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1W9Q
Asym. Unit
Info
Asym.Unit (126 KB)
Biol.Unit 1 (61 KB)
Biol.Unit 2 (63 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE PDZ TANDEM OF HUMAN SYNTENIN IN COMPLEX WITH TNEFAF PEPTIDE
Authors
:
J. Grembecka, T. Cierpicki, Y. Devedjiev, D. R. Cooper, Z. S. Derewenda
Date
:
15 Oct 04 (Deposition) - 22 Mar 06 (Release) - 30 May 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,S
Biol. Unit 1: A (1x)
Biol. Unit 2: B,S (1x)
Keywords
:
Cell Adhesion, Adhesion/Complex, Pdz Domain, Scaffolding Protein
(Keyword Search:
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Reference
:
J. Grembecka, T. Cierpicki, Y. Devedjiev, U. Derewenda, B. S. Kang, J. H. Bushweller, Z. S. Derewenda
The Binding Of The Pdz Tandem Of Syntenin To Target Proteins.
Biochemistry V. 45 3674 2006
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: BENZOIC ACID (BEZa)
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Label:
No.
Name
Count
Type
Full Name
1
BEZ
1
Ligand/Ion
BENZOIC ACID
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Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:120 , GLY A:126 , ASN A:144 , SER A:145 , PRO A:146 , HIS A:202 , SER A:226 , ARG A:229 , ASN A:230 , HOH A:2180
BINDING SITE FOR RESIDUE BEZ A1274
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: PDZ (A:114-193,B:114-193|A:198-273,B:19...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PDZ
PS50106
PDZ domain profile.
SDCB1_HUMAN
114-193
198-273
4
A:114-193
B:114-193
A:198-273
B:198-273
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Exons
(5, 10)
Info
All Exons
Exon 1.5c (A:111-112 | B:111-112)
Exon 1.6a (A:113-134 | B:113-134)
Exon 1.7c (A:135-193 | B:135-193)
Exon 1.8a (A:193-250 | B:193-250)
Exon 1.9 (A:251-273 | B:251-273)
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All Exon Boundaries
1: Boundary 1.4b/1.5c
2: Boundary 1.5c/1.6a
3: Boundary 1.6a/1.7c
4: Boundary 1.7c/1.8a
5: Boundary 1.8a/1.9
6: Boundary 1.9/1.10h
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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
1.1b
ENST00000260130
1b
ENSE00001423873
chr8:
59465728-59465862
135
SDCB1_HUMAN
-
0
0
-
-
1.3c
ENST00000260130
3c
ENSE00002198946
chr8:
59477578-59477643
66
SDCB1_HUMAN
1-17
17
0
-
-
1.4b
ENST00000260130
4b
ENSE00000928399
chr8:
59483446-59483524
79
SDCB1_HUMAN
18-44
27
0
-
-
1.5c
ENST00000260130
5c
ENSE00000928400
chr8:
59484764-59484873
110
SDCB1_HUMAN
44-80
37
2
A:111-112
B:111-112
2
2
1.6a
ENST00000260130
6a
ENSE00000928401
chr8:
59488459-59488620
162
SDCB1_HUMAN
81-134
54
2
A:113-134
B:113-134
22
22
1.7c
ENST00000260130
7c
ENSE00000928402
chr8:
59490592-59490767
176
SDCB1_HUMAN
135-193
59
2
A:135-193
B:135-193
59
59
1.8a
ENST00000260130
8a
ENSE00000928403
chr8:
59492182-59492353
172
SDCB1_HUMAN
193-250
58
2
A:193-250
B:193-250
58
58
1.9
ENST00000260130
9
ENSE00000928404
chr8:
59493076-59493167
92
SDCB1_HUMAN
251-281
31
2
A:251-273
B:251-273
23
23
1.10h
ENST00000260130
10h
ENSE00002117339
chr8:
59494245-59495419
1175
SDCB1_HUMAN
281-298
18
0
-
-
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SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1w9qa1 (A:111-194)
1b: SCOP_d1w9qa2 (A:195-273)
1c: SCOP_d1w9qb1 (B:111-194)
1d: SCOP_d1w9qb2 (B:195-273)
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Class
:
All beta proteins
(24004)
Fold
:
PDZ domain-like
(299)
Superfamily
:
PDZ domain-like
(299)
Family
:
PDZ domain
(180)
Protein domain
:
Syntenin 1
(11)
Human (Homo sapiens) [TaxId: 9606]
(11)
1a
d1w9qa1
A:111-194
1b
d1w9qa2
A:195-273
1c
d1w9qb1
B:111-194
1d
d1w9qb2
B:195-273
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1w9qA02 (A:195-273)
1b: CATH_1w9qA01 (A:111-194)
1c: CATH_1w9qB01 (B:111-194)
1d: CATH_1w9qB02 (B:195-273)
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Organisms
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Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Pdz3 Domain
(191)
Homologous Superfamily
:
[code=2.30.42.10, no name defined]
(191)
Human (Homo sapiens)
(120)
1a
1w9qA02
A:195-273
1b
1w9qA01
A:111-194
1c
1w9qB01
B:111-194
1d
1w9qB02
B:195-273
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_PDZ_1w9qB01 (B:198-270)
1b: PFAM_PDZ_1w9qB02 (B:198-270)
1c: PFAM_PDZ_1w9qB03 (B:198-270)
1d: PFAM_PDZ_1w9qB04 (B:198-270)
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Clan
:
PDZ-like
(184)
Family
:
PDZ
(172)
Homo sapiens (Human)
(96)
1a
PDZ-1w9qB01
B:198-270
1b
PDZ-1w9qB02
B:198-270
1c
PDZ-1w9qB03
B:198-270
1d
PDZ-1w9qB04
B:198-270
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