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3CF6
Asym. Unit
Info
Asym.Unit (139 KB)
Biol.Unit 1 (263 KB)
Biol.Unit 2 (133 KB)
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(1)
Title
:
STRUCTURE OF EPAC2 IN COMPLEX WITH CYCLIC-AMP AND RAP
Authors
:
H. Rehmann, E. Arias-Palomo, M. A. Hadders, F. Schwede, O. Llorca, J. L.
Date
:
02 Mar 08 (Deposition) - 29 Jul 08 (Release) - 05 Feb 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.20
Chains
:
Asym. Unit : E,R
Biol. Unit 1: E,R (2x)
Biol. Unit 2: E,R (1x)
Keywords
:
Epac, Rapgef4, Rap, Rap1B, Camp, Sp-Camps, Gef, Gunanine Nucleotide Exchange Factor, G-Protein, Gtp-Binding, Nucleotide-Binding, Signaling Protein Regulator-Gtp-Binding Protein Complex, Signaling Protein-Gtp-Binding Protein Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. Rehmann, E. Arias-Palomo, M. A. Hadders, F. Schwede, O. Llorca, J. L. Bos
Structure Of Epac2 In Complex With A Cyclic Amp Analogue An Rap1B
Nature V. 455 124 2008
(for further references see the
PDB file header
)
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Hetero Components
(2, 3)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
2a: 6-(6-AMINO-PURIN-9-YL)-2-THIOXO-TE... (SP1a)
2b: 6-(6-AMINO-PURIN-9-YL)-2-THIOXO-TE... (SP1b)
View:
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Label:
No.
Name
Count
Type
Full Name
1
SO4
1
Ligand/Ion
SULFATE ION
2
SP1
2
Ligand/Ion
6-(6-AMINO-PURIN-9-YL)-2-THIOXO-TETRAHYDRO-2-FURO[3,2-D][1,3,2]DIOXAPHOSPHININE-2,7-DIOL
[
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER R:11 , GLY R:12 , GLY R:13 , GLY R:15 , LYS R:16 , SER R:17 , ALA R:59 , HOH R:171
BINDING SITE FOR RESIDUE SO4 R 168
2
AC2
SOFTWARE
PHE E:367 , ILE E:388 , CYS E:395 , PHE E:403 , GLY E:404 , LEU E:406 , ALA E:407 , ARG E:414 , ALA E:415 , LEU E:449 , LYS E:450 , GLU E:451 , LYS E:489 , HOH E:1054 , HOH E:1077
BINDING SITE FOR RESIDUE SP1 E 2
3
AC3
SOFTWARE
ASN E:368 , ILE E:388 , GLY E:392 , SER E:417 , GLN E:539 , SER E:541 , LYS E:556 , ASP E:594 , MET E:597 , MET E:598 , HOH E:1033 , HOH E:1052
BINDING SITE FOR RESIDUE SP1 E 3
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(4, 4)
Info
All PROSITE Patterns/Profiles
1: CNMP_BINDING_3 (-|E:338-439)
2: RASGEF_NTER (E:478-612)
3: RASGEF_CAT (E:754-990)
4: RASGEF (E:903-932)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CNMP_BINDING_3
PS50042
cAMP/cGMP binding motif profile.
RPGF4_MOUSE
43-146
356-457
1
-
E:338-439
2
RASGEF_NTER
PS50212
Ras guanine-nucleotide exchange factors N-terminal domain profile.
RPGF4_MOUSE
496-634
1
E:478-612
3
RASGEF_CAT
PS50009
Ras guanine-nucleotide exchange factors catalytic domain profile.
RPGF4_MOUSE
772-1009
1
E:754-990
4
RASGEF
PS00720
Ras Guanine-nucleotide exchange factors domain signature.
RPGF4_MOUSE
921-950
1
E:903-932
[
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Exons
(6, 6)
Info
All Exons
Exon 1.3 (R:3-19)
Exon 1.4a (R:20-42)
Exon 1.5a (R:43-61 (gaps))
Exon 1.6 (R:62-108)
Exon 1.7a (R:109-156 (gaps))
Exon 1.8 (R:157-164)
View:
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All Exon Boundaries
1: Boundary 1.1e/1.3
2: Boundary 1.3/1.4a
3: Boundary 1.4a/1.5a
4: Boundary 1.5a/1.6
5: Boundary 1.6/1.7a
6: Boundary 1.7a/1.8
7: Boundary 1.8/1.9b
View:
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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
1.1e
ENST00000393436
1e
ENSE00001817232
chr12:
69004688-69004832
145
RAP1B_HUMAN
-
0
0
-
-
1.3
ENST00000393436
3
ENSE00002170663
chr12:
69042479-69042561
83
RAP1B_HUMAN
1-19
19
1
R:3-19
17
1.4a
ENST00000393436
4a
ENSE00001621515
chr12:
69044180-69044248
69
RAP1B_HUMAN
20-42
23
1
R:20-42
23
1.5a
ENST00000393436
5a
ENSE00001207248
chr12:
69045775-69045831
57
RAP1B_HUMAN
43-61
19
1
R:43-61 (gaps)
19
1.6
ENST00000393436
6
ENSE00001673144
chr12:
69047892-69048032
141
RAP1B_HUMAN
62-108
47
1
R:62-108
47
1.7a
ENST00000393436
7a
ENSE00001755393
chr12:
69050086-69050229
144
RAP1B_HUMAN
109-156
48
1
R:109-156 (gaps)
48
1.8
ENST00000393436
8
ENSE00001207265
chr12:
69050881-69050997
117
RAP1B_HUMAN
157-184
28
1
R:157-164
8
1.9b
ENST00000393436
9b
ENSE00001937531
chr12:
69053060-69054287
1228
RAP1B_HUMAN
-
0
0
-
-
[
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3cf6r_ (R:)
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Protein Domains
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
G proteins
(693)
Protein domain
:
automated matches
(173)
Human (Homo sapiens) [TaxId: 9606]
(112)
1a
d3cf6r_
R:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3cf6R00 (R:3-164)
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Organisms
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Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Mouse (Mus musculus)
(17)
1a
3cf6R00
R:3-164
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Pfam Domains
(0, 0)
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Chain R
Asymmetric Unit 1
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Asym.Unit (139 KB)
Header - Asym.Unit
Biol.Unit 1 (263 KB)
Header - Biol.Unit 1
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