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2BBA
Asym. Unit
Info
Asym.Unit (44 KB)
Biol.Unit 1 (38 KB)
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Title
:
CRYSTAL STRUCTURE AND THERMODYNAMIC CHARACTERIZATION OF THE EPHB4 RECEPTOR IN COMPLEX WITH AN EPHRIN-B2 ANTAGONIST PEPTIDE REVEALS THE DETERMINANTS FOR RECEPTOR SPECIFICITY.
Authors
:
J. E. Chrencik, P. Kuhn, Accelerated Technologies Center For Gene Structure (Atcg3D)
Date
:
17 Oct 05 (Deposition) - 18 Jul 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.65
Chains
:
Asym. Unit : A,P
Biol. Unit 1: A,P (1x)
Keywords
:
Ephb4, Tumorigenesis, Angiogenesis, Peptide Mimetics, Signaling Protein, Structural Genomics, Psi-2, Protein Structure Initiative, Accelerated Technologies Center For Gene To 3D Structure, Atcg3D
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. E. Chrencik, A. Brooun, M. I. Recht, M. L. Kraus, M. Koolpe, A. R. Kolatkar, R. H. Bruce, G. Martiny-Baron, H. Widmer, E. B. Pasquale, P. Kuhn
Structure And Thermodynamic Characterization Of The Ephb4/Ephrin-B2 Antagonist Peptide Complex Reveals The Determinants For Receptor Specificity.
Structure V. 14 321 2006
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SO4
2
Ligand/Ion
SULFATE ION
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:24 , THR A:89 , ARG A:91 , PRO A:134 , HIS A:191 , HOH A:309 , HOH A:318
BINDING SITE FOR RESIDUE SO4 A 1
2
AC2
SOFTWARE
HIS A:145 , LYS A:158 , HOH A:330 , HOH A:349 , HOH A:544
BINDING SITE FOR RESIDUE SO4 A 2
[
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]
SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_042181 (P67L, chain A, )
2: VAR_042182 (V113I, chain A, )
3: VAR_071163 (K162R, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_042181
P
67
L
EPHB4_HUMAN
Polymorphism
34653459
A
P
67
L
2
UniProt
VAR_042182
V
113
I
EPHB4_HUMAN
Polymorphism
55866373
A
V
113
I
3
UniProt
VAR_071163
K
162
R
EPHB4_HUMAN
Polymorphism
17854760
A
K
162
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: EPH_LBD (A:17-196)
2: RECEPTOR_TYR_KIN_V_1 (A:178-196)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EPH_LBD
PS51550
Eph receptor ligand-binding domain profile.
EPHB4_HUMAN
17-202
1
A:17-196
2
RECEPTOR_TYR_KIN_V_1
PS00790
Receptor tyrosine kinase class V signature 1.
EPHB4_HUMAN
178-198
1
A:178-196
[
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Exons
(4, 4)
Info
All Exons
Exon 1.1b (A:12-18)
Exon 1.2b (A:18-41)
Exon 1.3 (A:42-137)
Exon 1.4 (A:138-196)
View:
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All Exon Boundaries
1: Boundary -/1.1b
2: Boundary 1.1b/1.2b
3: Boundary 1.2b/1.3
4: Boundary 1.3/1.4
5: Boundary 1.4/1.5b
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
1.1b
ENST00000358173
1b
ENSE00001868923
chr7:
100425121-100424601
521
EPHB4_HUMAN
1-18
18
1
A:12-18
7
1.2b
ENST00000358173
2b
ENSE00000825052
chr7:
100421895-100421825
71
EPHB4_HUMAN
18-41
24
1
A:18-41
24
1.3
ENST00000358173
3
ENSE00000825051
chr7:
100421553-100421266
288
EPHB4_HUMAN
42-137
96
1
A:42-137
96
1.4
ENST00000358173
4
ENSE00000825050
chr7:
100420289-100419893
397
EPHB4_HUMAN
138-270
133
1
A:138-196
59
1.5b
ENST00000358173
5b
ENSE00000825049
chr7:
100417918-100417763
156
EPHB4_HUMAN
270-322
53
0
-
-
1.6
ENST00000358173
6
ENSE00000825048
chr7:
100417511-100417179
333
EPHB4_HUMAN
322-433
112
0
-
-
1.7b
ENST00000358173
7b
ENSE00000710240
chr7:
100416266-100416142
125
EPHB4_HUMAN
433-474
42
0
-
-
1.8c
ENST00000358173
8c
ENSE00001706820
chr7:
100414979-100414814
166
EPHB4_HUMAN
475-530
56
0
-
-
1.9c
ENST00000358173
9c
ENSE00001665919
chr7:
100411643-100411541
103
EPHB4_HUMAN
530-564
35
0
-
-
1.10
ENST00000358173
10
ENSE00001787983
chr7:
100411338-100411274
65
EPHB4_HUMAN
564-586
23
0
-
-
1.11b
ENST00000358173
11b
ENSE00001754468
chr7:
100410830-100410717
114
EPHB4_HUMAN
586-624
39
0
-
-
1.12
ENST00000358173
12
ENSE00001631272
chr7:
100410616-100410369
248
EPHB4_HUMAN
624-706
83
0
-
-
1.13a
ENST00000358173
13a
ENSE00001753966
chr7:
100405202-100404987
216
EPHB4_HUMAN
707-778
72
0
-
-
1.14a
ENST00000358173
14a
ENSE00001623534
chr7:
100404191-100404042
150
EPHB4_HUMAN
779-828
50
0
-
-
1.15
ENST00000358173
15
ENSE00001783205
chr7:
100403316-100403123
194
EPHB4_HUMAN
829-893
65
0
-
-
1.16
ENST00000358173
16
ENSE00001649970
chr7:
100402943-100402788
156
EPHB4_HUMAN
893-945
53
0
-
-
1.17b
ENST00000358173
17b
ENSE00001639386
chr7:
100401212-100400187
1026
EPHB4_HUMAN
945-987
43
0
-
-
[
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2bbaa1 (A:17-196)
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Protein Domains
(
)
(
)
Organisms
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(
)
Class
:
All beta proteins
(24004)
Fold
:
Galactose-binding domain-like
(314)
Superfamily
:
Galactose-binding domain-like
(314)
Family
:
Ephrin receptor ligand binding domain
(15)
Protein domain
:
Ephrin type-B receptor 4
(2)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d2bbaa1
A:17-196
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_2bbaA00 (A:12-196)
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Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
Galactose-binding domain-like
(195)
Human (Homo sapiens)
(39)
1a
2bbaA00
A:12-196
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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