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3LXS
Biol. Unit 1
Info
Asym.Unit (160 KB)
Biol.Unit 1 (78 KB)
Biol.Unit 2 (80 KB)
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(1)
Title
:
CRYSTAL STRUCTURE ANALYSIS OF CRUZAIN BOUND TO VINYL SULFONE DERIVED INHIBITOR (WRR483)
Authors
:
I. D. Kerr, L. S. Brinen
Date
:
25 Feb 10 (Deposition) - 20 Oct 10 (Release) - 20 Oct 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.50
Chains
:
Asym. Unit : A,C
Biol. Unit 1: A (1x)
Biol. Unit 2: C (1x)
Keywords
:
Cysteine Protease, Covalent Inhibitor, Vinyl Sulfonamide, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. T. Chen, L. S. Brinen, I. D. Kerr, E. Hansell, P. S. Doyle, J. H. Mckerrow, W. R. Roush
In Vitro And In Vivo Studies Of The Trypanocidal Properties Of Wrr-483 Against Trypanosoma Cruzi.
Plos Negl Trop Dis V. 4 2010
[
close entry info
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Hetero Components
(3, 10)
Info
All Hetero Components
1a: (Z)-N-(5-GUANIDINO-1-OXO-1-(5-PHEN... (4MCa)
1b: (Z)-N-(5-GUANIDINO-1-OXO-1-(5-PHEN... (4MCb)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
4MC
1
Ligand/Ion
(Z)-N-(5-GUANIDINO-1-OXO-1-(5-PHENYL-1-(PHENYLSULFONYL)PENT-1-EN-3-YLAMINO)PENTAN-2-YL)-4-METHYLPIPERAZINE-1-CARBOXAMIDE
2
EDO
5
Ligand/Ion
1,2-ETHANEDIOL
3
SO4
4
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(18, 18)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC5 (SOFTWARE)
13: BC6 (SOFTWARE)
14: BC7 (SOFTWARE)
15: CC3 (SOFTWARE)
16: CC4 (SOFTWARE)
17: CC6 (SOFTWARE)
18: CC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:19 , GLY A:23 , CYS A:25 , TRP A:26 , CYS A:63 , SER A:64 , GLY A:65 , GLY A:66 , LEU A:67 , MET A:145 , LEU A:160 , ASP A:161 , HIS A:162 , TRP A:184 , GLU A:208 , EDO A:227 , HOH A:247 , HOH A:355 , ASP C:161 , 4MC C:216
BINDING SITE FOR RESIDUE 4MC A 216
02
AC2
SOFTWARE
LYS A:17 , ASP A:18 , GLU A:50 , HOH A:298 , HOH A:463
BINDING SITE FOR RESIDUE EDO A 221
03
AC3
SOFTWARE
TRP A:7 , ARG A:10 , LEU A:40 , HOH A:389 , TRP C:7 , ARG C:10 , PHE C:39 , LEU C:40
BINDING SITE FOR RESIDUE EDO A 222
04
AC4
SOFTWARE
ASP A:18 , GLN A:19 , GLY A:20 , HOH A:480
BINDING SITE FOR RESIDUE EDO A 225
05
AC5
SOFTWARE
4MC A:216 , HOH A:232 , HOH A:372 , 4MC C:216
BINDING SITE FOR RESIDUE EDO A 227
06
AC6
SOFTWARE
TYR A:147 , GLY A:149 , VAL A:151 , MET A:152 , HOH A:485 , HOH A:488
BINDING SITE FOR RESIDUE EDO A 230
07
AC7
SOFTWARE
HIS A:43 , PRO A:44 , HOH A:386 , HOH A:407 , HOH A:415 , HOH A:448 , PRO C:2 , ALA C:3 , HOH C:348
BINDING SITE FOR RESIDUE SO4 A 217
08
AC8
SOFTWARE
PRO A:2 , ALA A:3 , HOH A:307 , HOH A:442 , HOH A:457 , HIS C:43 , PRO C:44
BINDING SITE FOR RESIDUE SO4 A 218
09
AC9
SOFTWARE
THR A:102 , THR A:103 , SER A:104 , THR A:111 , HOH A:368 , EDO C:236
BINDING SITE FOR RESIDUE SO4 A 219
10
BC1
SOFTWARE
ARG A:195 , HOH A:336 , HOH A:405 , ASN C:80
BINDING SITE FOR RESIDUE SO4 A 220
11
BC2
SOFTWARE
ASP A:161 , 4MC A:216 , EDO A:227 , GLN C:19 , GLY C:23 , CYS C:25 , TRP C:26 , CYS C:63 , GLY C:65 , GLY C:66 , LEU C:67 , MET C:145 , LEU C:160 , ASP C:161 , HIS C:162 , TRP C:184 , GLU C:208 , HOH C:412
BINDING SITE FOR RESIDUE 4MC C 216
12
BC5
SOFTWARE
CYS A:155 , VAL A:156 , SER A:157 , HOH A:256 , HOH A:294 , HOH A:419 , PRO C:100
