residues within 4Å:- Chain A: R.219, R.220
Ligand excluded by PLIPCL.5: 3 residues within 4Å:- Chain A: H.88, R.91
- Chain G: K.116
Ligand excluded by PLIPCL.6: 1 residues within 4Å:- Chain A: T.69
Ligand excluded by PLIPCL.7: 4 residues within 4Å:- Chain B: N.69, E.70, Q.95
- Ligands: CL.8
Ligand excluded by PLIPCL.8: 4 residues within 4Å:- Chain B: N.69, L.98, P.104
- Ligands: CL.7
Ligand excluded by PLIPCL.9: 3 residues within 4Å:- Chain C: V.26, I.161, G.162
Ligand excluded by PLIPCL.10: 3 residues within 4Å:- Chain C: R.86, L.114, R.117
Ligand excluded by PLIPCL.11: 4 residues within 4Å:- Chain D: I.31, I.170, G.171, S.174
Ligand excluded by PLIPCL.12: 3 residues within 4Å:- Chain D: T.161
- Chain E: L.77, T.78
Ligand excluded by PLIPCL.13: 6 residues within 4Å:- Chain E: V.29, K.30, C.148, I.161, G.162, S.165
Ligand excluded by PLIPCL.14: 3 residues within 4Å:- Chain E: C.148, S.150, N.152
Ligand excluded by PLIPCL.15: 5 residues within 4Å:- Chain E: G.32, S.33, K.62, A.75, G.76
Ligand excluded by PLIPCL.16: 4 residues within 4Å:- Chain F: V.31, I.166, G.167, R.170
Ligand excluded by PLIPCL.17: 3 residues within 4Å:- Chain G: K.102, Y.103
- Chain N: Y.61
Ligand excluded by PLIPCL.18: 5 residues within 4Å:- Chain G: K.186, F.191, E.192, Q.193, T.197
Ligand excluded by PLIPCL.22: 4 residues within 4Å:- Chain H: T.1, G.128, S.129
- Ligands: 1PE.79
Ligand excluded by PLIPCL.23: 2 residues within 4Å:- Chain H: N.80, R.81
Ligand excluded by PLIPCL.25: 2 residues within 4Å:- Chain I: R.66, R.70
Ligand excluded by PLIPCL.32: 4 residues within 4Å:- Chain K: S.18, T.30, K.32, N.175
Ligand excluded by PLIPCL.33: 2 residues within 4Å:- Chain K: Y.66, R.69
Ligand excluded by PLIPCL.34: 3 residues within 4Å:- Chain J: K.29
- Chain K: I.121, S.122
Ligand excluded by PLIPCL.38: 4 residues within 4Å:- Chain M: F.36, R.37, N.38, I.39
Ligand excluded by PLIPCL.39: 5 residues within 4Å:- Chain M: Y.30, R.35
- Chain N: P.115, M.116
- Ligands: CL.44
Ligand excluded by PLIPCL.40: 2 residues within 4Å:- Chain M: M.43, R.44
Ligand excluded by PLIPCL.42: 4 residues within 4Å:- Chain N: T.31, R.45, A.49, Q.53
Ligand excluded by PLIPCL.43: 3 residues within 4Å:- Chain N: T.1, G.129, S.130
Ligand excluded by PLIPCL.44: 6 residues within 4Å:- Chain M: R.35
- Chain N: S.46, G.97, G.128, G.129
- Ligands: CL.39
Ligand excluded by PLIPCL.45: 4 residues within 4Å:- Chain N: R.19, R.29, G.171, G.172
Ligand excluded by PLIPCL.48: 4 residues within 4Å:- Chain O: Y.6, S.7, F.8
- Chain Q: R.5
Ligand excluded by PLIPCL.49: 3 residues within 4Å:- Chain O: Y.101
- Chain W: R.70, M.90
Ligand excluded by PLIPCL.50: 2 residues within 4Å:- Chain O: R.219, R.220
Ligand excluded by PLIPCL.51: 3 residues within 4Å:- Chain O: H.88, R.91
- Chain U: K.116
Ligand excluded by PLIPCL.52: 4 residues within 4Å:- Chain P: N.69, E.70, Q.95
- Chain W: N.72
Ligand excluded by PLIPCL.53: 3 residues within 4Å:- Chain Q: R.95, E.99, D.100
Ligand excluded by PLIPCL.54: 3 residues within 4Å:- Chain Q: V.26, I.161, G.162
Ligand excluded by PLIPCL.55: 4 residues within 4Å:- Chain R: I.31, I.170, G.171, S.174
