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EBI Databases Structure Databases PDBsum

Ligand clusters for UniProt code P25451

Ligand clusters for P25451: Proteasome subunit beta type-3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

6 ligand clusters
Cluster 1.
64 ligand types
167 ligands
 Cluster 2.
2 ligand types
2 ligands
 Cluster 3.
1 ligand type
1 ligand
 Cluster 4.
1 ligand type
1 ligand
 Cluster 5.
1 ligand type
442 ligands
 Cluster 6.
1 ligand type
1 ligand
Representative protein: 1g65I  
JSmol
 

Structures

PDB   Schematic diagram
1g65I    
4qwgI    
6g7fI    
4ya0I    
5cz4I    
 more ...

 

 Cluster 1 contains 64 ligand types (of which only 20 are listed. Click for all)

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Ligand Description


 
1. Ligand: 3BV × 24
carfilzomib
N-{(2s)-2-[(Morpholin-4-Ylacetyl)amino]-4- Phenylbutanoyl}-L-Leucyl-N-[(2r,3s,4s)-1,3-Dihydroxy-
2,6-Dimethylheptan-4-Yl]-L-Phenylalaninamide
PDB codes: 4qw4(I), 4qw5(I), 4qw6(I), 4qw7(I), 4qwf(I), 4qwg(I), 4qwi(I), 4qwj(I), 4qwk(I), 4qwl(I), 4qwr(I), 4qws(I), 5cz8(I), 5d0s(I), 5d0v(I), 5d0z(I), 5fgd(I), 5fge(I), 5fgf(I), 5fgg(I), 5fhs(I), 5l5e(I), 5l5y(I), 5l65(I).


 
2. Ligand: BO2 × 20
bortezomib
N-[(1r)-1-(Dihydroxyboryl)-3-Methylbutyl]-N-(Pyrazin-2- Ylcarbonyl)-L-Phenylalaninamide
PDB codes: 2f16(I), 3mg0(I), 4qvl(I), 4qvm(I), 4qvn(I), 4qvp(I), 4qvq(I), 4qvv(I), 4qvw(I), 4qvy(I), 4qw0(I), 4qw1(I), 4qw3(I), 4qwu(I), 5bxn(I), 5d0x(I), 5l5f(I), 5l5z(I), 5l66(I), 6hwd(I).

_Mg
 
3. Metal: _MG × 14
PDB codes: 1g65(I), 1jd2(I), 1ryp(J), 3mg4(I), 3mg6(I), 3mg7(I), 3mg8(I), 3oeu(I), 3oev(I), 3sdi(I), 3sdk(I), 4g4s(J), 4x6z(J), 6htc(I).


 
4. Ligand: 04C × 19
1,2,4-Trideoxy-4-Methyl-2-{[N-(Morpholin-4-Ylacetyl)-L- Alanyl-O-Methyl-L-Tyrosyl]amino}-1-Phenyl-
D-Xylitol
PDB codes: 3un4(I), 4qwx(I), 4qxj(I), 4qz0(I), 4qz1(I), 4qz2(I), 4qz3(I), 4qz4(I), 4qz5(I), 4qz6(I), 4qz7(I), 4qzw(I), 4qzx(I), 5cgi(I), 5l5d(I), 5l5u(I), 5l5x(I), 5l63(I), 5l6b(I).


 
5. Ligand: ACE-LEU-ALA-GAU-POL × 5
ACE=Acetyl group, GAU=(4s)-4-Amino-5-Hydroxypentanoic acid, POL=N-Propanol.
PDB codes: 4y7w(I), 4y8s(I), 4y9z(I), 4ya2(I), 4ya7(I).


 
6. Ligand: GQH × 3
(2~{s})-~{N}-[(2~{s})-1-[[(2~{s})-1-[4-(Aminomethyl) phenyl]-4-Methylsulfonyl-Butan-2-Yl]amino]-1-
Oxidanylidene-Propan-2-Yl]-2-[[(2~{s})-2-Azido-3- Phenyl-Propanoyl]amino]-4-Methyl-Pentanamide
PDB codes: 6htd(I), 6hv5(I), 6hvx(I).


