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1NQT
Asym. Unit
Info
Asym.Unit (969 KB)
Biol.Unit 1 (481 KB)
Biol.Unit 2 (480 KB)
Biol.Unit 3 (950 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF BOVINE GLUTAMATE DEHYDROGENASE-ADP COMPLEX
Authors
:
S. Banerjee, T. Schmidt, J. Fang, C. A. Stanley, T. J. Smith
Date
:
23 Jan 03 (Deposition) - 06 May 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.50
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F (1x)
Biol. Unit 2: G,H,I,J,K,L (1x)
Biol. Unit 3: A,B,C,D,E,F,G,H,I,J,K,L (1x)
Keywords
:
Glutamate Dehydrogenase-Adp Complex, Dimer Of Two Hexamers, 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
(for further references see the
PDB file header
)
[
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Hetero Components
(1, 12)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
1c: ADENOSINE-5'-DIPHOSPHATE (ADPc)
1d: ADENOSINE-5'-DIPHOSPHATE (ADPd)
1e: ADENOSINE-5'-DIPHOSPHATE (ADPe)
1f: ADENOSINE-5'-DIPHOSPHATE (ADPf)
1g: ADENOSINE-5'-DIPHOSPHATE (ADPg)
1h: ADENOSINE-5'-DIPHOSPHATE (ADPh)
1i: ADENOSINE-5'-DIPHOSPHATE (ADPi)
1j: ADENOSINE-5'-DIPHOSPHATE (ADPj)
1k: ADENOSINE-5'-DIPHOSPHATE (ADPk)
1l: ADENOSINE-5'-DIPHOSPHATE (ADPl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
12
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
[
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Sites
(12, 12)
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)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLN A:85 , ARG A:86 , ALA A:116 , ASP A:119 , VAL A:120 , ARG A:459 , VAL A:492 , ILE B:203 , HIS B:209 , LYS B:387 , SER B:393 , ARG B:396
BINDING SITE FOR RESIDUE ADP A 1
02
AC2
SOFTWARE
GLN B:85 , ARG B:86 , ALA B:116 , ASP B:119 , VAL B:120 , ARG B:459 , LYS B:488 , VAL B:489 , VAL B:492 , ILE F:203 , HIS F:209 , LYS F:387 , SER F:393 , ARG F:396 , GLU F:445
BINDING SITE FOR RESIDUE ADP B 2
03
AC3
SOFTWARE
GLN C:85 , ARG C:86 , ALA C:116 , ASP C:119 , VAL C:120 , ARG C:459 , LYS C:488 , VAL C:492 , ILE D:203 , LYS D:387 , SER D:393 , ARG D:396
BINDING SITE FOR RESIDUE ADP C 3
04
AC4
SOFTWARE
GLN D:85 , ARG D:86 , CYS D:115 , ALA D:116 , ASP D:119 , VAL D:120 , ARG D:459 , VAL D:492 , ILE E:203 , HIS E:209 , LYS E:387 , SER E:393 , ARG E:396 , GLU E:445
BINDING SITE FOR RESIDUE ADP D 4
05
AC5
SOFTWARE
ILE C:203 , LYS C:387 , SER C:393 , ARG C:396 , GLN E:85 , ARG E:86 , ALA E:116 , ASP E:119 , VAL E:120 , ARG E:459 , LYS E:488 , VAL E:489 , VAL E:492
BINDING SITE FOR RESIDUE ADP E 5
06
AC6
SOFTWARE
ILE A:203 , HIS A:209 , LYS A:387 , SER A:393 , ARG A:396 , GLN F:85 , ARG F:86 , ALA F:116 , ASP F:119 , VAL F:120 , ARG F:459 , LYS F:488 , VAL F:492
BINDING SITE FOR RESIDUE ADP F 502
07
AC7
SOFTWARE
GLN G:85 , ARG G:86 , ALA G:116 , ASP G:119 , ARG G:459 , LYS G:488 , VAL G:492 , ILE H:203 , HIS H:209 , LYS H:387 , SER H:393 , ARG H:396
BINDING SITE FOR RESIDUE ADP G 502
08
AC8
SOFTWARE
GLN H:85 , ARG H:86 , ASP H:119 , ARG H:459 , LYS H:488 , VAL H:489 , ILE L:203 , HIS L:209 , LYS L:387 , SER L:393 , ARG L:396