Ligand excluded by PLIPCL.56: 3 residues within 4Å:- Chain R: T.161
- Chain S: L.77, T.78
Ligand excluded by PLIPCL.57: 5 residues within 4Å:- Chain S: K.30, C.148, I.161, G.162, S.165
Ligand excluded by PLIPCL.58: 3 residues within 4Å:- Chain S: C.148, S.150, N.152
Ligand excluded by PLIPCL.59: 5 residues within 4Å:- Chain S: G.32, S.33, K.62, A.75, G.76
Ligand excluded by PLIPCL.60: 2 residues within 4Å:- Chain U: K.102, Y.103
Ligand excluded by PLIPCL.63: 4 residues within 4Å:- Chain V: T.1, G.47, G.128, S.129
Ligand excluded by PLIPCL.64: 3 residues within 4Å:- Chain V: V.77, N.80, R.81
Ligand excluded by PLIPCL.66: 2 residues within 4Å:- Chain W: R.66, R.70
Ligand excluded by PLIPCL.70: 3 residues within 4Å:- Chain Y: I.65, Y.66, R.69
Ligand excluded by PLIPCL.71: 3 residues within 4Å:- Chain Y: T.30, K.32, N.175
Ligand excluded by PLIPCL.72: 3 residues within 4Å:- Chain X: K.29
- Chain Y: I.121, S.122
Ligand excluded by PLIPCL.73: 2 residues within 4Å:- Chain Y: D.154, L.155
Ligand excluded by PLIPCL.76: 4 residues within 4Å:- Chain 0: F.36, R.37, N.38, I.39
Ligand excluded by PLIPCL.77: 5 residues within 4Å:- Chain 0: Y.30, R.35
- Chain 1: P.115, M.116
- Ligands: CL.81
Ligand excluded by PLIPCL.78: 2 residues within 4Å:- Chain 0: M.43, R.44
Ligand excluded by PLIPCL.80: 4 residues within 4Å:- Chain 1: T.1, G.47, G.129, S.130
Ligand excluded by PLIPCL.81: 6 residues within 4Å:- Chain 0: R.35
- Chain 1: S.46, G.97, G.128, G.129
- Ligands: CL.77
Ligand excluded by PLIPCL.82: 5 residues within 4Å:- Chain 1: R.19, I.26, R.29, G.171, G.172
Ligand excluded by PLIP- 6 x K: POTASSIUM ION(Non-covalent)
K.19: 4 residues within 4Å:- Chain G: T.14, Y.125, N.128, M.131
5 PLIP interactions:4 interactions with chain G, 1 Ligand-Water interactions- Metal complexes: G:T.14, G:Y.125, G:N.128, G:M.131, H2O.30
K.36: 4 residues within 4Å:- Chain L: A.183, D.186, V.187, T.189
4 PLIP interactions:3 interactions with chain L, 1 Ligand-Water interactions- Metal complexes: L:A.183, L:D.186, L:T.189, H2O.58
K.47: 4 residues within 4Å:- Chain N: R.19, M.164, D.167, S.170
5 PLIP interactions:3 interactions with chain N, 2 Ligand-Water interactions- Metal complexes: N:M.164, N:D.167, N:S.170, H2O.69, H2O.71
K.61: 4 residues within 4Å:- Chain U: T.14, Y.125, N.128, M.131
5 PLIP interactions:4 interactions with chain U, 1 Ligand-Water interactions- Metal complexes: U:T.14, U:Y.125, U:N.128, U:M.131, H2O.97
K.75: 4 residues within 4Å:- Chain Z: A.183, D.186, V.187, T.189
4 PLIP interactions:3 interactions with chain Z, 1 Ligand-Water interactions- Metal complexes: Z:A.183, Z:D.186, Z:T.189, H2O.119
K.84: 4 residues within 4Å:- Chain 1: R.19, M.164, D.167, S.170
5 PLIP interactions:3 interactions with chain 1, 2 Ligand-Water interactions- Metal complexes: 1:M.164, 1:D.167, 1:S.170, H2O.133, H2O.134
- 10 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)
MG.20: 3 residues within 4Å:- Chain H: Q.91
- Chain N: D.51, D.93
No protein-ligand interaction detected (PLIP)MG.21: 5 residues within 4Å:- Chain H: R.19, I.163, D.166, S.169
- Chain Z: D.213
