- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.65 Å
- Oligo State
- hetero-2-2-2-2-2-2-2-2-2-2-2-2-2-2-mer
- Ligands
- 20 x MG: MAGNESIUM ION(Non-covalent)
MG.1: 1 residues within 4Å:- Chain F: K.167
No protein-ligand interaction detected (PLIP)MG.2: 4 residues within 4Å:- Chain F: S.7, N.121
- Chain G: A.123, Y.124
1 PLIP interactions:1 interactions with chain F- Metal complexes: F:S.7
MG.3: 5 residues within 4Å:- Chain G: T.8, Y.119, R.122, A.123, M.125
4 PLIP interactions:4 interactions with chain G- Metal complexes: G:T.8, G:Y.119, G:R.122, G:M.125
MG.4: 5 residues within 4Å:- Chain H: G.162, I.163, D.166, S.169
- Chain Z: D.222
4 PLIP interactions:3 interactions with chain H, 1 interactions with chain Z- Metal complexes: H:I.163, H:D.166, H:S.169, Z:D.222
MG.5: 2 residues within 4Å:- Chain I: G.139, S.142
1 PLIP interactions:1 interactions with chain I- Metal complexes: I:S.142
MG.6: 4 residues within 4Å:- Chain I: A.174, D.175, D.177, S.180
3 PLIP interactions:3 interactions with chain I- Metal complexes: I:A.174, I:D.177, I:S.180
MG.7: 6 residues within 4Å:- Chain K: R.19, A.165, D.168, A.169, S.171
- Chain W: D.204
4 PLIP interactions:1 interactions with chain W, 3 interactions with chain K- Metal complexes: W:D.204, K:A.165, K:D.168, K:S.171
MG.10: 4 residues within 4Å:- Chain D: E.105
- Chain L: Y.75, S.85, S.88
3 PLIP interactions:2 interactions with chain L, 1 interactions with chain D- Metal complexes: L:S.85, L:S.88, D:E.105
MG.11: 4 residues within 4Å:- Chain L: R.28, T.192, H.195, V.198
3 PLIP interactions:3 interactions with chain L- Metal complexes: L:T.192, L:H.195, L:V.198
MG.12: 5 residues within 4Å:- Chain 0: L.34
- Chain N: R.19, I.163, D.166, S.169
3 PLIP interactions:3 interactions with chain N- Metal complexes: N:I.163, N:D.166, N:S.169
MG.13: 2 residues within 4Å:- Chain T: R.163, K.167
No protein-ligand interaction detected (PLIP)MG.14: 5 residues within 4Å:- Chain T: S.7, N.121
- Chain U: A.123, Y.124, M.125
2 PLIP interactions:1 interactions with chain U, 1 interactions with chain T- Metal complexes: U:A.123, T:S.7
MG.15: 5 residues within 4Å:- Chain U: T.8, Y.119, R.122, A.123, M.125
4 PLIP interactions:4 interactions with chain U- Metal complexes: U:T.8, U:Y.119, U:R.122, U:M.125
MG.16: 6 residues within 4Å:- Chain L: D.222
- Chain V: R.19, G.162, I.163, D.166, S.169
