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1YJD
Asym. Unit
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Asym.Unit (97 KB)
Biol.Unit 1 (181 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN CD28 IN COMPLEX WITH THE FAB FRAGMENT OF A MITOGENIC ANTIBODY (5.11A1)
Authors
:
E. J. Evans, R. M. Esnouf, R. Manso-Sancho, R. J. C. Gilbert, J. R. James, P. Sorensen, D. I. Stuart, S. J. Davis
Date
:
14 Jan 05 (Deposition) - 15 Feb 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : C,H,L
Biol. Unit 1: C,H,L (2x)
Keywords
:
Igsf, Cd28 Homodimer, Immune System-Signaling Protein Complex
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
E. J. Evans, R. M. Esnouf, R. Manso-Sancho, R. J. C. Gilbert, J. R. James C. Yu, J. A. Fennelly, C. Vowles, T. Hanke, B. Walse, T. Hunig, P. Sorensen, D. I. Stuart, S. J. Davis
Crystal Structure Of A Soluble Cd28-Fab Complex
Nat. Immunol. V. 6 271 2005
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: N-ACETYL-D-GLUCOSAMINE (NAGa)
1b: N-ACETYL-D-GLUCOSAMINE (NAGb)
1c: N-ACETYL-D-GLUCOSAMINE (NAGc)
View:
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Label:
No.
Name
Count
Type
Full Name
1
NAG
3
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
VAL C:18 , ASN C:19 , HOH C:229 , ASN L:190 , HOH L:254
BINDING SITE FOR RESIDUE NAG C 201
2
AC2
SOFTWARE
TYR C:51 , ASN C:53 , GLN C:56 , HOH C:207 , HIS H:100
BINDING SITE FOR RESIDUE NAG C 202
3
AC3
SOFTWARE
TYR C:85 , ASN C:87 , HOH C:230
BINDING SITE FOR RESIDUE NAG C 203
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(1, 1)
Info
All Exons
Exon 1.2d (C:1-118)
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All Exon Boundaries
1: Boundary 1.1c/1.2d
2: Boundary 1.2d/1.4c
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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
1.1c
ENST00000324106
1c
ENSE00001821960
chr2:
204571271-204571471
201
CD28_HUMAN
1-18
18
0
-
-
1.2d
ENST00000324106
2d
ENSE00001375713
chr2:
204591356-204591712
357
CD28_HUMAN
18-137
120
1
C:1-118
118
1.4c
ENST00000324106
4c
ENSE00001246021
chr2:
204594371-204594495
125
CD28_HUMAN
137-178
42
0
-
-
1.5d
ENST00000324106
5d
ENSE00001811949
chr2:
204599507-204600421
915
CD28_HUMAN
179-220
42
0
-
-
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SCOP Domains
(4, 4)
Info
All SCOP Domains
1a: SCOP_d1yjdl1 (L:1-107)
2a: SCOP_d1yjdl2 (L:108-212)
3a: SCOP_d1yjdh1 (H:121-218)
4a: SCOP_d1yjdc1 (C:1-118)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Mouse (Mus musculus) [TaxId: 10090]
(360)
1a
d1yjdl1
L:1-107
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
automated matches
(652)
Mouse (Mus musculus) [TaxId: 10090]
(309)
2a
d1yjdl2
L:108-212
Protein domain
:
Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma
(608)
Mouse (Mus musculus) [TaxId: 10090]
(414)
3a
d1yjdh1
H:121-218
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
CD28
(1)
Human (Homo sapiens) [TaxId: 9606]
(1)
4a
d1yjdc1
C:1-118
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1yjdL02 (L:109-211)
1b: CATH_1yjdH02 (H:122-218)
1c: CATH_1yjdH01 (H:2-121)
1d: CATH_1yjdL01 (L:1-108)
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Organisms
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)
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)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
House mouse (Mus musculus)
(616)
1a
1yjdL02
L:109-211
1b
1yjdH02
H:122-218
1c
1yjdH01
H:2-121
1d
1yjdL01
L:1-108
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_V_set_1yjdC01 (C:1-118)
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Clan
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Ig
(577)
Family
:
V-set
(144)
Homo sapiens (Human)
(61)
1a
V-set-1yjdC01
C:1-118
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