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Getting 'Biological Unit' information from database.
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Getting 'Hetero Component' information from database.
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Getting 'Exon' information from database.
3LAW
Asym. Unit
Info
Asym.Unit (155 KB)
Biol.Unit 1 (33 KB)
Biol.Unit 2 (32 KB)
Biol.Unit 3 (33 KB)
Biol.Unit 4 (32 KB)
Biol.Unit 5 (32 KB)
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(1)
Title
:
STRUCTURE OF GTP-BOUND L129F MUTANT RAB7
Authors
:
B. A. Mccray, E. Skordalakes, J. P. Taylor
Date
:
07 Jan 10 (Deposition) - 26 Jan 10 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Keywords
:
Protein - Nucleotide Complex, Protein Mutant, Charcot-Marie-Tooth Disease, Cytoplasmic Vesicle, Disease Mutation, Endosome, Gtp- Binding, Lipoprotein, Lysosome, Methylation, Neuropathy, Nucleotide- Binding, Phosphoprotein, Prenylation, Protein Transport, Proton Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. A. Mccray, E. Skordalakes, J. P. Taylor
Disease Mutations In Rab7 Result In Unregulated Nucleotide Exchange And Inappropriate Activation.
Hum. Mol. Genet. V. 19 1033 2010
[
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Hetero Components
(2, 10)
Info
All Hetero Components
1a: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPa)
1b: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPb)
1c: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPc)
1d: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPd)
1e: PHOSPHOAMINOPHOSPHONIC ACID-GUANYL... (GNPe)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GNP
5
Ligand/Ion
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
2
MG
5
Ligand/Ion
MAGNESIUM ION
[
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Sites
(10, 10)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:22 , THR A:40 , ASP A:63 , THR A:64 , GNP A:1400
BINDING SITE FOR RESIDUE MG A 1401
02
AC2
SOFTWARE
ASP A:16 , SER A:17 , GLY A:18 , VAL A:19 , GLY A:20 , LYS A:21 , THR A:22 , SER A:23 , PHE A:33 , SER A:34 , ASN A:35 , TYR A:37 , THR A:40 , GLY A:66 , ASN A:125 , LYS A:126 , ASP A:128 , PHE A:129 , SER A:155 , ALA A:156 , LYS A:157 , HOH A:216 , MG A:1401 , PHE B:45
BINDING SITE FOR RESIDUE GNP A 1400
03
AC3
SOFTWARE
THR B:22 , THR B:40 , ASP B:63 , THR B:64 , GNP B:1400
BINDING SITE FOR RESIDUE MG B 1401
04
AC4
SOFTWARE
SER B:17 , GLY B:18 , VAL B:19 , GLY B:20 , LYS B:21 , THR B:22 , SER B:23 , PHE B:33 , SER B:34 , ASN B:35 , TYR B:37 , THR B:40 , GLY B:66 , ASN B:125 , LYS B:126 , ASP B:128 , PHE B:129 , SER B:155 , ALA B:156 , LYS B:157 , MG B:1401 , THR D:47
BINDING SITE FOR RESIDUE GNP B 1400
05
AC5
SOFTWARE
THR C:22 , THR C:40 , ASP C:63 , GNP C:1400
BINDING SITE FOR RESIDUE MG C 1401
06
AC6
SOFTWARE
THR A:47 , SER C:17 , GLY C:18 , VAL C:19 , GLY C:20 , LYS C:21 , THR C:22 , SER C:23 , PHE C:33 , SER C:34 , ASN C:35 , TYR C:37 , THR C:40 , GLY C:66 , ASN C:125 , LYS C:126 , ASP C:128 , PHE C:129 , SER C:155 , ALA C:156 , LYS C:157 , MG C:1401
BINDING SITE FOR RESIDUE GNP C 1400
07
AC7
SOFTWARE
THR D:22 , THR D:40 , ASP D:63 , THR D:64 , GNP D:1400
BINDING SITE FOR RESIDUE MG D 1401
08
AC8
SOFTWARE
SER D:17 , GLY D:18 , VAL D:19 , GLY D:20 , LYS D:21 , THR D:22 , SER D:23 , SER D:34 , ASN D:35 , TYR D:37 , ALA D:39 , THR D:40 , GLY D:66 , ASN D:125 , LYS D:126 , ASP D:128 , PHE D:129 , ALA D:156 , LYS D:157 , MG D:1401 , PHE E:45 , THR E:47
BINDING SITE FOR RESIDUE GNP D 1400
09
AC9
SOFTWARE
THR E:22 , THR E:40 , ASP E:63 , THR E:64 , GNP E:1400
