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2QBX
Asym. Unit
Info
Asym.Unit (73 KB)
Biol.Unit 1 (34 KB)
Biol.Unit 2 (35 KB)
Biol.Unit 3 (66 KB)
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(1)
Title
:
EPHB2/SNEW ANTAGONISTIC PEPTIDE COMPLEX
Authors
:
J. E. Chrencik, A. Brooun, M. I. Recht, G. Nicola, E. B. Pasquale, P. Kuhn, Accelerated Technologies Center For Gene To 3D Structure (Atcg3D)
Date
:
18 Jun 07 (Deposition) - 06 Nov 07 (Release) - 08 Sep 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,D,P
Biol. Unit 1: A,P (1x)
Biol. Unit 2: B,D (1x)
Biol. Unit 3: A,B,D,P (1x)
Keywords
:
Receptor Tyrosine Kinase, Bi-Directional Signaling, Tumorigenesis, Angiogenesis, 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, G. Nicola, L. K. Davis, R. Abagyan, H. Widmer, E. B. Pasquale, P. Kuhn
Three-Dimensional Structure Of The Ephb2 Receptor In Complex With An Antagonistic Peptide Reveals A Novel Mode Of Inhibition.
J. Biol. Chem. V. 282 36505 2007
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 12)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
1g: SULFATE ION (SO4g)
1h: SULFATE ION (SO4h)
1i: SULFATE ION (SO4i)
1j: SULFATE ION (SO4j)
1k: SULFATE ION (SO4k)
1l: SULFATE ION (SO4l)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SO4
12
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS B:95 , ARG B:203
BINDING SITE FOR RESIDUE SO4 B 401
02
AC2
SOFTWARE
ARG B:88 , GLY B:90 , HIS B:92
BINDING SITE FOR RESIDUE SO4 B 402
03
AC3
SOFTWARE
MET B:32 , ASP B:33 , LEU B:41 , HOH B:470
BINDING SITE FOR RESIDUE SO4 B 403
04
AC4
SOFTWARE
PHE A:135 , PRO A:136 , ASN A:137 , PRO A:142 , HOH A:481
BINDING SITE FOR RESIDUE SO4 A 404
05
AC5
SOFTWARE
ARG A:179 , HOH A:480 , ARG B:179
BINDING SITE FOR RESIDUE SO4 A 405
06
AC6
SOFTWARE
SER A:55 , ARG A:65
BINDING SITE FOR RESIDUE SO4 A 406
07
AC7
SOFTWARE
PRO A:109 , SER A:110 , HOH B:441 , GLN D:6 , HOH D:285
BINDING SITE FOR RESIDUE SO4 D 407
08
AC8
SOFTWARE
ARG A:88 , GLY A:90 , HIS A:92
BINDING SITE FOR RESIDUE SO4 A 408
09
AC9
SOFTWARE
THR B:36 , SER B:75 , SER B:76 , SER B:114
BINDING SITE FOR RESIDUE SO4 B 409
10
BC1
SOFTWARE
PRO B:109 , SER B:110 , GLN P:6 , HOH P:14
BINDING SITE FOR RESIDUE SO4 B 410
11
BC2
SOFTWARE
TRP B:80 , TYR B:122 , MET B:139 , GLU B:140 , GLN B:187 , HOH B:453 , HOH B:491
BINDING SITE FOR RESIDUE SO4 B 411
12
BC3
SOFTWARE
SER B:55 , ARG B:65
BINDING SITE FOR RESIDUE SO4 B 412
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: EPH_LBD (A:28-203,B:28-203)
2: RECEPTOR_TYR_KIN_V_1 (A:186-203,B:186-203)
;
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.
EPHB2_HUMAN
20-202
2
A:28-203
B:28-203
2
RECEPTOR_TYR_KIN_V_1
PS00790
Receptor tyrosine kinase class V signature 1.