 
7. Ligand: GQK × 3
(2~{s})-3-(4-Methoxyphenyl)-~{N}-[(2~{s},3~{r})-4- Methyl-3,4-Bis(oxidanyl)-1-Phenyl-Pentan-2-Yl]-
2- [[(2~{s})-2-(2-Morpholin-4-Ylethanoylamino) propanoyl]amino]propanamide
PDB codes: 6htc(I), 6hv4(I), 6hwf(I).


 
8. Ligand: GQQ × 3
~{N}-[(2~{s})-1-[[(2~{s})-1-[[(2~{s})-1-[4- (Aminomethyl)phenyl]-4-Methylsulfonyl-Butan-2-
Yl]amino]-4-Methyl-1-Oxidanylidene-Pentan-2-Yl]amino]- 4-Methyl-1-Oxidanylidene-Pentan-2-
Yl]pyrazine-2- Carboxamide
PDB codes: 6htp(I), 6hv7(I), 6hw0(I).


 
9. Ligand: GQT × 3
(2~{s})-~{N}-[(2~{s})-1-[[(2~{s})-1-[4-(Aminomethyl) phenyl]-4-Methylsulfonyl-Butan-2-Yl]amino]-3-
Oxidanyl- 1-Oxidanylidene-Propan-2-Yl]-2-[[(2~{s})-2-Azido-3- Phenyl-Propanoyl]amino]-4-Methyl-
Pentanamide
PDB codes: 6htr(I), 6hva(I), 6hw3(I).


 
10. Ligand: GRT × 3
(2~{s})-~{N}-[2-[[(2~{s})-1-[4-(Aminomethyl)phenyl]-4- Methylsulfonyl-Butan-2-Yl]amino]-2-
Oxidanylidene- Ethyl]-2-[[(2~{s})-2-Azido-3-Phenyl-Propanoyl]amino]- 4-Methyl-Pentanamide
PDB codes: 6huc(I), 6hvs(I), 6hw5(I).


 
11. Ligand: GRW × 3
(2~{s})-~{N}-[(2~{s},3~{r})-1-[[(2~{s})-1-[4- (Aminomethyl)phenyl]-4-Methylsulfonyl-Butan-2-
Yl]amino]-3-Oxidanyl-1-Oxidanylidene-Butan-2-Yl]-2- [[(2~{r})-2-Azido-3-Phenyl-Propanoyl]amino]-
4-Methyl- Pentanamide
PDB codes: 6hub(I), 6hvr(I), 6hw4(I).


 
12. Ligand: GT5 × 3
~{N}-[(2~{s})-1-[[(2~{s})-1-[[(2~{s})-1-[4- (Aminomethyl)phenyl]-4-Methylsulfonyl-Butan-2-
Yl]amino]-3-Methoxy-1-Oxidanylidene-Propan-2- Yl]amino]-4-Methyl-1-Oxidanylidene-Pentan-2-Yl]-2-
Methyl-1,3-Thiazole-5-Carboxamide
PDB codes: 6huq(I), 6hvt(I), 6hw6(I).


 
13. Ligand: GT8 × 3
(2~{s})-~{N}-[(3~{s},4~{r})-1-Cyclohexyl-5-Methyl-4,5- Bis(oxidanyl)hexan-3-Yl]-3-(4-
Methoxyphenyl)-2- [[(2~{s})-2-(2-Morpholin-4-Ylethanoylamino) propanoyl]amino]propanamide
PDB codes: 6huv(I), 6hvv(I), 6hw8(I).


 
14. Ligand: GTW × 3
~{N}-[(2~{s})-1-[[(2~{s})-1-[[(2~{s})-1-[4- (Aminomethyl)phenyl]-4-Methylsulfonyl-Butan-2-
Yl]amino]-3-Cyclohexyl-1-Oxidanylidene-Propan-2- Yl]amino]-4-Methyl-1-Oxidanylidene-Pentan-2-Yl]-
2- Methyl-1,3-Thiazole-5-Carboxamide
PDB codes: 6huu(I), 6hvu(I), 6hw7(I).


