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1ZBD
Asym. Unit
Info
Asym.Unit (59 KB)
Biol.Unit 1 (53 KB)
Biol.Unit 2 (103 KB)
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(1)
Title
:
STRUCTURAL BASIS OF RAB EFFECTOR SPECIFICITY: CRYSTAL STRUCTURE OF THE SMALL G PROTEIN RAB3A COMPLEXED WITH THE EFFECTOR DOMAIN OF RABPHILIN-3A
Authors
:
C. Ostermeier, A. T. Brunger
Date
:
06 Nov 98 (Deposition) - 02 Apr 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Biol. Unit 2: A,B (2x)
Keywords
:
G Protein, Effector, Rabcdr, Synaptic Exocytosis, Rab Protein, Rab3A, Rabphilin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. Ostermeier, A. T. Brunger
Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3A Complexed With The Effector Domain Of Rabphilin-3A.
Cell(Cambridge, Mass. ) V. 96 363 1999
(for further references see the
PDB file header
)
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Hetero Components
(4, 15)
Info
All Hetero Components
1a: GUANOSINE-5'-TRIPHOSPHATE (GTPa)
2a: MAGNESIUM ION (MGa)
3a: SELENOMETHIONINE (MSEa)
3b: SELENOMETHIONINE (MSEb)
3c: SELENOMETHIONINE (MSEc)
3d: SELENOMETHIONINE (MSEd)
3e: SELENOMETHIONINE (MSEe)
3f: SELENOMETHIONINE (MSEf)
3g: SELENOMETHIONINE (MSEg)
3h: SELENOMETHIONINE (MSEh)
3i: SELENOMETHIONINE (MSEi)
3j: SELENOMETHIONINE (MSEj)
3k: SELENOMETHIONINE (MSEk)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GTP
1
Ligand/Ion
GUANOSINE-5'-TRIPHOSPHATE
2
MG
1
Ligand/Ion
MAGNESIUM ION
3
MSE
11
Mod. Amino Acid
SELENOMETHIONINE
4
ZN
2
Ligand/Ion
ZINC ION
[
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: ZN1 (UNKNOWN)
6: ZN2 (UNKNOWN)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
CYS B:111 , CYS B:114 , CYS B:137 , CYS B:140
BINDING SITE FOR RESIDUE ZN B 300
2
AC2
SOFTWARE
CYS B:94 , CYS B:97 , CYS B:119 , CYS B:122
BINDING SITE FOR RESIDUE ZN B 301
3
AC3
SOFTWARE
THR A:36 , THR A:54 , GTP A:303
BINDING SITE FOR RESIDUE MG A 302
4
AC4
SOFTWARE
ASN A:30 , SER A:31 , SER A:32 , VAL A:33 , GLY A:34 , LYS A:35 , THR A:36 , SER A:37 , THR A:48 , PRO A:49 , ALA A:50 , PHE A:51 , SER A:53 , THR A:54 , GLY A:80 , ASN A:135 , LYS A:136 , ASP A:138 , MSE A:139 , SER A:165 , ALA A:166 , LYS A:167 , MG A:302
BINDING SITE FOR RESIDUE GTP A 303
5
ZN1
UNKNOWN
CYS B:94 , CYS B:97 , CYS B:119 , CYS B:122
ZN-BINDING RESIDUES FOR ZN 301
6
ZN2
UNKNOWN
CYS B:111 , CYS B:114 , CYS B:137 , CYS B:140
ZN-BINDING RESIDUES FOR ZN 300
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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
(2, 2)
Info
All PROSITE Patterns/Profiles
1: RAB (A:19-192)
2: ZF_FYVE (B:88-145)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
RAB
PS51419
small GTPase Rab1 family profile.
RAB3A_RAT
18-220
1
A:19-192
2
ZF_FYVE
PS50178
Zinc finger FYVE/FYVE-related type profile.
RP3A_RAT
88-145
1
B:88-145
[
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Exons
(4, 4)
Info
All Exons
Exon 1.2b (A:16-76)
Exon 1.5 (A:77-116)
Exon 1.6 (A:116-158)
Exon 1.8 (A:158-192)
View:
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All Exon Boundaries
1: Boundary 1.1/1.2b
2: Boundary 1.2b/1.5
3: Boundary 1.5/1.6
4: Boundary 1.6/1.8
5: Boundary 1.8/-
View:
Label:
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
ENSRNOT00000026391
1
ENSRNOE00000426276
chr16:
19193874-19193767
108
RAB3A_RAT
-
0
0
-
-
1.2b
ENSRNOT00000026391
2b
ENSRNOE00000188693
chr16:
19192725-19192498
228
RAB3A_RAT
1-76
76
1
A:16-76
61
1.5
ENSRNOT00000026391
5
ENSRNOE00000291604
chr16:
19192016-19191898
119
RAB3A_RAT
77-116
40
1
A:77-116
40
1.6
ENSRNOT00000026391
6
ENSRNOE00000188854
chr16:
19191277-19191153
125
RAB3A_RAT
116-158
43
1
A:116-158
43
1.8
ENSRNOT00000026391
8
ENSRNOE00000238253
chr16:
19190563-19189768
796
RAB3A_RAT
158-220
63
1
A:158-192
35
[
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SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1zbda_ (A:)
2a: SCOP_d1zbdb_ (B:)
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Classes
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Folds
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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
:
Rab3a
(2)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(2)
1a
d1zbda_
A:
Class
:
Small proteins
(3458)
Fold
:
FYVE/PHD zinc finger
(57)
Superfamily
:
FYVE/PHD zinc finger
(57)
Family
:
FYVE, a phosphatidylinositol-3-phosphate binding domain
(8)
Protein domain
:
Effector domain of rabphilin-3a
(1)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(1)
2a
d1zbdb_
B:
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CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1zbdB00 (B:44-166)
2a: CATH_1zbdA00 (A:16-192)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Herpes Virus-1
(49)
Homologous Superfamily
:
Zinc/RING finger domain, C3HC4 (zinc finger)
(47)
Norway rat (Rattus norvegicus)
(1)
1a
1zbdB00
B:44-166
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Norway rat (Rattus norvegicus)
(38)
2a
1zbdA00
A:16-192
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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Asym.Unit (59 KB)
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