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Getting 'Biological Unit' information from database.
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Getting 'Hetero Component' information from database.
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Getting 'Exon' information from database.
2ZJC
Asym. Unit
Info
Asym.Unit (74 KB)
Biol.Unit 1 (69 KB)
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(1)
Title
:
TNFR1 SELECTVE TNF MUTANT; R1-6
Authors
:
Y. Mukai, Y. Yamagata, Y. Tsutsumi
Date
:
05 Mar 08 (Deposition) - 20 Jan 09 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Phage Display System, Tnfr1 Selectivity, Tnf, Agonist, Mutant, Cytokine, Lipoprotein, Membrane, Myristate, Phosphoprotein, Secreted, Signal-Anchor, Transmembrane
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Y. Mukai, H. Shibata, T. Nakamura, Y. Yoshioka, Y. Abe, T. Nomura, M. Taniai, T. Ohta, S. Ikemizu, S. Nakagawa, S. Tsunoda, H. Kamada, Y. Yamagata, Y. Tsutsumi
Structure-Function Relationship Of Tumor Necrosis Factor (Tnf) And Its Receptor Interaction Based On 3D Structural Analysis Of A Fully Active Tnfr1-Selective Tnf Mutant
J. Mol. Biol. V. 385 1221 2009
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GOL
1
Ligand/Ion
GLYCEROL
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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
PRO A:117 , ILE A:118 , TYR A:119 , ARG B:98 , ILE B:118 , TYR B:119 , ARG C:98
BINDING SITE FOR RESIDUE GOL B 158
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SAPs(SNPs)/Variants
(2, 6)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_019378 (P8L, chain A/B/C, )
2: VAR_011927 (A18T, chain A/B/C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_019378
P
84
L
TNFA_HUMAN
Polymorphism
4645843
A/B/C
P
8
L
2
UniProt
VAR_011927
A
94
T
TNFA_HUMAN
Polymorphism
1800620
A/B/C
A
18
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: TNF_2 (A:13-157,B:13-157,C:13-157)
2: TNF_1 (A:48-64,B:48-64,C:48-64)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TNF_2
PS50049
TNF family profile.
TNFA_HUMAN
89-233
3
A:13-157
B:13-157
C:13-157
2
TNF_1
PS00251
TNF family signature.
TNFA_HUMAN
124-140
3
A:48-64
B:48-64
C:48-64
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Exons
(2, 6)
Info
All Exons
Exon 1.13 (A:8-18 | B:7-18 | C:8-18)
Exon 1.14b (A:18-157 (gaps) | B:18-157 | C:18-...)
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All Exon Boundaries
1: Boundary 1.12/1.13
2: Boundary 1.13/1.14b
3: Boundary 1.14b/-
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
1.9f
ENST00000383496
9f
ENSE00001901059
HSCHR6_MHC_QBL:31533585-31533945
361
TNFA_HUMAN
1-62
62
0
-
-
1.12
ENST00000383496
12
ENSE00001626927
HSCHR6_MHC_QBL:31534554-31534599
46
TNFA_HUMAN
63-78
16
0
-
-
1.13
ENST00000383496
13
ENSE00001681816
HSCHR6_MHC_QBL:31534787-31534834
48
TNFA_HUMAN
78-94
17
3
A:8-18
B:7-18
C:8-18
11
12
11
1.14b
ENST00000383496
14b
ENSE00001902809
HSCHR6_MHC_QBL:31535136-31536356
1221
TNFA_HUMAN
94-233
140
3
A:18-157 (gaps)
B:18-157
C:18-157 (gaps)
140
140
140
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SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d2zjca_ (A:)
1b: SCOP_d2zjcc_ (C:)
1c: SCOP_d2zjcb_ (B:)
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Protein Domains
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)
Class
:
All beta proteins
(24004)
Fold
:
TNF-like
(100)
Superfamily
:
TNF-like
(100)
Family
:
TNF-like
(82)
Protein domain
:
Tumor necrosis factor (TNF)
(14)
Human (Homo sapiens) [TaxId: 9606]
(13)
1a
d2zjca_
A:
1b
d2zjcc_
C:
1c
d2zjcb_
B:
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CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_2zjcA00 (A:8-157)
1b: CATH_2zjcC00 (C:8-157)
1c: CATH_2zjcB00 (B:7-157)
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)
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)
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)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
[code=2.60.120.40, no name defined]
(56)
Human (Homo sapiens)
(38)
1a
2zjcA00
A:8-157
1b
2zjcC00
C:8-157
1c
2zjcB00
B:7-157
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Pfam Domains
(1, 3)
Info
all PFAM domains
1a: PFAM_TNF_2zjcC01 (C:26-157)
1b: PFAM_TNF_2zjcC02 (C:26-157)
1c: PFAM_TNF_2zjcC03 (C:26-157)
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Clan
:
C1q_TNF
(45)
Family
:
TNF
(37)
Homo sapiens (Human)
(26)
1a
TNF-2zjcC01
C:26-157
1b
TNF-2zjcC02
C:26-157
1c
TNF-2zjcC03
C:26-157
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