BINDING SITE FOR RESIDUE MG E 1401
10
BC1
SOFTWARE
PHE C:45 , ASP E:16 , SER E:17 , GLY E:18 , VAL E:19 , GLY E:20 , LYS E:21 , THR E:22 , SER E:23 , PHE E:33 , SER E:34 , ASN E:35 , TYR E:37 , THR E:40 , ALA E:65 , GLY E:66 , ASN E:125 , LYS E:126 , ASP E:128 , PHE E:129 , SER E:155 , ALA E:156 , LYS E:157 , MG E:1401
BINDING SITE FOR RESIDUE GNP E 1400
[
close Site info
]
SAPs(SNPs)/Variants
(5, 25)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_037886 (K32E, chain A/B/C/D/E, )
2: VAR_018722 (F129F, chain A/B/C/D/E, )
3: VAR_037887 (K157N, chain A/B/C/D/E, )
4: VAR_037888 (N161T, chain A/B/C/D/E, )
5: VAR_018723 (V162M, chain A/B/C/D/E, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_037886
K
32
E
RAB7A_HUMAN
Polymorphism
11549759
A/B/C/D/E
K
32
E
2
UniProt
VAR_018722
L
129
F
RAB7A_HUMAN
Disease (CMT2B)
121909078
A/B/C/D/E
F
129
F
3
UniProt
VAR_037887
K
157
N
RAB7A_HUMAN
Disease (CMT2B)
121909081
A/B/C/D/E
K
157
N
4
UniProt
VAR_037888
N
161
T
RAB7A_HUMAN
Disease (CMT2B)
121909080
A/B/C/D/E
N
161
T
5
UniProt
VAR_018723
V
162
M
RAB7A_HUMAN
Disease (CMT2B)
121909079
A/B/C/D/E
V
162
M
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
Exons
(5, 25)
Info
All Exons
Exon 1.2c (A:6-18 | B:6-18 | C:5-18 | D:5-18 ...)
Exon 1.3b (A:18-60 | B:18-60 | C:18-60 | D:18...)
Exon 1.4c (A:61-133 | B:61-133 | C:61-133 | D...)
Exon 1.5b (A:134-176 | B:134-176 | C:134-176 ...)
Exon 1.6f (A:177-182 | B:177-180 | C:177-181 ...)
View:
Select:
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All Exon Boundaries
1: Boundary 1.1a/1.2c
2: Boundary 1.2c/1.3b
3: Boundary 1.3b/1.4c
4: Boundary 1.4c/1.5b
5: Boundary 1.5b/1.6f
6: Boundary 1.6f/-
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
1.1a
ENST00000265062
1a
ENSE00001236693
chr3:
128444965-128445202
238
RAB7A_HUMAN
-
0
0
-
-
1.2c
ENST00000265062
2c
ENSE00002193380
chr3:
128514203-128514263
61
RAB7A_HUMAN
1-18
18
5
A:6-18
B:6-18
C:5-18
D:5-18
E:6-18
13
13
14
14
13
1.3b
ENST00000265062
3b
ENSE00000903897
chr3:
128516786-128516912
127
RAB7A_HUMAN
18-60
43
5
A:18-60
B:18-60
C:18-60
D:18-60
E:18-60
43
43
43
43
43
1.4c
ENST00000265062
4c
ENSE00000778026
chr3:
128525215-128525433
219
RAB7A_HUMAN
61-133
73
5
A:61-133
B:61-133
C:61-133
D:61-133
E:61-133
73
73
73
73
73
1.5b
ENST00000265062
5b
ENSE00001047626
chr3:
128526386-128526514
129
RAB7A_HUMAN
134-176
43
5
A:134-176
B:134-176
C:134-176
D:134-176
E:134-176
43
43
43
43
43
1.6f
ENST00000265062
6f
ENSE00001314364
chr3:
128532170-128533639
1470
RAB7A_HUMAN
177-207
31
5
A:177-182
B:177-180
C:177-181
D:177-180
E:177-180
6
4
5
4
4
[
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SCOP Domains
(1, 5)
Info
All SCOP Domains
1a: SCOP_d3lawa_ (A:)
1b: SCOP_d3lawb_ (B:)
1c: SCOP_d3lawc_ (C:)
1d: SCOP_d3lawd_ (D:)
1e: SCOP_d3lawe_ (E:)
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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
d3lawa_
A:
1b
d3lawb_
B:
1c
d3lawc_
C:
1d
d3lawd_
D:
1e
d3lawe_
E:
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
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Pfam Domains
(1, 5)
Info
all PFAM domains
1a: PFAM_Ras_3lawE01 (E:10-175)
1b: PFAM_Ras_3lawE02 (E:10-175)
1c: PFAM_Ras_3lawE03 (E:10-175)
1d: PFAM_Ras_3lawE04 (E:10-175)
1e: PFAM_Ras_3lawE05 (E:10-175)
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Clan
:
P-loop_NTPase
(1112)
Family
:
Ras
(176)
Homo sapiens (Human)
(141)
1a
Ras-3lawE01
E:10-175
1b
Ras-3lawE02
E:10-175
1c
Ras-3lawE03
E:10-175
1d
Ras-3lawE04
E:10-175
1e
Ras-3lawE05
E:10-175
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