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2W83
Asym. Unit
Info
Asym.Unit (117 KB)
Biol.Unit 1 (109 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE ARF6 GTPASE IN COMPLEX WITH A SPECIFIC EFFECTOR, JIP4
Authors
:
T. Isabet, G. Montagnac, K. Regazzoni, B. Raynal, F. El Khadali, M. Franco, P. England, P. Chavrier, A. Houdusse, J. Menetrey
Date
:
08 Jan 09 (Deposition) - 14 Jul 09 (Release) - 29 Sep 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.93
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (1x)
Keywords
:
Golgi Apparatus, Protein Transport, Er-Golgi Transport, Arf, Gtpase, Effector, Myristate, Cytoplasm, Nucleotide-Binding, Alternative Splicing, Gtp-Binding, Phosphoprotein, Heterotetramer, Transport, Coiled-Coil, Lipoprotein, Coiled Coil
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Isabet, G. Montagnac, K. Regazzoni, B. Raynal, F. El Khadali, P. England, M. Franco, P. Chavrier, A. Houdusse, J. Menetrey
The Structural Basis Of Arf Effector Specificity: The Crystal Structure Of Arf6 In A Complex With Jip4.
Embo J. V. 28 2835 2009
[
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Hetero Components
(4, 13)
Info
All Hetero Components
1a: 1,4-DIETHYLENE DIOXIDE (DIOa)
1b: 1,4-DIETHYLENE DIOXIDE (DIOb)
1c: 1,4-DIETHYLENE DIOXIDE (DIOc)
1d: 1,4-DIETHYLENE DIOXIDE (DIOd)
1e: 1,4-DIETHYLENE DIOXIDE (DIOe)
1f: 1,4-DIETHYLENE DIOXIDE (DIOf)
2a: GLYCEROL (GOLa)
3a: GUANOSINE-5'-TRIPHOSPHATE (GTPa)
3b: GUANOSINE-5'-TRIPHOSPHATE (GTPb)
3c: GUANOSINE-5'-TRIPHOSPHATE (GTPc)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DIO
6
Ligand/Ion
1,4-DIETHYLENE DIOXIDE
2
GOL
1
Ligand/Ion
GLYCEROL
3
GTP
3
Ligand/Ion
GUANOSINE-5'-TRIPHOSPHATE
4
MG
3
Ligand/Ion
MAGNESIUM ION
[
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Sites
(13, 13)
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)
13: BC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:22 , ALA A:23 , ALA A:24 , GLY A:25 , LYS A:26 , THR A:27 , THR A:28 , THR A:41 , PRO A:43 , THR A:44 , GLY A:65 , GLY A:66 , ASN A:122 , LYS A:123 , ASP A:125 , LEU A:126 , CYS A:155 , ALA A:156 , MG A:1174 , HOH A:2011 , HOH A:2033 , HOH A:2093 , HOH A:2094 , HOH A:2095 , HOH A:2096 , HOH A:2097 , HOH A:2098
BINDING SITE FOR RESIDUE GTP A1173
02
AC2
SOFTWARE
THR A:27 , THR A:44 , GTP A:1173 , HOH A:2033 , HOH A:2094
BINDING SITE FOR RESIDUE MG A1174
03
AC3
SOFTWARE
ASP B:22 , ALA B:23 , ALA B:24 , GLY B:25 , LYS B:26 , THR B:27 , THR B:28 , THR B:41 , PRO B:43 , THR B:44 , GLY B:66 , ASN B:122 , LYS B:123 , ASP B:125 , CYS B:155 , ALA B:156 , THR B:157 , MG B:1174 , HOH B:2007 , HOH B:2015 , HOH B:2029
BINDING SITE FOR RESIDUE GTP B1173
04
AC4
SOFTWARE
THR B:27 , THR B:44 , GTP B:1173 , HOH B:2007 , HOH B:2015
BINDING SITE FOR RESIDUE MG B1174
05
AC5
SOFTWARE
ASP E:22 , ALA E:23 , ALA E:24 , GLY E:25 , LYS E:26 , THR E:27 , THR E:28 , THR E:41 , PRO E:43 , THR E:44 , GLY E:65 , GLY E:66 , ASN E:122 , LYS E:123 , ASP E:125 , LEU E:126 , CYS E:155 , ALA E:156 , THR E:157 , MG E:1174 , HOH E:2014 , HOH E:2029 , HOH E:2083 , HOH E:2084 , HOH E:2085 , HOH E:2086 , HOH E:2088 , HOH E:2089
BINDING SITE FOR RESIDUE GTP E1173
06
AC6
SOFTWARE
THR E:27 , THR E:44 , GTP E:1173 , HOH E:2029 , HOH E:2083