 
15. Ligand: 3BV-MES × 2
3BV=N-{(2s)-2-[(Morpholin-4-Ylacetyl)amino]-4- Phenylbutanoyl}-L-Leucyl-N-[(2r,3s,4s)-1,3-Dihydroxy-
2,6-Dimethylheptan-4-Yl]-L-Phenylalaninamide, MES=2-(N-Morpholino)-Ethanesulfonic acid.
PDB codes: 5cz5(I), 5cz9(I).


 
16. Ligand: 6N5 × 2
~{N}-[(2~{s})-1-[[(2~{s})-3-(4-Methoxyphenyl)-1- [[(2~{s},3~{s},4~{r})-4-Methyl-3,5-Bis(oxidanyl)-
1- Phenyl-Pentan-2-Yl]amino]-1-Oxidanylidene-Propan-2- Yl]amino]-1-Oxidanylidene-Propan-2-Yl]-1-
Methyl-5~{h}- Indene-2-Carboxamide
PDB codes: 5l5j(I), 5l68(I).


 
17. Ligand: 79L × 2
(2~{s})-3-(4-Methoxyphenyl)-~{N}-[(2~{s},3~{s},4~{r})- 4-Methyl-3,5-Bis(oxidanyl)-1-Phenyl-Pentan-
2-Yl]-2- [[(2~{r})-2-(2-Morpholin-4-Ylethanoylamino) propanoyl]amino]propanamide
PDB codes: 5l5p(I), 5l6a(I).


 
18. Ligand: 79P × 2
(2~{s})-3-(1~{h}-Indol-3-Yl)-~{N}-[(2~{s},3~{s},4~{r})- 4-Methyl-3,5-Bis(oxidanyl)-1-Phenyl-Pentan-
2-Yl]-2- [[(2~{r})-2-(2-Morpholin-4-Ylethanoylamino) propanoyl]amino]propanamide
PDB codes: 5l5o(I), 5l69(I).


 
19. Ligand: ACE-LEU-ALA-ASJ-POL × 2
ACE=Acetyl group, ASJ=(3s)-3-Amino-4-Hydroxybutanoic acid, POL=N-Propanol.
PDB codes: 4y78(I), 4ya9(I).


 
20. Ligand: ACE-PRO-ALA-DCL-POL × 2
ACE=Acetyl group, DCL=2-Amino-4-Methyl-Pentan-1-Ol, POL=N-Propanol.
PDB codes: 4y6z(I), 4y8p(I).

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 Cluster 2 contains 2 ligand types

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Ligand Description


 
1. Ligand: EQE × 1
(2~{s},3~{r})-4-[[(2~{s})-3-Methyl-1-[[(2~{s})-3- Methyl-1-Oxidanylidene-1-Phenylmethoxy-Butan-2-
Yl]amino]-1-Oxidanylidene-Butan-2-Yl]amino]-3- Oxidanyl-4-Oxidanylidene-2-Propan-2-Yl-
Butanoic acid
PDB code: 6g8m(I).


 
2. Ligand: ESY × 1
Benzyl n-[(Benzyloxy)carbonyl]-L-Alanyl-N~6~-[(2r,3s, 4s)-3-Formyl-2-Hydroxy-4-Methylhexanoyl]-L-
Lysinate
PDB code: 3e47(I).

 

 Cluster 3 contains 1 ligand type

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Ligand Description


 
1. Ligand: GOL × 1
glycerin
Glycerol
PDB code: 4x6z(J).

 

 Cluster 4 contains 1 ligand type

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Ligand Description


 
1. Ligand: GOL × 1
glycerin
Glycerol
PDB code: 5nif(J).

 