5 PLIP interactions:3 interactions with chain H, 1 interactions with chain Z, 1 Ligand-Water interactions- Metal complexes: H:I.163, H:D.166, H:S.169, Z:D.213, H2O.37
MG.24: 3 residues within 4Å:- Chain I: V.175, D.178, S.181
5 PLIP interactions:3 interactions with chain I, 2 Ligand-Water interactions- Metal complexes: I:V.175, I:D.178, I:S.181, H2O.41, H2O.43
MG.28: 6 residues within 4Å:- Chain I: D.205
- Chain Y: R.19, T.164, D.167, A.168, S.170
5 PLIP interactions:3 interactions with chain Y, 1 interactions with chain I, 1 Ligand-Water interactions- Metal complexes: Y:T.164, Y:D.167, Y:S.170, I:D.205, H2O.115
MG.29: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)MG.31: 6 residues within 4Å:- Chain K: R.19, T.164, D.167, A.168, S.170
- Chain W: D.205
5 PLIP interactions:1 interactions with chain W, 3 interactions with chain K, 1 Ligand-Water interactions- Metal complexes: W:D.205, K:T.164, K:D.167, K:S.170, H2O.54
MG.37: 6 residues within 4Å:- Chain L: D.213
- Chain V: R.19, I.163, D.166, L.167, S.169
5 PLIP interactions:1 interactions with chain L, 3 interactions with chain V, 1 Ligand-Water interactions- Metal complexes: L:D.213, V:I.163, V:D.166, V:S.169, H2O.101
MG.62: 3 residues within 4Å:- Chain 1: D.51, D.93
- Chain V: Q.91
No protein-ligand interaction detected (PLIP)MG.65: 3 residues within 4Å:- Chain W: V.175, D.178, S.181
5 PLIP interactions:3 interactions with chain W, 2 Ligand-Water interactions- Metal complexes: W:V.175, W:D.178, W:S.181, H2O.105, H2O.106
MG.68: 1 residues within 4Å:- Chain X: P.97
No protein-ligand interaction detected (PLIP)- 9 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)
1PE.26: 5 residues within 4Å:- Chain I: R.66, E.97, K.98, Y.103
- Chain J: D.90
3 PLIP interactions:3 interactions with chain I- Hydrogen bonds: I:K.98
- Water bridges: I:R.70, I:Y.103
1PE.27: 6 residues within 4Å:- Chain H: L.58, M.86, Y.90
- Chain I: Y.96, E.97, R.99
1 PLIP interactions:1 interactions with chain I- Water bridges: I:Y.96
1PE.35: 7 residues within 4Å:- Chain D: F.101
- Chain K: F.54, L.58, Y.90
- Chain L: Y.97, S.98, F.101
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:N.98
1PE.41: 5 residues within 4Å:- Chain 1: T.22
- Chain L: F.33
- Chain M: Y.141, Y.144
- Chain V: S.129
No protein-ligand interaction detected (PLIP)1PE.46: 9 residues within 4Å:- Chain G: Y.103
- Chain H: F.88, R.89, Q.91
- Chain N: A.58, M.86, Y.90, D.93, L.94
2 PLIP interactions:1 interactions with chain G, 1 interactions with chain H- Hydrogen bonds: G:Y.103, H:R.89
1PE.67: 5 residues within 4Å:- Chain W: R.66, E.97, K.98, Y.103
- Chain X: D.90
3 PLIP interactions:1 interactions with chain X, 2 interactions with chain W- Hydrogen bonds: X:D.90, W:K.98
- Water bridges: W:R.70
1PE.74: 5 residues within 4Å:- Chain Y: F.54, Y.90
- Chain Z: Y.97, S.98, F.101
1 PLIP interactions:1 interactions with chain R- Water bridges: R:T.102
1PE.79: 6 residues within 4Å:- Chain 0: Y.141, Y.144
- Chain H: S.129
- Chain N: T.22
- Chain Z: F.33
- Ligands: CL.22
No protein-ligand interaction detected (PLIP)1PE.83: 8 residues within 4Å:- Chain 1: A.58, Y.61, Y.90, L.94
- Chain U: Y.103
- Chain V: F.88, R.89, Q.91
