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1CQD
Asym. Unit
Info
Asym.Unit (152 KB)
Biol.Unit 1 (39 KB)
Biol.Unit 2 (39 KB)
Biol.Unit 3 (39 KB)
Biol.Unit 4 (39 KB)
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(1)
Title
:
THE 2.1 ANGSTROM STRUCTURE OF A CYSTEINE PROTEASE WITH PROLINE SPECIFICITY FROM GINGER RHIZOME, ZINGIBER OFFICINALE
Authors
:
K. H. Choi, R. A. Laursen, K. N. Allen
Date
:
15 Jun 99 (Deposition) - 28 Sep 99 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Cysteine Protease, Glycoprotein, Proline Specificity, Carbohydrate, Papain Family, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. H. Choi, R. A. Laursen, K. N. Allen
The 2. 1 A Structure Of A Cysteine Protease With Proline Specificity From Ginger Rhizome, Zingiber Officinale.
Biochemistry V. 38 11624 1999
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Hetero Components
(4, 19)
Info
All Hetero Components
1a: ALPHA-L-FUCOSE (FUCa)
1b: ALPHA-L-FUCOSE (FUCb)
1c: ALPHA-L-FUCOSE (FUCc)
2a: BETA-L-FUCOSE (FULa)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3g: N-ACETYL-D-GLUCOSAMINE (NAGg)
3h: N-ACETYL-D-GLUCOSAMINE (NAGh)
3i: N-ACETYL-D-GLUCOSAMINE (NAGi)
3j: N-ACETYL-D-GLUCOSAMINE (NAGj)
3k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4a: THIOSULFATE (THJa)
4b: THIOSULFATE (THJb)
4c: THIOSULFATE (THJc)
4d: THIOSULFATE (THJd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FUC
3
Ligand/Ion
ALPHA-L-FUCOSE
2
FUL
1
Ligand/Ion
BETA-L-FUCOSE
3
NAG
11
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
THJ
4
Ligand/Ion
THIOSULFATE
[
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Sites
(23, 23)
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: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CAA (AUTHOR)
20: CAB (AUTHOR)
21: CAC (AUTHOR)
22: CAD (AUTHOR)
23: CC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:156 , ILE A:157 , ASN A:201 , FUL A:501 , NAG A:503 , VAL D:43 , THR D:44
BINDING SITE FOR RESIDUE NAG A 500
02
AC2
SOFTWARE
NAG A:500 , NAG A:503
BINDING SITE FOR RESIDUE FUL A 501
03
AC3
SOFTWARE
NAG A:500 , FUL A:501
BINDING SITE FOR RESIDUE NAG A 503
04
AC4
SOFTWARE
ASN A:99 , NAG A:901
BINDING SITE FOR RESIDUE NAG A 900
05
AC5
SOFTWARE
NAG A:900
BINDING SITE FOR RESIDUE NAG A 901
06
AC6
SOFTWARE
CYS B:155 , ASN B:156 , FUC B:501 , NAG B:503 , VAL C:43 , THR C:44
BINDING SITE FOR RESIDUE NAG B 500
07
AC7
SOFTWARE
NAG B:500 , NAG B:503
BINDING SITE FOR RESIDUE FUC B 501
08
AC8
SOFTWARE
NAG B:500 , FUC B:501
BINDING SITE FOR RESIDUE NAG B 503
09
AC9
SOFTWARE
ILE B:97 , ASN B:99
BINDING SITE FOR RESIDUE NAG B 900
10
BC1
SOFTWARE
ASN C:99 , THR C:101 , NAG C:901 , FUC C:902
BINDING SITE FOR RESIDUE NAG C 900
11
BC2
SOFTWARE
NAG C:900
BINDING SITE FOR RESIDUE NAG C 901
12
BC3
SOFTWARE
NAG C:900
BINDING SITE FOR RESIDUE FUC C 902
13
BC4
SOFTWARE
ILE D:97 , ASN D:99 , THR D:101 , NAG D:901 , FUC D:902
BINDING SITE FOR RESIDUE NAG D 900
14
BC5
SOFTWARE
NAG D:900
BINDING SITE FOR RESIDUE FUC D 902
15
BC6
SOFTWARE
NAG D:900
BINDING SITE FOR RESIDUE NAG D 901
16
BC7
SOFTWARE
GLN A:21 , GLY A:25 , SER A:26 , CYS A:27 , ASN A:160 , HIS A:161 , HOH A:904
BINDING SITE FOR RESIDUE THJ A 800
17
BC8
SOFTWARE
GLN B:21 , GLY B:25 , SER B:26 , CYS B:27 , ASN B:160 , HIS B:161
BINDING SITE FOR RESIDUE THJ B 800
18
BC9
SOFTWARE
GLN C:21 , GLY C:25 , SER C:26 , CYS C:27 , ASN C:160 , HIS C:161 , HOH C:973
BINDING SITE FOR RESIDUE THJ C 800
19
CAA
AUTHOR
CYS A:27 , HIS A:161
CYS 27 AND HIS 161 ARE THE CATALYTIC DIAD.
20
CAB
AUTHOR
CYS B:27 , HIS B:161
CYS 27 AND HIS 161 ARE THE CATALYTIC DIAD.
21
CAC
AUTHOR
CYS C:27 , HIS C:161
CYS 27 AND HIS 161 ARE THE CATALYTIC DIAD.
22
CAD
AUTHOR
CYS D:27 , HIS D:161
CYS 27 AND HIS 161 ARE THE CATALYTIC DIAD.
23
CC1
SOFTWARE
GLN D:21 , GLY D:25 , SER D:26 , CYS D:27 , ASN D:160 , HIS D:161
BINDING SITE FOR RESIDUE THJ D 800
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: THIOL_PROTEASE_CYS (A:21-32,B:21-32,C:21-32,D:21-32)
2: THIOL_PROTEASE_HIS (A:159-169,B:159-169,C:159-169,D:15...)
;
View:
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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.
CPGP2_ZINOF
21-32
4
A:21-32
B:21-32
C:21-32
D:21-32
2
THIOL_PROTEASE_HIS
PS00639
Eukaryotic thiol (cysteine) proteases histidine active site.
CPGP2_ZINOF
159-169
4
A:159-169
B:159-169
C:159-169
D:159-169
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1cqda_ (A:)
1b: SCOP_d1cqdb_ (B:)
1c: SCOP_d1cqdc_ (C:)
1d: SCOP_d1cqdd_ (D:)
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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
:
Proline-specific cysteine protease
(1)
Ginger rhizome (Zingiber officinale) [TaxId: 94328]
(1)
1a
d1cqda_
A:
1b
d1cqdb_
B:
1c
d1cqdc_
C:
1d
d1cqdd_
D:
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1cqdA00 (A:3-218)
1b: CATH_1cqdB00 (B:3-218)
1c: CATH_1cqdC00 (C:3-218)
1d: CATH_1cqdD00 (D:3-218)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Cathepsin B; Chain A
(207)
Homologous Superfamily
:
Cysteine proteinases
(207)
Zingiber officinale. Organism_taxid: 94328.
(1)
1a
1cqdA00
A:3-218
1b
1cqdB00
B:3-218
1c
1cqdC00
C:3-218
1d
1cqdD00
D:3-218
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Chain D
Asymmetric Unit 1
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Asym.Unit (152 KB)
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