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3GJ7
Biol. Unit 1
Info
Asym.Unit (175 KB)
Biol.Unit 1 (86 KB)
Biol.Unit 2 (86 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN RANGDP-NUP153ZNF12 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
:
1.93
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
G Protein, Gdp, Ran, Nup153, Nuclear Pore, 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
(1, 1)
Info
All Hetero Components
1a: GUANOSINE-5'-DIPHOSPHATE (GDPa)
1b: GUANOSINE-5'-DIPHOSPHATE (GDPb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
View:
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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
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC8 (SOFTWARE)
7: AC9 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
THR A:24 , HOH A:239 , HOH A:240 , HOH A:241 , HOH A:242 , GDP A:302
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:219 , HOH A:239 , HOH A:241 , HOH A:299 , MG A:301 , HOH A:310 , HOH A:344
BINDING SITE FOR RESIDUE GDP A 302
3
AC3
SOFTWARE
LEU A:31 , HOH A:279 , MG C:303
BINDING SITE FOR RESIDUE MG A 304
4
AC4
SOFTWARE
PRO A:180 , ALA A:181 , HOH A:221 , MG C:305
BINDING SITE FOR RESIDUE MG A 306
5
AC5
SOFTWARE
CYS B:727 , CYS B:730 , CYS B:741 , CYS B:744
BINDING SITE FOR RESIDUE ZN B 300
6
AC8
SOFTWARE
MG A:304 , HIS C:53 , PRO C:58 , HOH C:358
BINDING SITE FOR RESIDUE MG C 303
7
AC9
SOFTWARE
MG A:306 , ALA C:181 , HOH C:244
BINDING SITE FOR RESIDUE MG C 305
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_051900 (R95I, chain A, )
View:
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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 ()
;
View:
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Label:
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
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d3gj7a_ (A:)
1b: SCOP_d3gj7c_ (C:)
2a: SCOP_d3gj7b_ (B:)
2b: SCOP_d3gj7d_ (D:)
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Protein Domains
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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
d3gj7a_
A:
1b
d3gj7c_
C:
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
d3gj7b_
B:
2b
d3gj7d_
D:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3gj7C00 (C:7-208)
1b: CATH_3gj7A00 (A:7-207)
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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
3gj7C00
C:7-208
1b
3gj7A00
A:7-207
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Pfam Domains
(0, 0)
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all PFAM domains
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Asymmetric Unit 1
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