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2WO2
Asym. Unit
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Asym.Unit (60 KB)
Biol.Unit 1 (54 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE EPHA4-EPHRINB2 COMPLEX
Authors
:
T. A. Bowden, A. R. Aricescu, J. E. Nettleship, C. Siebold, N. Rahman-Hu R. J. Owens, D. I. Stuart, E. Y. Jones
Date
:
21 Jul 09 (Deposition) - 27 Oct 09 (Release) - 09 Nov 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.45
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Transferase-Signaling Protein Complex, Osteogenesis, Axon Guidance, Cell Surface Receptor, Developmental Protein, Neurogenesis, Cell Signaling
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. A. Bowden, A. R. Aricescu, J. E. Nettleship, C. Siebold, N. Rahman-Huq, R. J. Owens, D. I. Stuart, E. Y. Jones
Structural Plasticity Of Eph-Receptor A4 Facilitates Cross-Class Ephrin Signalling
Structure V. 17 1386 2009
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: N-ACETYL-D-GLUCOSAMINE (NAGa)
View:
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Label:
No.
Name
Count
Type
Full Name
1
NAG
1
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
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Sites
(1, 1)
Info
All Sites
1: AC1 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:40 , GLY A:41 , GLU A:42 , GLU A:55 , VAL A:57 , SER A:58 , ILE A:59 , MET A:60 , GLU A:62 , ASN A:64 , PRO A:66 , ARG A:68 , GLN A:71 , ARG A:96 , THR A:104 , ARG A:106 , PRO A:112 , TYR A:126 , GLU A:128 , ASN A:131 , ARG A:135 , ARG A:138 , VAL A:143 , LYS A:144 , PHE A:154 , GLN A:156 , VAL A:157 , ASP A:158 , ARG A:162 , ILE A:163 , MET A:164 , ASP A:172 , GLY A:174 , PRO A:175 , ILE A:192 , ALA A:193 , HOH A:2008 , HOH A:2011 , HOH A:2032 , ILE B:28 , LEU B:30 , GLU B:31 , PRO B:32 , ILE B:33 , TYR B:34 , TRP B:35 , ASN B:36 , SER B:37 , SER B:38 , HOH B:2001 , HOH B:2002 , HOH B:2004 , HOH B:2006 , HOH B:2007 , HOH B:2008 , HOH B:2009 , HOH B:2010 , HOH B:2011 , HOH B:2012 , HOH B:2013
BINDING SITE FOR CHAIN B OF SUGAR BOUND TO ASN B 36 RESIDUES 39 TO 1168
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(4, 4)
Info
All PROSITE Patterns/Profiles
1: EPHRIN_RBD_2 (B:28-164)
2: EPH_LBD (A:30-202)
3: EPHRIN_RBD_1 (B:109-136)
4: RECEPTOR_TYR_KIN_V_1 (A:185-202)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EPHRIN_RBD_2
PS51551
Ephrin receptor-binding (ephrin RBD) domain profile.
EFNB2_HUMAN
28-164
1
B:28-164
2
EPH_LBD
PS51550
Eph receptor ligand-binding domain profile.
EPHA4_HUMAN
30-209
1
A:30-202
3
EPHRIN_RBD_1
PS01299
Ephrin receptor-binding (ephrin RBD) domain signature.
EFNB2_HUMAN
109-136
1
B:109-136
4
RECEPTOR_TYR_KIN_V_1
PS00790
Receptor tyrosine kinase class V signature 1.
EPHA4_HUMAN
185-205
1
A:185-202
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Exons
(4, 4)
Info
All Exons
Exon 1.1a (B:28-41)
Exon 1.2 (B:41-136 (gaps))
Exon 1.3 (B:136-167)
Exon 1.4 (B:167-167)
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All Exon Boundaries
1: Boundary -/1.1a
2: Boundary 1.1a/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4
5: Boundary 1.4/1.5b
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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
1.1a
ENST00000245323
1a
ENSE00001931658
chr13:
107187462-107187191
272
EFNB2_HUMAN
1-41
41
1
B:28-41
14
1.2
ENST00000245323
2
ENSE00001654984
chr13:
107165160-107164877
284
EFNB2_HUMAN
41-136
96
1
B:41-136 (gaps)
96
1.3
ENST00000245323
3
ENSE00000995278
chr13:
107148188-107148096
93
EFNB2_HUMAN
136-167
32
1
B:136-167
32
1.4
ENST00000245323
4
ENSE00000854052
chr13:
107147342-107147229
114
EFNB2_HUMAN
167-205
39
1
B:167-167
1
1.5b
ENST00000245323
5b
ENSE00001923391
chr13:
107145776-107142093
3684
EFNB2_HUMAN
205-333
129
0
-
-
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SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d2wo2b_ (B:)
2a: SCOP_d2wo2a_ (A:)
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Protein Domains
(
)
(
)
Organisms
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)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Cupredoxin-like
(545)
Superfamily
:
Cupredoxins
(543)
Family
:
Ephrin ectodomain
(11)
Protein domain
:
automated matches
(5)
Human (Homo sapiens) [TaxId: 9606]
(5)
1a
d2wo2b_
B:
Fold
:
Galactose-binding domain-like
(314)
Superfamily
:
Galactose-binding domain-like
(314)
Family
:
Ephrin receptor ligand binding domain
(15)
Protein domain
:
automated matches
(9)
Human (Homo sapiens) [TaxId: 9606]
(9)
2a
d2wo2a_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_2wo2A00 (A:28-205)
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)
Organisms
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)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
Galactose-binding domain-like
(195)
Human (Homo sapiens)
(39)
1a
2wo2A00
A:28-205
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Ephrin_2wo2B01 (B:28-166)
2a: PFAM_Ephrin_lbd_2wo2A01 (A:30-202)
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Clan
:
CU_oxidase
(192)
Family
:
Ephrin
(10)
Homo sapiens (Human)
(7)
1a
Ephrin-2wo2B01
B:28-166
Clan
:
GBD
(153)
Family
:
Ephrin_lbd
(12)
Homo sapiens (Human)
(9)
2a
Ephrin_lbd-2wo2A01
A:30-202
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