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1NR1
Biol. Unit 1
Info
Asym.Unit (473 KB)
Biol.Unit 1 (468 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE R463A MUTANT OF HUMAN GLUTAMATE DEHYDROGENASE
Authors
:
S. Banerjee, T. Schmidt, J. Fang, C. A. Stanley, T. J. Smith
Date
:
23 Jan 03 (Deposition) - 06 May 03 (Release) - 08 Feb 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.30
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Glutamate Dehydrogenase, Hexamer, Regulation, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Banerjee, T. Schmidt, J. Fang, C. A. Stanley, T. J. Smith
Structural Studies On Adp Activation Of Mammalian Glutamate Dehydrogenase And The Evolution Of Regulation
Biochemistry V. 42 3446 2003
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Hetero Components
(0, 0)
Info
All Hetero Components
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Sorry, no Info available
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Sites
(0, 0)
Info
All Sites
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Sorry, no Info available
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SAPs(SNPs)/Variants
(13, 78)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
01: VAR_016760 (S217C, chain A/B/C/D/E/F, )
02: VAR_016761 (R221C, chain A/B/C/D/E/F, )
03: VAR_009270 (R265K, chain A/B/C/D/E/F, )
04: VAR_016762 (R265T, chain A/B/C/D/E/F, )
05: VAR_016763 (Y266C, chain A/B/C/D/E/F, )
06: VAR_016764 (R269C, chain A/B/C/D/E/F, )
07: VAR_016765 (R269H, chain A/B/C/D/E/F, )
08: VAR_009271 (E296A, chain A/B/C/D/E/F, )
09: VAR_008666 (S445L, chain A/B/C/D/E/F, )
10: VAR_008667 (G446D, chain A/B/C/D/E/F, )
11: VAR_008668 (G446S, chain A/B/C/D/E/F, )
12: VAR_008669 (S448P, chain A/B/C/D/E/F, )
13: VAR_008670 (H454Y, chain A/B/C/D/E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_016760
S
270
C
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
S
217
C
02
UniProt
VAR_016761
R
274
C
DHE3_HUMAN
Disease (HHF6)
56275071
A/B/C/D/E/F
R
221
C
03
UniProt
VAR_009270
R
318
K
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
R
265
K
04
UniProt
VAR_016762
R
318
T
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
R
265
T
05
UniProt
VAR_016763
Y
319
C
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
Y
266
C
06
UniProt
VAR_016764
R
322
C
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
R
269
C
07
UniProt
VAR_016765
R
322
H
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
R
269
H
08
UniProt
VAR_009271
E
349
A
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
E
296
A
09
UniProt
VAR_008666
S
498
L
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
S
445
L
10
UniProt
VAR_008667
G
499
D
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
G
446
D
11
UniProt
VAR_008668
G
499
S
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
G
446
S
12
UniProt
VAR_008669
S
501
P
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
S
448
P
13
UniProt
VAR_008670
H
507
Y
DHE3_HUMAN
Disease (HHF6)
---
A/B/C/D/E/F
H
454
Y
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: GLFV_DEHYDROGENASE (A:124-137,B:124-137,C:124-137,D:12...)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLFV_DEHYDROGENASE
PS00074
Glu / Leu / Phe / Val dehydrogenases active site.
DHE3_HUMAN
177-190
6
A:124-137
B:124-137
C:124-137
D:124-137
E:124-137
F:124-137
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Exons
(0, 0)
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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, 12)
Info
All SCOP Domains
1a: SCOP_d1nr1a2 (A:10-212)
1b: SCOP_d1nr1e2 (E:10-212)
1c: SCOP_d1nr1f2 (F:10-212)
1d: SCOP_d1nr1b2 (B:10-212)
1e: SCOP_d1nr1c2 (C:10-212)
1f: SCOP_d1nr1d2 (D:10-212)
2a: SCOP_d1nr1a1 (A:213-505)
2b: SCOP_d1nr1e1 (E:213-505)
2c: SCOP_d1nr1f1 (F:213-505)
2d: SCOP_d1nr1b1 (B:213-505)
2e: SCOP_d1nr1c1 (C:213-505)
2f: SCOP_d1nr1d1 (D:213-505)
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)