EPHB2_HUMAN
178-198
2
A:186-203
B:186-203
[
close PROSITE info
]
Exons
(3, 6)
Info
All Exons
Exon 1.1a (A:28-29 | B:28-29)
Exon 1.3 (A:29-50 | B:29-50)
Exon 1.4 (A:51-203 | B:51-203)
View:
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All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.3
3: Boundary 1.3/1.4
4: Boundary 1.4/1.6
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
1.1a
ENST00000400191
1a
ENSE00001464057
chr1:
23037458-23037536
79
EPHB2_HUMAN
1-21
21
2
A:28-29
B:28-29
2
2
1.3
ENST00000400191
3
ENSE00001066292
chr1:
23107914-23107978
65
EPHB2_HUMAN
21-42
22
2
A:29-50
B:29-50
22
22
1.4
ENST00000400191
4
ENSE00000955704
chr1:
23110885-23111569
685
EPHB2_HUMAN
43-271
229
2
A:51-203
B:51-203
153
153
1.6
ENST00000400191
6
ENSE00000955705
chr1:
23189530-23189685
156
EPHB2_HUMAN
271-323
53
0
-
-
1.7a
ENST00000400191
7a
ENSE00000955706
chr1:
23191370-23191705
336
EPHB2_HUMAN
323-435
113
0
-
-
1.8a
ENST00000400191
8a
ENSE00000908689
chr1:
23208852-23208976
125
EPHB2_HUMAN
435-476
42
0
-
-
1.10b
ENST00000400191
10b
ENSE00000908690
chr1:
23219377-23219539
163
EPHB2_HUMAN
477-531
55
0
-
-
1.11
ENST00000400191
11
ENSE00000908691
chr1:
23221965-23222073
109
EPHB2_HUMAN
531-567
37
0
-
-
1.12b
ENST00000400191
12b
ENSE00000908692
chr1:
23222907-23222971
65
EPHB2_HUMAN
567-589
23
0
-
-
1.13
ENST00000400191
13
ENSE00000908693
chr1:
23232480-23232602
123
EPHB2_HUMAN
589-630
42
0
-
-
1.14
ENST00000400191
14
ENSE00000908694
chr1:
23233203-23233450
248
EPHB2_HUMAN
630-712
83
0
-
-
1.15
ENST00000400191
15
ENSE00001647153
chr1:
23234446-23234661
216
EPHB2_HUMAN
713-784
72
0
-
-
1.16
ENST00000400191
16
ENSE00001769046
chr1:
23235515-23235664
150
EPHB2_HUMAN
785-834
50
0
-
-
1.17
ENST00000400191
17
ENSE00000908697
chr1:
23236875-23237068
194
EPHB2_HUMAN
835-899
65
0
-
-
1.18a
ENST00000400191
18a
ENSE00000908698
chr1:
23238937-23239092
156
EPHB2_HUMAN
899-951
53
0
-
-
1.18c
ENST00000400191
18c
ENSE00001273135
chr1:
23239955-23240057
103
EPHB2_HUMAN
951-985
35
0
-
-
1.18g
ENST00000400191
18g
ENSE00001933590
chr1:
23240151-23241818
1668
EPHB2_HUMAN
986-1055
70
0
-
-
[
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]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
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Sorry, no Info available
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2qbxA00 (A:28-203)
1b: CATH_2qbxB00 (B:28-203)
View:
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Classes
(
)
(
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Architectures
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)
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)
Topologies
(
)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
Galactose-binding domain-like
(195)
Human (Homo sapiens)
(39)
1a
2qbxA00
A:28-203
1b
2qbxB00
B:28-203
[
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]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Ephrin_lbd_2qbxB01 (B:28-203)
1b: PFAM_Ephrin_lbd_2qbxB02 (B:28-203)
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Clans
(
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Families
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(
)
Organisms
(
)
(
)
Clan
:
GBD
(153)
Family
:
Ephrin_lbd
(12)
Homo sapiens (Human)
(9)
1a
Ephrin_lbd-2qbxB01
B:28-203
1b
Ephrin_lbd-2qbxB02
B:28-203
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