BINDING SITE FOR RESIDUE EDO C 225
13
BC6
SOFTWARE
GLU A:122 , GLY A:199 , ASN A:201 , LYS A:206 , HOH A:305 , GLY C:105 , THR C:107 , HOH C:267
BINDING SITE FOR RESIDUE EDO C 226
14
BC7
SOFTWARE
ALA A:9 , SO4 C:218 , HOH C:349
BINDING SITE FOR RESIDUE EDO C 227
15
CC3
SOFTWARE
PHE A:39 , ALA C:9
BINDING SITE FOR RESIDUE EDO C 233
16
CC4
SOFTWARE
TRP A:38 , HIS A:43 , VAL A:214 , SO4 A:219 , HOH A:300 , ALA C:1
BINDING SITE FOR RESIDUE EDO C 236
17
CC6
SOFTWARE
HOH A:253 , HOH A:364 , THR C:102 , THR C:103 , SER C:104
BINDING SITE FOR RESIDUE SO4 C 217
18
CC7
SOFTWARE
ARG A:10 , HOH A:236 , HIS C:43 , PRO C:44 , EDO C:227 , HOH C:306 , HOH C:328 , HOH C:359 , HOH C:433
BINDING SITE FOR RESIDUE SO4 C 218
[
close Site info
]
SAPs(SNPs)/Variants
(7, 7)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_CYSP_TRYCR_009 (S24G, chain A, )
2: VAR_CYSP_TRYCR_010 (S64G, chain A, )
3: VAR_CYSP_TRYCR_011 (A82G, chain A, )
4: VAR_CYSP_TRYCR_012 (V164F, chain A, )
5: VAR_CYSP_TRYCR_013 (V164L, chain A, )
6: VAR_CYSP_TRYCR_014 (T186A, chain A, )
7: VAR_CYSP_TRYCR_015 (E191D, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_CYSP_TRYCR_009
*
S
146
G
CYSP_TRYCR
---
---
A
S
24
G
2
UniProt
VAR_CYSP_TRYCR_010
*
S
186
G
CYSP_TRYCR
---
---
A
S
64
G
3
UniProt
VAR_CYSP_TRYCR_011
*
A
204
G
CYSP_TRYCR
---
---
A
A
82
G
4
UniProt
VAR_CYSP_TRYCR_012
*
V
286
F
CYSP_TRYCR
---
---
A
V
164
F
5
UniProt
VAR_CYSP_TRYCR_013
*
V
286
L
CYSP_TRYCR
---
---
A
V
164
L
6
UniProt
VAR_CYSP_TRYCR_014
*
T
308
A
CYSP_TRYCR
---
---
A
T
186
A
7
UniProt
VAR_CYSP_TRYCR_015
*
E
313
D
CYSP_TRYCR
---
---
A
E
191
D
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: THIOL_PROTEASE_CYS (A:19-30)
2: THIOL_PROTEASE_HIS (A:160-170)
3: THIOL_PROTEASE_ASN (A:177-196)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
THIOL_PROTEASE_CYS
PS00139
Eukaryotic thiol (cysteine) proteases cysteine active site.
CYSP_TRYCR
141-152
1
A:19-30
-
2
THIOL_PROTEASE_HIS
PS00639
Eukaryotic thiol (cysteine) proteases histidine active site.
CYSP_TRYCR
282-292
1
A:160-170
-
3
THIOL_PROTEASE_ASN
PS00640
Eukaryotic thiol (cysteine) proteases asparagine active site.
CYSP_TRYCR
299-318
1
A:177-196
-
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3lxsa_ (A:)
1b: SCOP_d3lxsc_ (C:)
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Classes
(
)
(
)
Folds
(
)
(
)
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(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cysteine proteinases
(392)
Superfamily
:
Cysteine proteinases
(392)
Family
:
Papain-like
(200)
Protein domain
:
Cruzain
(20)
Trypanosoma cruzi [TaxId: 5693]
(20)
1a
d3lxsa_
A:
1b
d3lxsc_
C:
[
close SCOP info
]
CATH Domains
(0, 0 ; only for superseded entry 2EFM: 1,2)
Info
all CATH domains
1a: CATH_2efmA00 ()
1b: CATH_2efmC00 ()
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Peptidase_C1_3lxsC01 (C:1-213)
1b: PFAM_Peptidase_C1_3lxsC02 (C:1-213)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Peptidase_CA
(169)
Family
:
Peptidase_C1
(81)
Trypanosoma cruzi
(6)
1a
Peptidase_C1-3lxsC01
C:1-213
1b
Peptidase_C1-3lxsC02
C:1-213
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]
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