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Folds
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(
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Superfamilies
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)
(
)
Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Aminoacid dehydrogenase-like, N-terminal domain
(100)
Superfamily
:
Aminoacid dehydrogenase-like, N-terminal domain
(100)
Family
:
Aminoacid dehydrogenases
(28)
Protein domain
:
Glutamate dehydrogenase
(19)
Human (Homo sapiens) [TaxId: 9606]
(2)
1a
d1nr1a2
A:10-212
1b
d1nr1e2
E:10-212
1c
d1nr1f2
F:10-212
1d
d1nr1b2
B:10-212
1e
d1nr1c2
C:10-212
1f
d1nr1d2
D:10-212
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Aminoacid dehydrogenase-like, C-terminal domain
(67)
Protein domain
:
Glutamate dehydrogenase
(19)
Human (Homo sapiens) [TaxId: 9606]
(2)
2a
d1nr1a1
A:213-505
2b
d1nr1e1
E:213-505
2c
d1nr1f1
F:213-505
2d
d1nr1b1
B:213-505
2e
d1nr1c1
C:213-505
2f
d1nr1d1
D:213-505
[
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CATH Domains
(3, 18)
Info
all CATH domains
1a: CATH_1nr1A01 (A:61-209)
1b: CATH_1nr1E01 (E:61-209)
1c: CATH_1nr1F01 (F:61-209)
1d: CATH_1nr1B01 (B:61-209)
1e: CATH_1nr1C01 (C:61-209)
1f: CATH_1nr1D01 (D:61-209)
2a: CATH_1nr1A02 (A:210-504)
2b: CATH_1nr1B02 (B:210-504)
2c: CATH_1nr1C02 (C:210-504)
2d: CATH_1nr1D02 (D:210-504)
2e: CATH_1nr1E02 (E:210-504)
2f: CATH_1nr1F02 (F:210-504)
3a: CATH_1nr1A03 (A:10-60)
3b: CATH_1nr1E03 (E:10-60)
3c: CATH_1nr1F03 (F:10-60)
3d: CATH_1nr1B03 (B:10-60)
3e: CATH_1nr1C03 (C:10-60)
3f: CATH_1nr1D03 (D:10-60)
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)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Leucine Dehydrogenase; Chain A, domain 1
(52)
Homologous Superfamily
:
Leucine Dehydrogenase, chain A, domain 1
(52)
Human (Homo sapiens)
(6)
1a
1nr1A01
A:61-209
1b
1nr1E01
E:61-209
1c
1nr1F01
F:61-209
1d
1nr1B01
B:61-209
1e
1nr1C01
C:61-209
1f
1nr1D01
D:61-209
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Human (Homo sapiens)
(188)
2a
1nr1A02
A:210-504
2b
1nr1B02
B:210-504
2c
1nr1C02
C:210-504
2d
1nr1D02
D:210-504
2e
1nr1E02
E:210-504
2f
1nr1F02
F:210-504
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.140, no name defined]
(11)
Human (Homo sapiens)
(2)
3a
1nr1A03
A:10-60
3b
1nr1E03
E:10-60
3c
1nr1F03
F:10-60
3d
1nr1B03
B:10-60
3e
1nr1C03
C:10-60
3f
1nr1D03
D:10-60
[
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Pfam Domains
(2, 12)
Info
all PFAM domains
1a: PFAM_ELFV_dehydrog_1nr1F01 (F:210-424)
1b: PFAM_ELFV_dehydrog_1nr1F02 (F:210-424)
1c: PFAM_ELFV_dehydrog_1nr1F03 (F:210-424)
1d: PFAM_ELFV_dehydrog_1nr1F04 (F:210-424)
1e: PFAM_ELFV_dehydrog_1nr1F05 (F:210-424)
1f: PFAM_ELFV_dehydrog_1nr1F06 (F:210-424)
2a: PFAM_ELFV_dehydrog_N_1nr1F07 (F:59-191)
2b: PFAM_ELFV_dehydrog_N_1nr1F08 (F:59-191)
2c: PFAM_ELFV_dehydrog_N_1nr1F09 (F:59-191)
2d: PFAM_ELFV_dehydrog_N_1nr1F10 (F:59-191)
2e: PFAM_ELFV_dehydrog_N_1nr1F11 (F:59-191)
2f: PFAM_ELFV_dehydrog_N_1nr1F12 (F:59-191)
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Clans
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)
(
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Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
NADP_Rossmann
(1239)
Family
:
ELFV_dehydrog
(13)
Homo sapiens (Human)
(2)
1a
ELFV_dehydrog-1nr1F01
F:210-424
1b
ELFV_dehydrog-1nr1F02
F:210-424
1c
ELFV_dehydrog-1nr1F03
F:210-424
1d
ELFV_dehydrog-1nr1F04
F:210-424
1e
ELFV_dehydrog-1nr1F05
F:210-424
1f
ELFV_dehydrog-1nr1F06
F:210-424
Clan
:
no clan defined [family: ELFV_dehydrog_N]
(13)
Family
:
ELFV_dehydrog_N
(13)
Homo sapiens (Human)
(2)
2a
ELFV_dehydrog_N-1nr1F07
F:59-191
2b
ELFV_dehydrog_N-1nr1F08
F:59-191
2c
ELFV_dehydrog_N-1nr1F09
F:59-191
2d
ELFV_dehydrog_N-1nr1F10
F:59-191
2e
ELFV_dehydrog_N-1nr1F11
F:59-191
2f
ELFV_dehydrog_N-1nr1F12
F:59-191
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