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2BDH
Asym. Unit
Info
Asym.Unit (147 KB)
Biol.Unit 1 (38 KB)
Biol.Unit 2 (38 KB)
Biol.Unit 3 (38 KB)
Biol.Unit 4 (38 KB)
Biol.Unit 5 (72 KB)
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(1)
Title
:
HUMAN KALLIKREIN 4 COMPLEX WITH ZINC AND P-AMINOBENZAMIDINE
Authors
:
M. Debela, W. Bode, P. Goettig, Structural Proteomics In Europe (Spine)
Date
:
20 Oct 05 (Deposition) - 03 Oct 06 (Release) - 09 Jun 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
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)
Biol. Unit 5: A,B (1x)
Keywords
:
Serine Proteinase, S1 Subsite, 70-80 Loop, Structural Proteomics In Europe, Spine, Structural Genomics, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Debela, V. Magdolen, V. Grimminger, C. Sommerhoff, A. Messerschmidt, R. Huber, R. Friedrich, W. Bode, P. Goettig
Crystal Structures Of Human Tissue Kallikrein 4: Activity Modulation By A Specific Zinc Binding Site.
J. Mol. Biol. V. 362 1094 2006
(for further references see the
PDB file header
)
[
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]
Hetero Components
(2, 5)
Info
All Hetero Components
1a: P-AMINO BENZAMIDINE (PBZa)
1b: P-AMINO BENZAMIDINE (PBZb)
1c: P-AMINO BENZAMIDINE (PBZc)
1d: P-AMINO BENZAMIDINE (PBZd)
2a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
PBZ
4
Ligand/Ion
P-AMINO BENZAMIDINE
2
ZN
1
Ligand/Ion
ZINC ION
[
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]
Sites
(5, 5)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:25 , GLU A:77 , GLU B:74 , ASP B:75
BINDING SITE FOR RESIDUE ZN A 401
2
AC2
SOFTWARE
ASP B:189 , SER B:190 , SER B:195 , SER B:214 , GLY B:216 , LYS B:217 , CYS B:220
BINDING SITE FOR RESIDUE PBZ B 301
3
AC3
SOFTWARE
ASP C:189 , SER C:190 , SER C:195 , VAL C:213 , SER C:214 , PHE C:215 , CYS C:220
BINDING SITE FOR RESIDUE PBZ C 302
4
AC4
SOFTWARE
ASP A:189 , SER A:190 , ASN A:192 , SER A:195 , VAL A:213 , CYS A:220 , HOH A:404 , HOH A:432
BINDING SITE FOR RESIDUE PBZ A 303
5
AC5
SOFTWARE
ASP D:189 , SER D:190 , CYS D:191 , SER D:195 , VAL D:213 , PHE D:215 , GLY D:216 , CYS D:220
BINDING SITE FOR RESIDUE PBZ D 304
[
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]
SAPs(SNPs)/Variants
(2, 8)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_033009 (G147D, chain A/B/C/D, )
2: VAR_028365 (Q186AQ, chain A/B/C/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_033009
G
159
D
KLK4_HUMAN
Polymorphism
34626614
A/B/C/D
G
147
D
2
UniProt
VAR_028365
H
197
Q
KLK4_HUMAN
Polymorphism
2569527
A/B/C/D
Q
186A
Q
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(3, 12)
Info
All PROSITE Patterns/Profiles
1: TRYPSIN_DOM (A:16-243,B:16-243,C:16-243,D:16-24...)
2: TRYPSIN_HIS (A:53-58,B:53-58,C:53-58,D:53-58)
3: TRYPSIN_SER (A:189-200,B:189-200,C:189-200,D:18...)
;
View:
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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.
KLK4_HUMAN
31-252
4
A:16-243
B:16-243
C:16-243
D:16-243
2
TRYPSIN_HIS
PS00134
Serine proteases, trypsin family, histidine active site.
