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1JL4
Asym. Unit
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Asym.Unit (85 KB)
Biol.Unit 1 (79 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HUMAN CD4 N-TERMINAL TWO DOMAIN FRAGMENT COMPLEXED TO A CLASS II MHC MOLECULE
Authors
:
J. -H. Wang, R. Meijers, E. L. Reinherz
Date
:
15 Jul 01 (Deposition) - 19 Sep 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
4.30
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Protein-Protein Complex, Immune System
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. H. Wang, R. Meijers, Y. Xiong, J. H. Liu, T. Sakihama, R. Zhang, A. Joachimiak, E. L. Reinherz
Crystal Structure Of The Human Cd4 N-Terminal Two-Domain Fragment Complexed To A Class Ii Mhc Molecule.
Proc. Natl. Acad. Sci. Usa V. 98 10799 2001
(for further references see the
PDB file header
)
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Hetero Components
(0, 0)
Info
All Hetero Components
View:
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Label:
Sorry, no Info available
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Sites
(0, 0)
Info
All Sites
View:
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Label:
Sorry, no Info available
[
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_TRFE_CHICK_003 (R135W, chain C, )
2: VAR_023459 (K166E, chain D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_TRFE_CHICK_003
*
R
154
W
TRFE_CHICK
---
---
C
R
135
W
2
UniProt
VAR_023459
K
191
E
CD4_HUMAN
Polymorphism
28917504
D
K
166
E
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: IG_MHC (A:161-167,B:171-177)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
IG_MHC
PS00290
Immunoglobulins and major histocompatibility complex proteins signature.
HA2K_MOUSE
188-194
1
A:161-167
HB2K_MOUSE
197-203
1
B:171-177
[
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Exons
(4, 4)
Info
All Exons
Exon 1.3 (D:1-47)
Exon 1.4 (D:47-100)
Exon 1.5 (D:100-178)
Exon 1.6b (D:178-178)
View:
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All Exon Boundaries
1: Boundary 1.2/1.3
2: Boundary 1.3/1.4
3: Boundary 1.4/1.5
4: Boundary 1.5/1.6b
5: Boundary 1.6b/1.7
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
ENST00000011653
1
ENSE00001303311
chr12:
6898651-6898828
178
CD4_HUMAN
-
0
0
-
-
1.2
ENST00000011653
2
ENSE00000866954
chr12:
6909238-6909353
116
CD4_HUMAN
1-17
17
0
-
-
1.3
ENST00000011653
3
ENSE00000716042
chr12:
6909473-6909637
165
CD4_HUMAN
17-72
56
1
D:1-47
47
1.4
ENST00000011653
4
ENSE00000716044
chr12:
6923308-6923466
159
CD4_HUMAN
72-125
54
1
D:47-100
54
1.5
ENST00000011653
5
ENSE00000716046
chr12:
6923925-6924158
234
CD4_HUMAN
125-203
79
1
D:100-178
79
1.6b
ENST00000011653
6b
ENSE00000716048
chr12:
6925222-6925569
348
CD4_HUMAN
203-319
117
1
D:178-178
1
1.7
ENST00000011653
7
ENSE00000716051
chr12:
6926296-6926496
201
CD4_HUMAN
319-386
68
0
-
-
1.8
ENST00000011653
8
ENSE00000716053
chr12:
6927587-6927708
122
CD4_HUMAN
386-426
41
0
-
-
1.9
ENST00000011653
9
ENSE00000716057
chr12:
6928013-6928080
68
CD4_HUMAN
427-449
23
0
-
-
1.10
ENST00000011653
10
ENSE00001182623
chr12:
6928465-6929976
1512
CD4_HUMAN
449-458
10
0
-
-
[
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]
SCOP Domains
(6, 6)
Info
All SCOP Domains
1a: SCOP_d1jl4a1 (A:82-181)
2a: SCOP_d1jl4b1 (B:93-190)
3a: SCOP_d1jl4d2 (D:98-178)
4a: SCOP_d1jl4d1 (D:1-97)
5a: SCOP_d1jl4a2 (A:5-81)
6a: SCOP_d1jl4b2 (B:5-92)
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Classes
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)
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)
Folds
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)
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)
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(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
C1 set domains (antibody constant domain-like)
(3013)
Protein domain
:
Class II MHC alpha chain, C-terminal domain
(75)
Mouse (Mus musculus), I-A group [TaxId: 10090]
(24)
1a
d1jl4a1
A:82-181
Protein domain
:
Class II MHC beta chain, C-terminal domain
(70)
Mouse (Mus musculus), I-A group [TaxId: 10090]
(16)
2a
d1jl4b1
B:93-190
Family
:
C2 set domains
(47)
Protein domain
:
CD4 C2-set domains
(31)
Human (Homo sapiens) [TaxId: 9606]
(30)
3a
d1jl4d2
D:98-178
Family
:
V set domains (antibody variable domain-like)
(1919)
Protein domain
:
CD4 V-set domains
(31)
Human (Homo sapiens) [TaxId: 9606]
(30)
4a
d1jl4d1
D:1-97
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
MHC antigen-recognition domain
(585)
Superfamily
:
MHC antigen-recognition domain
(585)
Family
:
MHC antigen-recognition domain
(533)
Protein domain
:
Class II MHC alpha chain, N-terminal domain
(75)
Mouse (Mus musculus), I-AK [TaxId: 10090]
(4)
5a
d1jl4a2
A:5-81
Protein domain
:
Class II MHC beta chain, N-terminal domain
(70)
Mouse (Mus musculus), I-AK [TaxId: 10090]
(3)
6a
d1jl4b2
B:5-92
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(6, 7)
Info
all PFAM domains
1a: PFAM_C1_set_1jl4A01 (A:93-175)
1b: PFAM_C1_set_1jl4B01 (B:103-190)
2a: PFAM_C2_set_1jl4D01 (D:100-178)
3a: PFAM_V_set_1jl4D02 (D:1-105)
4a: PFAM_MHC_II_alpha_1jl4A02 (A:5-84)
5a: PFAM_MHC_II_beta_1jl4B02 (B:14-86)
6a: PFAM_Transferrin_1jl4C01 (C:134-146)
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Families
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)
Organisms
(
)
(
)
Clan
:
Ig
(577)
Family
:
C1-set
(338)
Mus musculus (Mouse)
(118)
1a
C1-set-1jl4A01
A:93-175
1b
C1-set-1jl4B01
B:103-190
Family
:
C2-set
(18)
Homo sapiens (Human)
(18)
2a
C2-set-1jl4D01
D:100-178
Family
:
V-set
(144)
Homo sapiens (Human)
(61)
3a
V-set-1jl4D02
D:1-105
Clan
:
MHC
(252)
Family
:
MHC_II_alpha
(42)
Mus musculus (Mouse)
(16)
4a
MHC_II_alpha-1jl4A02
A:5-84
Family
:
MHC_II_beta
(39)
Mus musculus (Mouse)
(14)
5a
MHC_II_beta-1jl4B02
B:14-86
Clan
:
PBP
(391)
Family
:
Transferrin
(53)
Gallus gallus (Chicken)
(7)
6a
Transferrin-1jl4C01
C:134-146
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