4 PLIP interactions:3 interactions with chain V, 1 interactions with chain L- Metal complexes: V:I.163, V:D.166, V:S.169, L:D.222
MG.17: 2 residues within 4Å:- Chain W: G.139, S.142
1 PLIP interactions:1 interactions with chain W- Metal complexes: W:S.142
MG.18: 4 residues within 4Å:- Chain W: A.174, D.175, D.177, S.180
3 PLIP interactions:3 interactions with chain W- Metal complexes: W:A.174, W:D.177, W:S.180
MG.19: 6 residues within 4Å:- Chain I: D.204
- Chain Y: R.19, A.165, D.168, A.169, S.171
4 PLIP interactions:3 interactions with chain Y, 1 interactions with chain I- Metal complexes: Y:A.165, Y:D.168, Y:S.171, I:D.204
MG.22: 3 residues within 4Å:- Chain R: E.105
- Chain Z: S.85, S.88
3 PLIP interactions:1 interactions with chain R, 2 interactions with chain Z- Metal complexes: R:E.105, Z:S.85, Z:S.88
MG.23: 4 residues within 4Å:- Chain Z: T.192, H.195, V.198, D.222
3 PLIP interactions:3 interactions with chain Z- Metal complexes: Z:T.192, Z:H.195, Z:V.198
MG.24: 5 residues within 4Å:- Chain 1: R.19, I.163, D.166, S.169
- Chain M: L.34
3 PLIP interactions:3 interactions with chain 1- Metal complexes: 1:I.163, 1:D.166, 1:S.169
- 2 x 3SD: N~4~-(2,2-dimethylpropyl)-N~1~-{(2S)-1-[(4-methylbenzyl)amino]-1-oxo-4-phenylbutan-2-yl}-N~2~-[(5-methyl-1,2-oxazol-3-yl)carbonyl]-L-aspartamide(Non-covalent)
3SD.8: 23 residues within 4Å:- Chain K: T.1, R.19, A.20, T.21, A.22, A.27, S.28, V.31, K.32, K.33, M.45, G.47, G.48, A.49, S.96
- Chain L: S.124, D.126, P.127, V.128, S.130, E.134, R.137
- Ligands: MES.9
14 PLIP interactions:11 interactions with chain K, 3 interactions with chain L- Hydrophobic interactions: K:A.27, K:V.31, K:K.33, K:M.45, K:A.49
- Hydrogen bonds: K:T.1, K:T.21, K:T.21, K:G.47, K:A.49, L:D.126, L:S.130, L:S.130
- Water bridges: K:A.50
3SD.20: 23 residues within 4Å:- Chain Y: T.1, R.19, A.20, T.21, A.27, S.28, V.31, K.32, K.33, M.45, G.47, G.48, A.49, Q.53, S.96
- Chain Z: S.124, D.126, P.127, V.128, S.130, Y.131, R.137
- Ligands: MES.21
13 PLIP interactions:3 interactions with chain Z, 10 interactions with chain Y- Hydrogen bonds: Z:D.126, Z:S.130, Z:S.130, Y:T.1, Y:T.21, Y:T.21, Y:G.47, Y:A.49
- Hydrophobic interactions: Y:A.20, Y:V.31, Y:K.33, Y:M.45, Y:A.49
- 2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
MES.9: 7 residues within 4Å:- Chain K: T.1, A.46, G.47, G.130, S.131, Y.170
- Ligands: 3SD.8
3 PLIP interactions:3 interactions with chain K- Hydrogen bonds: K:T.1, K:G.47, K:S.131