BINDING SITE FOR RESIDUE MG E1174
07
AC7
SOFTWARE
PRO A:132 , HIS A:133 , GLN A:136 , GLN E:136
BINDING SITE FOR RESIDUE DIO A1175
08
AC8
SOFTWARE
PRO A:132 , HIS A:133 , LYS E:131 , PRO E:132 , HIS E:133
BINDING SITE FOR RESIDUE DIO E1175
09
AC9
SOFTWARE
ILE A:70 , THR C:404 , ILE C:415 , DIO C:1454 , LEU D:399 , GLU D:402
BINDING SITE FOR RESIDUE DIO C1453
10
BC1
SOFTWARE
LYS A:69 , LEU A:73 , GLU C:408 , ALA C:412 , DIO C:1453
BINDING SITE FOR RESIDUE DIO C1454
11
BC2
SOFTWARE
PHE C:391 , THR E:27 , LYS E:34 , LEU E:35 , THR E:41 , ILE E:42
BINDING SITE FOR RESIDUE DIO E1176
12
BC3
SOFTWARE
LEU D:407 , ASN D:411 , LYS E:69 , ILE E:70 , LEU E:73
BINDING SITE FOR RESIDUE DIO E1177
13
BC4
SOFTWARE
ARG A:71 , PRO A:72 , TRP A:74 , ARG A:75 , TYR A:78 , GLU A:102 , ARG A:105 , HOH A:2099
BINDING SITE FOR RESIDUE GOL A1176
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
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Exons
(1, 3)
Info
All Exons
Exon 1.2 (A:12-172 | B:12-172 | E:11-172)
View:
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All Exon Boundaries
1: Boundary 1.1/1.2
2: Boundary 1.2/-
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
1.1
ENST00000298316
1
ENSE00001093805
chr14:
50359810-50359875
66
ARF6_HUMAN
-
0
0
-
-
1.2
ENST00000298316
2
ENSE00001093803
chr14:
50359974-50361490
1517
ARF6_HUMAN
1-336
336
3
A:12-172
B:12-172
E:11-172
161
161
162
[
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SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d2w83a_ (A:)
1b: SCOP_d2w83b_ (B:)
1c: SCOP_d2w83e_ (E:)
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(
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(
)
Protein Domains
(
)
(
)
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
d2w83a_
A:
1b
d2w83b_
B:
1c
d2w83e_
E:
[
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CATH Domains
(2, 5)
Info
all CATH domains
1a: CATH_2w83E00 (E:11-172)
1b: CATH_2w83A00 (A:12-172)
1c: CATH_2w83B00 (B:12-172)
2a: CATH_2w83C00 (C:386-452)
2b: CATH_2w83D00 (D:391-452)
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Topologies
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(
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Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Human (Homo sapiens)
(413)
1a
2w83E00
E:11-172
1b
2w83A00
A:12-172
1c
2w83B00
B:12-172
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
arf6 gtpase in complex with a specific effector, jip4
(1)
Human (Homo sapiens)
(1)
2a
2w83C00
C:386-452
2b
2w83D00
D:391-452
[
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Pfam Domains
(1, 3)
Info
all PFAM domains
1a: PFAM_Arf_2w83E01 (E:13-172)
1b: PFAM_Arf_2w83E02 (E:13-172)
1c: PFAM_Arf_2w83E03 (E:13-172)
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(
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Organisms
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(
)
Clan
:
P-loop_NTPase
(1112)
Family
:
Arf
(26)
Homo sapiens (Human)
(9)
1a
Arf-2w83E01
E:13-172
1b
Arf-2w83E02
E:13-172
1c
Arf-2w83E03
E:13-172
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Chain E
Asymmetric Unit 1
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