3 PLIP interactions:1 interactions with chain U, 2 interactions with chain V- Hydrogen bonds: U:Y.103, V:R.89, V:Q.91
- 2 x PHQ: benzyl chlorocarbonate(Non-covalent)
PHQ.30: 4 residues within 4Å:- Chain K: T.21
- Chain L: D.125
- Ligands: LEU-LEU-6VF.1, LEU-LEU-6VF.1
1 PLIP interactions:1 interactions with chain L- Hydrogen bonds: L:D.125
PHQ.69: 4 residues within 4Å:- Chain Y: T.21
- Chain Z: D.125
- Ligands: LEU-LEU-6VF.2, LEU-LEU-6VF.2
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Schrader, J. et al., The inhibition mechanism of human 20S proteasomes enables next-generation inhibitor design. Science (2016)
- Release Date
- 2016-08-17
- Peptides
- Proteasome subunit alpha type-2: AO
Proteasome subunit alpha type-4: BP
Proteasome subunit alpha type-7: CQ
Proteasome subunit alpha type-5: DR
Proteasome subunit alpha type-1: ES
Proteasome subunit alpha type-3: FT
Proteasome subunit alpha type-6: GU
Proteasome subunit beta type-7: HV
Proteasome subunit beta type-3: IW
Proteasome subunit beta type-2: JX
Proteasome subunit beta type-5: KY
Proteasome subunit beta type-1: LZ
Proteasome subunit beta type-4: M0
Proteasome subunit beta type-6: N1 - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AO
OB
BP
PC
CQ
QD
DR
RE
ES
SF
FT
TG
GU
UH
HV
VI
IW
WJ
JX
XK
KY
YL
LZ
ZM
M0
aN
N1
b
SMTL ID : 5lf6.1
Human 20S proteasome complex with Z-LLY-ketoaldehyde at 2.1 Angstrom
Proteasome subunit alpha type-2
Toggle Identical (AO)Proteasome subunit alpha type-4
Toggle Identical (BP)Proteasome subunit alpha type-7
Proteasome subunit alpha type-5
Toggle Identical (DR)Proteasome subunit alpha type-1
Proteasome subunit alpha type-3
Proteasome subunit alpha type-6
Proteasome subunit beta type-7
Toggle Identical (HV)Proteasome subunit beta type-3
Toggle Identical (IW)Proteasome subunit beta type-2
Toggle Identical (JX)Proteasome subunit beta type-5
Proteasome subunit beta type-1
Toggle Identical (LZ)Proteasome subunit beta type-4
Toggle Identical (M0)Proteasome subunit beta type-6
Related Entries With Identical Sequence
1iru.1 | 3unb.1 | 3unb.2 | 3une.1 | 3une.2 | 3unf.1 | 3unh.1 | 4r3o.1 | 4r67.1 | 4r67.2 | 5a0q.1 | 5dsv.1 | 5gjq.1 | 5l4g.1 | 5le5.1 | 5lex.1 | 5ley.1 | 5lez.1 | 5lf0.1 | 5lf1.1 | 5lf3.1 | 5lf4.1 | 5lf7.1 | 5ln3.1 | 5m32.1 | 5t0g.1 | 5t0h.1 | 5t0i.1 | 5t0j.1 | 5vfo.1 more...less...5vfp.1 | 5vfq.1 | 5vfr.1 | 5vfs.1 | 5vft.1 | 5vfu.1 | 6avo.1 | 6e5b.1 | 6epc.1 | 6epd.1 | 6epe.1 | 6epf.1 | 6kwy.1 | 6msb.1 | 6msd.1 | 6mse.1 | 6msg.1 | 6msh.1 | 6msj.1 | 6msk.1 | 6r70.1 | 6rey.1 | 6rgq.1 | 6tu3.1 | 6wjd.1 | 6wjn.1 | 6xmj.1 | 7awe.1 | 7b12.1 | 7dr6.1 | 7dr7.1 | 7drw.1 | 7e55.1 | 7e55.2 | 7e55.3 | 7lxv.1 | 7nan.1 | 7nao.1 | 7nap.1 | 7naq.1 | 7nht.1 | 7pg9.1 | 7qxn.1 | 7qxp.1 | 7qxu.1 | 7qxw.1 | 7qxx.1 | 7qy7.1 | 7qya.1 | 7qyb.1 | 7v5g.1 | 7v5m.1 | 7w37.1 | 7w38.1 | 7w39.1 | 7w3a.1 | 7w3b.1 | 7w3c.1 | 7w3f.1 | 7w3g.1 | 7w3h.1 | 7w3i.1 | 7w3j.1 | 7w3k.1 | 7w3m.1 | 8azk.1 | 8bzl.1 | 8cvr.1 | 8cvs.1 | 8cvt.1 | 8cxb.1 | 8fz5.1 | 8fz6.1 | 8qyj.1 | 8qyl.1 | 8qym.1 | 8qyn.1 | 8qyo.1 | 8qys.1 | 8qz9.1 | 8tm3.1 | 8tm4.1 | 8tm5.1 | 8tm6.1 | 8ud9.1 | 8usb.1 | 8usc.1 | 8ypk.1 | 8ysx.1 | 8yvg.1 | 8yvp.1