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2ZCK
Asym. Unit
Info
Asym.Unit (115 KB)
Biol.Unit 1 (109 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A TERNARY COMPLEX BETWEEN PSA, A SUBSTRAT-ACYL INTERMEDIATE AND AN ACTIVATING ANTIBODY
Authors
:
R. Menez, E. Stura, C. Jolivet-Reynaud
Date
:
09 Nov 07 (Deposition) - 29 Jan 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.10
Chains
:
Asym. Unit : H,L,P,S
Biol. Unit 1: H,L,P,S (1x)
Keywords
:
Human Psa, Antibodies, Kallikrein Related Peptidases, Prostate Cancer, Glycoprotein, Hydrolase, Protease, Secreted, Serine Protease, Zymogen, Immune System
(Keyword Search:
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Reference
:
S. Michel, B. H. Muller, M. Bossus, F. Ducancel, C. Jolivet-Reynaud, E. A. Stura
Crystal Structure Of A Ternary Complex Between Human Prostate-Specific Antigen, Its Substrate Acyl Intermediate And An Activating Antibody
J. Mol. Biol. V. 376 1021 2008
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Hetero Components
(2, 2)
Info
All Hetero Components
1a: ALPHA-D-MANNOSE (MANa)
2a: N-ACETYL-D-GLUCOSAMINE (NAGa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MAN
1
Ligand/Ion
ALPHA-D-MANNOSE
2
NAG
1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASN P:61 , MAN P:403
BINDING SITE FOR RESIDUE NAG P 401
2
AC2
SOFTWARE
ASN P:61 , NAG P:401
BINDING SITE FOR RESIDUE MAN P 403
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SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_021941 (E23K, chain P, )
2: VAR_021942 (L114I, chain P, )
3: VAR_051852 (I163T, chain P, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_021941
E
32
K
KLK3_HUMAN
Polymorphism
2271092
P
E
23
K
2
UniProt
VAR_021942
L
132
I
KLK3_HUMAN
Polymorphism
2003783
P
L
114
I
3
UniProt
VAR_051852
I
179
T
KLK3_HUMAN
Polymorphism
17632542
P
I
163
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: TRYPSIN_DOM (P:16-244)
2: TRYPSIN_HIS (P:53-58)
3: TRYPSIN_SER (P:189-200)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRYPSIN_DOM
PS50240
Serine proteases, trypsin domain profile.
KLK3_HUMAN
25-258
1
P:16-244
2
TRYPSIN_HIS
PS00134
Serine proteases, trypsin family, histidine active site.
KLK3_HUMAN
61-66
1
P:53-58
3
TRYPSIN_SER
PS00135
Serine proteases, trypsin family, serine active site.
KLK3_HUMAN
207-218
1
P:189-200
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Exons
(4, 4)
Info
All Exons
Exon 1.2a (P:16-61 (gaps))
Exon 1.3b (P:61-149 (gaps))
Exon 1.4 (P:149-192)
Exon 1.5b (P:193-247 (gaps))
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All Exon Boundaries
1: Boundary 1.1/1.2a
2: Boundary 1.2a/1.3b
3: Boundary 1.3b/1.4
4: Boundary 1.4/1.5b
5: Boundary 1.5b/-
View:
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000326003
1
ENSE00001123926
chr19:
51358171-51358257
87
KLK3_HUMAN
1-16
16
0
-
-
1.2a
ENST00000326003
2a
ENSE00001718125
chr19:
51359496-51359655
160
KLK3_HUMAN
16-69
54
1
P:16-61 (gaps)
46
1.3b
ENST00000326003
3b
ENSE00001268279
chr19:
51361285-51361571
287
KLK3_HUMAN
69-165
97
1
P:61-149 (gaps)
100
1.4
ENST00000326003
4
ENSE00001268316
chr19:
51361715-51361851
137
KLK3_HUMAN
165-210
46
1
P:149-192
46
1.5b
ENST00000326003
5b
ENSE00001268296
chr19:
51363228-51364020
793
KLK3_HUMAN
211-261
51
1
P:193-247 (gaps)
55
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SCOP Domains
(0, 0)
Info
All SCOP Domains
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CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_2zckP02 (P:28-120,P:234-246)
1b: CATH_2zckP01 (P:16-27,P:121-233)
2a: CATH_2zckL02 (L:109-214)
2b: CATH_2zckL01 (L:1-108)
2c: CATH_2zckH02 (H:114-212)
2d: CATH_2zckH01 (H:1-113)
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Classes
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)
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)
Organisms
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)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Thrombin, subunit H
(1535)
Homologous Superfamily
:
Trypsin-like serine proteases
(1488)
Human (Homo sapiens)
(615)
1a
2zckP02
P:28-120,P:234-246
1b
2zckP01
P:16-27,P:121-233
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Human (Homo sapiens)
(912)
2a
2zckL02
L:109-214
2b
2zckL01
L:1-108
2c
2zckH02
H:114-212
2d
2zckH01
H:1-113
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Trypsin_2zckP01 (P:16-239)
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)
Clan
:
Peptidase_PA
(797)
Family
:
Trypsin
(679)
Homo sapiens (Human)
(339)
1a
Trypsin-2zckP01
P:16-239
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Asymmetric Unit 1
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