MES.21: 6 residues within 4Å:- Chain Y: T.1, G.47, G.130, S.131, Y.170
- Ligands: 3SD.20
3 PLIP interactions:3 interactions with chain Y- Hydrogen bonds: Y:G.47, Y:G.47, Y:S.131
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Blackburn, C. et al., Optimization of a series of dipeptides with a P3 threonine residue as non-covalent inhibitors of the chymotrypsin-like activity of the human 20S proteasome. Bioorg.Med.Chem.Lett. (2010)
- Release Date
- 2012-06-13
- Peptides
- Proteasome component Y7: AO
Proteasome component Y13: BP
Proteasome component PRE6: CQ
Proteasome component PUP2: DR
Proteasome component PRE5: ES
Proteasome component C1: FT
Proteasome component C7-alpha: GU
Proteasome component PUP1: HV
Proteasome component PUP3: IW
Proteasome component C11: JX
Proteasome component PRE2: KY
Proteasome component C5: LZ
Proteasome component PRE4: M0
Proteasome component PRE3: 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
1N
N1
2
SMTL ID : 3sdi.1
Structure of yeast 20S open-gate proteasome with Compound 20
Proteasome component Y7
Toggle Identical (AO)Proteasome component Y13
Toggle Identical (BP)Proteasome component PRE6
Toggle Identical (CQ)Proteasome component PUP2
Proteasome component PRE5
Toggle Identical (ES)Proteasome component C1
Toggle Identical (FT)Proteasome component C7-alpha
Toggle Identical (GU)Proteasome component PUP1
Toggle Identical (HV)Proteasome component PUP3
Toggle Identical (IW)Proteasome component C11
Toggle Identical (JX)Proteasome component PRE2
Toggle Identical (KY)Proteasome component C5
Toggle Identical (LZ)Proteasome component PRE4
Toggle Identical (M0)Proteasome component PRE3
Toggle Identical (N1)Related Entries With Identical Sequence
1fnt.1 | 1g0u.1 | 1g65.1 | 1jd2.1 | 1ryp.1 | 1z7q.1 | 2f16.1 | 2fak.1 | 2gpl.1 | 2zcy.1 | 3bdm.1 | 3d29.1 | 3dy3.1 | 3dy4.1 | 3e47.1 | 3gpj.1 | 3gpt.1 | 3gpw.1 | 3hye.1 | 3jco.1 | 3jcp.1 | 3mg0.1 | 3mg4.1 | 3mg6.1 | 3mg7.1 | 3mg8.1 | 3nzj.1 | 3nzw.1 | 3nzx.1 | 3oeu.1 more...less...3oev.1 | 3okj.1 | 3sdk.1 | 3shj.1 | 3tdd.1 | 3un4.1 | 3un8.1 | 3wxr.1 | 4cr2.1 | 4cr3.1 | 4cr4.1 | 4eu2.1 | 4fzc.1 | 4fzg.1 | 4g4s.1 | 4gk7.1 | 4hnp.1 | 4hrc.1 | 4hrd.1 | 4inr.1 | 4int.1 | 4inu.1 | 4j70.1 | 4jsq.1 | 4jsu.1 | 4jt0.1 | 4lqi.1 | 4ltc.1 | 4nnn.1 | 4nnw.1 | 4no1.1 | 4no6.1 | 4no8.1 | 4no9.1 | 4q1s.1 | 4qby.1 | 4qlq.1 | 4qls.1 | 4qlt.1 | 4qlu.1 | 4qlv.1 | 4qux.1 | 4quy.1 | 4qv0.1 | 4qv1.1 | 4qv3.1 | 4qv4.1 | 4qv5.1 | 4qv6.1 | 4qv7.1 | 4qv8.1 | 4qv9.1 | 4qvl.1 | 4qvm.1 | 4qvn.1 | 4qvp.1 | 4qvq.1 | 4qvv.1 | 4qvw.1 | 4qvy.1 | 4qw0.1 | 4qw1.1 | 4qw3.1 | 4qw4.1 | 4qw5.1 | 4qw6.1 | 4qw7.1 | 4qwf.1 | 4qwg.1 | 4qwi.1 | 4qwj.1 | 4qwk.1 | 4qwl.1 | 4qwr.1 | 4qws.1 | 4qwu.1 | 4qwx.1 | 4qxj.1 | 4qz0.1 | 4qz1.1 | 4qz2.1 | 4qz3.1 | 4qz4.1 | 4qz5.1 | 4qz6.1 | 4qz7.1 | 4qzw.1 | 4qzx.1 | 4qzz.1 | 4r00.1 | 4r02.1 | 4r17.1 | 4r18.1 | 4rur.1 | 4v7o.1 | 4v7o.2 | 4x6z.1 | 4y69.1 | 4y6a.1 | 4y6v.1 | 4y6z.1 | 4y70.1 | 4y74.1 | 4y75.1 | 4y77.1 | 4y78.1 | 4y7w.1 | 4y7x.1 | 4y7y.1 | 4y80.1 | 4y81.1 | 4y82.1 | 4y84.1 | 4y8g.1 | 4y8h.1 | 4y8i.1 | 4y8j.1 | 4y8k.1 | 4y8l.1 | 4y8m.1 | 4y8n.1 | 4y8o.1 | 4y8p.1 | 4y8q.1 | 4y8r.1 | 4y8s.1 | 4y8t.1 | 4y8u.1 | 4y9y.1 | 4y9z.1 | 4ya0.1 | 4ya1.1 | 4ya2.1 | 4ya3.1 | 4ya4.1 | 4ya5.1 | 4ya7.1 | 4ya9.1 | 4z1l.1 | 5a5b.1 | 5ahj.1 | 5bou.1 | 5bxl.1 | 5bxn.1 | 5cgf.1 | 5cgg.1 | 5cgh.1 | 5cgi.1 | 5cz4.1 | 5cz5.1 | 5cz6.1 | 5cz7.1 | 5cz8.1 | 5cz9.1 | 5cza.1 | 5d0s.1 | 5d0t.1 | 5d0v.1 | 5d0w.1 | 5d0x.1 | 5d0z.1 | 5dki.1 | 5dkj.1 | 5fg7.1 | 5fg9.1 | 5fga.1 | 5fgd.1 | 5fge.1 | 5fgf.1 | 5fgg.1 | 5fgh.1 | 5fgi.1 | 5fhs.1 | 5jhr.1 | 5jhs.1 | 5l52.1 | 5l54.1 | 5l55.1 | 5l5a.1 | 5l5b.1 | 5l5d.1 | 5l5e.1 | 5l5f.1 | 5l5h.1 | 5l5i.1 | 5l5j.1 | 5l5o.1 | 5l5p.1 | 5l5q.1 | 5l5r.1 | 5l5s.1 | 5l5t.1 | 5l5u.1 | 5l5v.1 | 5l5w.1 | 5l5x.1 | 5l5y.1 | 5l5z.1 | 5l60.1 | 5l61.1 | 5l62.1 | 5l63.1 | 5l64.1 | 5l65.1 | 5l66.1 | 5l67.1 | 5l68.1 | 5l69.1 | 5l6a.1 | 5l6b.1 | 5l6c.1 | 5lai.1 | 5laj.1 | 5ltt.1 | 5m2b.1 | 5mp9.1 | 5mpa.1 | 5mpb.1 | 5mpc.1 | 5nif.1 | 5wvi.1 | 5wvk.1 | 6ef0.1 | 6ef1.1 | 6ef3.1 | 6fvt.1 | 6fvu.1 | 6fvv.1 | 6fvw.1 | 6fvx.1 | 6fvy.1 | 6g7f.1 | 6g8m.1 | 6g8n.1 | 6gop.1 | 6h39.1 | 6htb.1 | 6htc.1 | 6htd.1 | 6htp.1 | 6htr.1 | 6hub.1 | 6huc.1 | 6huq.1 | 6huu.1 | 6huv.1 | 6hv3.1 | 6hv4.1 | 6hv5.1 | 6hv7.1 | 6hva.1 | 6hvr.1 | 6hvs.1 | 6hvt.1 | 6hvu.1 | 6hvv.1 | 6hvw.1 | 6hvx.1 | 6hvy.1 | 6hw0.1 | 6hw3.1 | 6hw4.1 | 6hw5.1 | 6hw6.1 | 6hw7.1 | 6hw8.1 | 6hw9.1 | 6hwa.1 | 6hwb.1 | 6hwc.1 | 6hwd.1 | 6hwe.1 | 6hwf.1 | 6j2c.1 | 6j2n.1 | 6j2q.1 | 6j2x.1 | 6j30.1 | 6zou.1 | 6zp6.1 | 6zp8.1 | 7ls5.1 | 7ls6.1 | 7lsx.1 | 7o2l.1 | 7qo3.1 | 7qo5.1 | 7qo6.1 | 7tej.1 | 7teo.1 | 8bw1.1 | 8ohz.1 | 8oi1.1 | 8olr.1 | 8rhj.1 | 8rhk.1 | 8rhl.1 | 8rvl.1 | 8rvo.1 | 8rvp.1 | 8rvq.1 | 8t08.1 | 8t0m.1 | 8u6y.1 | 8u7u.1 | 9fst.1 | 9fsv.1 | 9ft0.1 | 9ft1.1 | 9gbk.1