 Cluster 5 contains 1 ligand type

Selection shortcuts: select all/none invert selection.
Ligand Description

_Mg
 
1. Metal: _MG × 442
PDB codes: 1g65(I), 1jd2(I), 1ryp(J), 3mg4(I), 3mg6(I), 3mg7(I), 3mg8(I), 3oeu(I), 3oev(I), 3sdi(I), 3sdk(I), 4g4s(J), 4nnn(I), 4nnw(I), 4no6(I), 4no8(I), 4no9(I), 4qby(I), 4qlq(I), 4qlt(I), 4qlu(I), 4qlv(I), 4qux(I), 4quy(I), 4qv0(I), 4qv1(I), 4qv4(I), 4qv5(I), 4qv6(I), 4qv7(I), 4qv8(I), 4qv9(I), 4qvl(I), 4qvm(I), 4qvn(I), 4qvp(I), 4qvq(I), 4qvv(I), 4qvw(I), 4qvy(I), 4qw0(I), 4qw1(I), 4qw3(I), 4qw4(I), 4qw5(I), 4qw6(I), 4qw7(I), 4qwf(I), 4qwg(I), 4qwi(I), 4qwj(I), 4qwk(I), 4qwl(I), 4qwr(I), 4qws(I), 4qwu(I), 4qwx(I), 4qxj(I), 4qz0(I), 4qz1(I), 4qz2(I), 4qz3(I), 4qz4(I), 4qz5(I), 4qz6(I), 4qz7(I), 4qzw(I), 4qzx(I), 4qzz(I), 4r00(I), 4r02(I), 4r17(I), 4r18(I), 4rur(I), 4y69(I), 4y6a(I), 4y6v(I), 4y6z(I), 4y70(I), 4y74(I), 4y75(I), 4y77(I), 4y78(I), 4y7w(I), 4y7x(I), 4y7y(I), 4y80(I), 4y81(I), 4y82(I), 4y84(I), 4y8g(I), 4y8h(I), 4y8i(I), 4y8j(I), 4y8k(I), 4y8l(I), 4y8m(I), 4y8n(I), 4y8o(I), 4y8p(I), 4y8q(I), 4y8r(I), 4y8s(I), 4y8t(I), 4y8u(I), 4y9y(I), 4y9z(I), 4ya0(I), 4ya1(I), 4ya2(I), 4ya3(I), 4ya4(I), 4ya5(I), 4ya7(I), 4ya9(I), 4z1l(I), 5ahj(I), 5bou(I), 5bxl(I), 5bxn(I), 5cgf(I), 5cgg(I), 5cgh(I), 5cgi(I), 5cz4(I), 5cz5(I), 5cz6(I), 5cz7(I), 5cz8(I), 5cz9(I), 5cza(I), 5d0s(I), 5d0t(I), 5d0v(I), 5d0w(I), 5d0x(I), 5d0z(I), 5dki(I), 5dkj(I), 5fg7(I), 5fg9(I), 5fga(I), 5fgd(I), 5fge(I), 5fgf(I), 5fgg(I), 5fgh(I), 5fgi(I), 5fhs(I), 5jhr(I), 5jhs(I), 5l52(I), 5l54(I), 5l55(I), 5l5a(I), 5l5b(I), 5l5d(I), 5l5e(I), 5l5f(I), 5l5h(I), 5l5i(I), 5l5j(I), 5l5o(I), 5l5p(I), 5l5q(I), 5l5r(I), 5l5s(I), 5l5t(I), 5l5u(I), 5l5v(I), 5l5w(I), 5l5x(I), 5l5y(I), 5l5z(I), 5l60(I), 5l61(I), 5l62(I), 5l63(I), 5l64(I), 5l65(I), 5l66(I), 5l67(I), 5l68(I), 5l69(I), 5l6a(I), 5l6b(I), 5l6c(I), 5lai(I), 5laj(I), 5ltt(I), 5m2b(I), 6g7f(I), 6g8m(I), 6g8n(I), 6gop(I), 6h39(I), 6htb(I), 6htc(I), 6htd(I), 6htp(I), 6htr(I), 6hub(I), 6huc(I), 6huq(I), 6huu(I), 6huv(I), 6hv3(I), 6hv4(I), 6hv5(I), 6hv7(I), 6hva(I), 6hvr(I), 6hvs(I), 6hvt(I), 6hvu(I), 6hvv(I), 6hvw(I), 6hvx(I), 6hvy(I), 6hw0(I), 6hw3(I), 6hw4(I), 6hw5(I), 6hw6(I), 6hw7(I), 6hw8(I), 6hw9(I), 6hwa(I), 6hwb(I), 6hwc(I), 6hwd(I), 6hwe(I), 6hwf(I),

 

 Cluster 6 contains 1 ligand type

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Ligand Description

_Mg
 
1. Metal: _MG × 1
PDB code: 4x6z(J).

 

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