KLK4_HUMAN
67-72
4
A:53-58
B:53-58
C:53-58
D:53-58
3
TRYPSIN_SER
PS00135
Serine proteases, trypsin family, serine active site.
KLK4_HUMAN
201-212
4
A:189-200
B:189-200
C:189-200
D:189-200
[
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Exons
(4, 16)
Info
All Exons
Exon 1.2 (A:16-61 (gaps) | B:16-61 (gaps) | ...)
Exon 1.3a (A:61-147 (gaps) | B:61-147 (gaps) ...)
Exon 1.3c (A:147-192 (gaps) | B:147-192 (gaps...)
Exon 1.4 (A:193-244 (gaps) | B:193-244 (gaps...)
View:
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All Exon Boundaries
1: Boundary 1.1/1.2
2: Boundary 1.2/1.3a
3: Boundary 1.3a/1.3c
4: Boundary 1.3c/1.4
5: Boundary 1.4/-
View:
Label:
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
ENST00000324041
1
ENSE00001805755
chr19:
51413994-51413934
61
KLK4_HUMAN
1-21
21
0
-
-
1.2
ENST00000324041
2
ENSE00001664323
chr19:
51412670-51412508
163
KLK4_HUMAN
21-75
55
4
A:16-61 (gaps)
B:16-61 (gaps)
C:16-61 (gaps)
D:16-61 (gaps)
46
46
46
46
1.3a
ENST00000324041
3a
ENSE00001265762
chr19:
51412085-51411835
251
KLK4_HUMAN
75-159
85
4
A:61-147 (gaps)
B:61-147 (gaps)
C:61-147 (gaps)
D:61-147 (gaps)
88
88
88
88
1.3c
ENST00000324041
3c
ENSE00001265832
chr19:
51411751-51411615
137
KLK4_HUMAN
159-204
46
4
A:147-192 (gaps)
B:147-192 (gaps)
C:147-192 (gaps)
D:147-192 (gaps)
48
48
48
48
1.4
ENST00000324041
4
ENSE00001265771
chr19:
51410342-51409608
735
KLK4_HUMAN
205-254
50
4
A:193-244 (gaps)
B:193-244 (gaps)
C:193-244 (gaps)
D:193-244 (gaps)
53
53
53
53
[
close EXON info
]
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2bdha_ (A:)
1b: SCOP_d2bdhb_ (B:)
1c: SCOP_d2bdhc_ (C:)
1d: SCOP_d2bdhd_ (D:)
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Class
:
All beta proteins
(24004)
Fold
:
Trypsin-like serine proteases
(1752)
Superfamily
:
Trypsin-like serine proteases
(1752)
Family
:
automated matches
(71)
Protein domain
:
automated matches
(71)
Human (Homo sapiens) [TaxId: 9606]
(37)
1a
d2bdha_
A:
1b
d2bdhb_
B:
1c
d2bdhc_
C:
1d
d2bdhd_
D:
[
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_2bdhA01 (A:16-27,A:121-234)
1b: CATH_2bdhB01 (B:16-27,B:121-234)
1c: CATH_2bdhC01 (C:16-27,C:121-234)
1d: CATH_2bdhD01 (D:16-27,D:121-234)
1e: CATH_2bdhA02 (A:28-120,A:235-244)
1f: CATH_2bdhB02 (B:28-120,B:235-244)
1g: CATH_2bdhC02 (C:28-120,C:235-244)
1h: CATH_2bdhD02 (D:28-120,D:235-244)
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)
Organisms
(
)
(
)
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
2bdhA01
A:16-27,A:121-234
1b
2bdhB01
B:16-27,B:121-234
1c
2bdhC01
C:16-27,C:121-234
1d
2bdhD01
D:16-27,D:121-234
1e
2bdhA02
A:28-120,A:235-244
1f
2bdhB02
B:28-120,B:235-244
1g
2bdhC02
C:28-120,C:235-244
1h
2bdhD02
D:28-120,D:235-244
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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