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Asym. Unit
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Asym.Unit (228 KB)
Biol.Unit 1 (221 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF RABGGTASE(DELTA LRR; DELTA IG)IN COMPLEX WITH MONO-PRENYLATED PEPTIDE SER-CYS(GG)-SER-CYS DERIVATED FROM RAB7
Authors
:
Z. Guo, S. Yu, R. S. Goody, K. Alexandrov, W. Blankenfeldt
Date
:
14 Jul 08 (Deposition) - 09 Sep 08 (Release) - 08 Sep 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Protein Prenylation, Metal-Binding, Prenyltransferase, Transferase, Zinc, Phosphoprotein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
Z. Guo, Y. -W. Wu, D. Das, C. Delon, J. Cramer, S. Yu, S. Thuns, N. Lupilova, H. Waldmann, L. Brunsveld, R. S. Goody, K. Alexandrov, W. Blankenfeldt
Structures Of Rabggtase-Substrate/Product Complexes Provide Insights Into The Evolution Of Protein Prenylation
Embo J. V. 27 2444 2008
(for further references see the
PDB file header
)
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
2a: GERAN-8-YL GERAN (GERa)
3a: ZINC ION (ZNa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
1
Ligand/Ion
CALCIUM ION
2
GER
1
Ligand/Ion
GERAN-8-YL GERAN
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:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HIS A:2 , ASP B:238 , CYS B:240 , HIS B:290
BINDING SITE FOR RESIDUE ZN B 332
2
AC2
SOFTWARE
ALA A:138 , HIS B:64 , MET B:66 , HOH B:381 , HOH B:401 , HOH B:406
BINDING SITE FOR RESIDUE CA B 333
3
AC3
SOFTWARE
LEU B:96 , GLN B:103 , GLY B:192 , CYS B:196 , TRP B:244 , HOH B:424
BINDING SITE FOR RESIDUE GER B 334
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: PFTA (A:44-78|A:88-122|A:124-158|A:159-1...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PFTA
PS51147
Protein prenyltransferases alpha subunit repeat profile.
PGTA_RAT
44-78
88-122
124-158
159-193
207-241
363-397
6
A:44-78
A:88-122
A:124-158
A:159-193
A:207-237
A:252-286
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Exons
(11, 11)
Info
All Exons
Exon 1.2 (A:1-1)
Exon 1.3 (A:2-38 (gaps))
Exon 1.4 (A:39-80)
Exon 1.5 (A:80-143)
Exon 1.6 (A:143-211 (gaps))
Exon 1.7 (A:211-237)
Exon 1.10 (A:238-241)
Exon 1.11 (A:242-242)
Exon 1.12 (A:242-272)
Exon 1.13 (A:272-301)
Exon 1.14 (A:302-330)
View:
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All Exon Boundaries
01: Boundary 1.1/1.2
02: Boundary 1.2/1.3
03: Boundary 1.3/1.4
04: Boundary 1.4/1.5
05: Boundary 1.5/1.6
06: Boundary 1.6/1.7
07: Boundary 1.7/1.8
08: Boundary 1.9/1.10
09: Boundary 1.10/1.11
10: Boundary 1.11/1.12
11: Boundary 1.12/1.13
12: Boundary 1.13/1.14
13: Boundary 1.14/1.15
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
ENSRNOT00000048455
1
ENSRNOE00000431461
chr15:
33868619-33868585
35
PGTA_RAT
-
0
0
-
-
1.2
ENSRNOT00000048455
2
ENSRNOE00000442687
chr15:
33868298-33868241
58
PGTA_RAT
1-1
1
1
A:1-1
1
1.3
ENSRNOT00000048455
3
ENSRNOE00000336091
chr15:
33868107-33867997
111
PGTA_RAT
2-38
37
1
A:2-38 (gaps)
37
1.4
ENSRNOT00000048455
4
ENSRNOE00000290128
chr15:
33867677-33867553
125
PGTA_RAT
39-80
42
1
A:39-80
42
1.5
ENSRNOT00000048455
5
ENSRNOE00000303229
chr15:
33867378-33867191
188
PGTA_RAT
80-143
64
1
A:80-143
64
1.6
ENSRNOT00000048455
6
ENSRNOE00000290397
chr15:
33866934-33866731
204
PGTA_RAT
143-211
69
1
A:143-211 (gaps)
69
1.7
ENSRNOT00000048455
7
ENSRNOE00000327073
chr15:
33866284-33866201
84
PGTA_RAT
211-239
29
1
A:211-237
27
1.8
ENSRNOT00000048455
8
ENSRNOE00000288887
chr15:
33866112-33866030
83
PGTA_RAT
239-266
28
0
-
-
1.9
ENSRNOT00000048455
9
ENSRNOE00000339199
chr15:
33865939-33865838
102
PGTA_RAT
267-300
34
0
-
-
1.10
ENSRNOT00000048455
10
ENSRNOE00000352360
chr15:
33865732-33865627
106
PGTA_RAT
301-336
36
1
A:238-241
4
1.11
ENSRNOT00000048455
11
ENSRNOE00000303916
chr15:
33865535-33865484
52
PGTA_RAT
336-353
18
1
A:242-242
1
1.12
ENSRNOT00000048455
12
ENSRNOE00000357522
chr15:
33865353-33865265
89
PGTA_RAT
353-383
31
1
A:242-272
31
1.13
ENSRNOT00000048455
13
ENSRNOE00000294255
chr15:
33865148-33865060
89
PGTA_RAT
383-412
30
1
A:272-301
30
1.14
ENSRNOT00000048455
14
ENSRNOE00000306932
chr15:
33864791-33864675
117
PGTA_RAT
413-451
39
1
A:302-330
29
1.15
ENSRNOT00000048455
15
ENSRNOE00000363642
chr15:
33864038-33863925
114
PGTA_RAT
452-489
38
0
-
-
1.16
ENSRNOT00000048455
16
ENSRNOE00000281487
chr15:
33863675-33863588
88
PGTA_RAT
490-519
30
0
-
-
1.17
ENSRNOT00000048455
17
ENSRNOE00000307031
chr15:
33862501-33862275
227
PGTA_RAT
519-567
49
0
-
-
[
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]
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d3dswb_ (B:)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
alpha/alpha toroid
(324)
Superfamily
:
Terpenoid cyclases/Protein prenyltransferases
(151)
Family
:
Protein prenyltransferases
(86)
Protein domain
:
Rab geranylgeranyltransferase, beta subunit
(21)
Norway rat (Rattus norvegicus) [TaxId: 10116]
(21)
1a
d3dswb_
B:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_3dswB00 (B:5-330)
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Homologous Superfamilies
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(
)
Organisms
(
)
(
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Class
:
Mainly Alpha
(13335)
Architecture
:
Alpha/alpha barrel
(251)
Topology
:
Glycosyltransferase
(233)
Homologous Superfamily
:
[code=1.50.10.20, no name defined]
(105)
Rat (Rattus norvegicus)
(21)
1a
3dswB00
B:5-330
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Nucleic
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Asymmetric Unit 1
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Asym.Unit (228 KB)
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