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3GJ3
Asym. Unit
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Asym.Unit (93 KB)
Biol.Unit 1 (88 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN RANGDP-NUP153ZNF2 COMPLEX
Authors
:
J. R. Partridge, T. U. Schwartz
Date
:
07 Mar 09 (Deposition) - 04 Aug 09 (Release) - 04 Aug 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.79
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
G Protein, Gdp, Ran, Nuclear Pore, Nup153, Zinc Finger, Acetylation, Cytoplasm, Gtp-Binding, Host-Virus Interaction, Isopeptide Bond, Nucleotide-Binding, Nucleus, Phosphoprotein, Polymorphism, Protein Transport, Transport, Ubl Conjugation, Dna-Binding, Metal-Binding, Mrna Transport, Nuclear Pore Complex, Translocation, Zinc, Zinc- Finger, Transport Protein
(Keyword Search:
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Reference
:
J. R. Partridge, T. U. Schwartz
Crystallographic And Biochemical Analysis Of The Ran-Binding Zinc Finger Domain.
J. Mol. Biol. V. 391 375 2009
(for further references see the
PDB file header
)
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
2a: MAGNESIUM ION (MGa)
3a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GDP
1
Ligand/Ion
GUANOSINE-5'-DIPHOSPHATE
2
MG
1
Ligand/Ion
MAGNESIUM ION
3
ZN
1
Ligand/Ion
ZINC ION
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
THR A:24 , GDP A:302 , HOH A:442 , HOH A:443 , HOH A:444 , HOH A:445
BINDING SITE FOR RESIDUE MG A 301
2
AC2
SOFTWARE
GLY A:20 , THR A:21 , GLY A:22 , LYS A:23 , THR A:24 , THR A:25 , ASN A:122 , LYS A:123 , ASP A:125 , ILE A:126 , SER A:150 , ALA A:151 , LYS A:152 , HOH A:291 , MG A:301 , HOH A:344 , HOH A:383 , HOH A:391 , HOH A:438 , HOH A:443 , HOH A:444 , LYS B:735
BINDING SITE FOR RESIDUE GDP A 302
3
AC3
SOFTWARE
CYS B:727 , CYS B:730 , CYS B:741 , CYS B:744
BINDING SITE FOR RESIDUE ZN B 300
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_051900 (R95I, chain A, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_051900
R
95
I
RAN_HUMAN
Polymorphism
11546488
A
R
95
I
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: ZF_RANBP2_1 (-|B:725-744|-|-)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ZF_RANBP2_1
PS01358
Zinc finger RanBP2-type signature.
NU153_RAT
662-681
725-744
793-812
850-869
1
-
B:725-744
-
-
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Exons
(5, 5)
Info
All Exons
Exon 1.2a (A:6-32)
Exon 1.2d (A:33-61)
Exon 1.3 (A:61-103)
Exon 1.5b (A:103-165)
Exon 1.6c (A:166-207)
View:
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All Exon Boundaries
1: Boundary -/1.2a
2: Boundary 1.2a/1.2d
3: Boundary 1.2d/1.3
4: Boundary 1.3/1.5b
5: Boundary 1.5b/1.6c
6: Boundary 1.6c/1.7c
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
1.2a
ENST00000392369
2a
ENSE00001511608
chr12:
131356783-131357174
392
RAN_HUMAN
1-32
32
1
A:6-32
27
1.2d
ENST00000392369
2d
ENSE00000903701
chr12:
131357381-131357465
85
RAN_HUMAN
33-61
29
1
A:33-61
29
1.3
ENST00000392369
3
ENSE00000903703
chr12:
131357548-131357673
126
RAN_HUMAN
61-103
43
1
A:61-103
43
1.5b
ENST00000392369
5b
ENSE00000903705
chr12:
131359091-131359278
188
RAN_HUMAN
103-165
63
1
A:103-165
63
1.6c
ENST00000392369
6c
ENSE00000903707
chr12:
131360157-131360327
171
RAN_HUMAN
166-222
57
1
A:166-207
42
1.7c
ENST00000392369
7c
ENSE00001511600
chr12:
131360427-131360826
400
RAN_HUMAN
223-236
14
0
-
-
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SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d3gj3a_ (A:)
2a: SCOP_d3gj3b_ (B:)
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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
:
Ran
(37)
Human (Homo sapiens) [TaxId: 9606]
(29)
1a
d3gj3a_
A:
Class
:
Small proteins
(3458)
Fold
:
Rubredoxin-like
(572)
Superfamily
:
Ran binding protein zinc finger-like
(16)
Family
:
Ran binding protein zinc finger-like
(16)
Protein domain
:
Nuclear pore complex protein nup153
(8)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(6)
2a
d3gj3b_
B:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3gj3A00 (A:6-207)
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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)
Human (Homo sapiens)
(413)
1a
3gj3A00
A:6-207
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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Asym.Unit (93 KB)
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