BINDING SITE FOR RESIDUE ADP H 502
09
AC9
SOFTWARE
GLN I:85 , ARG I:86 , ALA I:116 , ASP I:119 , VAL I:120 , ARG I:459 , LYS I:488 , VAL I:489 , VAL I:492 , ILE J:203 , HIS J:209 , LYS J:387 , SER J:393 , ARG J:396
BINDING SITE FOR RESIDUE ADP I 502
10
BC1
SOFTWARE
GLN J:85 , ARG J:86 , ALA J:116 , ASP J:119 , VAL J:120 , ARG J:459 , LYS J:488 , ILE K:203 , HIS K:209 , LYS K:387 , SER K:393 , ARG K:396
BINDING SITE FOR RESIDUE ADP J 502
11
BC2
SOFTWARE
ILE I:203 , HIS I:209 , LYS I:387 , SER I:393 , ARG I:396 , GLN K:85 , ARG K:86 , ASP K:119 , VAL K:120 , PRO K:121 , PHE K:122 , ARG K:459 , LYS K:488 , VAL K:492
BINDING SITE FOR RESIDUE ADP K 502
12
BC3
SOFTWARE
ILE G:203 , HIS G:209 , LYS G:387 , SER G:393 , ARG G:396 , GLN L:85 , ARG L:86 , ALA L:116 , ASP L:119 , VAL L:120 , PHE L:122 , ARG L:459 , VAL L:492
BINDING SITE FOR RESIDUE ADP L 502
[
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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, 12)
Info
All PROSITE Patterns/Profiles
1: GLFV_DEHYDROGENASE (A:120-133,B:120-133,C:120-133,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_BOVIN
177-190
12
A:120-133
B:120-133
C:120-133
D:120-133
E:120-133
F:120-133
G:120-133
H:120-133
I:120-133
J:120-133
K:120-133
L:120-133
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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.
SCOP Domains
(2, 24)
Info
All SCOP Domains
1a: SCOP_d1nqta2 (A:6-208)
1b: SCOP_d1nqtb2 (B:6-208)
1c: SCOP_d1nqtc2 (C:6-208)
1d: SCOP_d1nqtd2 (D:6-208)
1e: SCOP_d1nqte2 (E:6-208)
1f: SCOP_d1nqtf2 (F:6-208)
1g: SCOP_d1nqtg2 (G:6-208)
1h: SCOP_d1nqth2 (H:6-208)
1i: SCOP_d1nqti2 (I:6-208)
1j: SCOP_d1nqtj2 (J:6-208)
1k: SCOP_d1nqtk2 (K:6-208)
1l: SCOP_d1nqtl2 (L:6-208)
2a: SCOP_d1nqta1 (A:209-501)
2b: SCOP_d1nqtb1 (B:209-501)
2c: SCOP_d1nqtc1 (C:209-501)
2d: SCOP_d1nqtd1 (D:209-501)
2e: SCOP_d1nqte1 (E:209-501)
2f: SCOP_d1nqtf1 (F:209-501)
2g: SCOP_d1nqtg1 (G:209-501)
2h: SCOP_d1nqth1 (H:209-501)
2i: SCOP_d1nqti1 (I:209-501)
2j: SCOP_d1nqtj1 (J:209-501)
2k: SCOP_d1nqtk1 (K:209-501)
2l: SCOP_d1nqtl1 (L:209-501)
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)
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)
Folds
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)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
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)
Cow (Bos taurus) [TaxId: 9913]
(6)
1a
d1nqta2
A:6-208
1b
d1nqtb2
B:6-208
1c
d1nqtc2
C:6-208
1d
d1nqtd2
D:6-208
1e
d1nqte2
E:6-208
1f
d1nqtf2
F:6-208
1g
d1nqtg2
G:6-208
1h
d1nqth2
H:6-208
1i
d1nqti2
I:6-208
1j
d1nqtj2
J:6-208
1k
d1nqtk2
K:6-208
1l
d1nqtl2
L:6-208
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)
Cow (Bos taurus) [TaxId: 9913]
(6)
2a
d1nqta1
A:209-501
2b
d1nqtb1
B:209-501
2c
d1nqtc1
C:209-501
2d
d1nqtd1
D:209-501
2e
d1nqte1
E:209-501
2f
d1nqtf1
F:209-501
2g
d1nqtg1
G:209-501
2h
d1nqth1
H:209-501
2i
d1nqti1
I:209-501
2j
d1nqtj1
J:209-501
2k
d1nqtk1
K:209-501
2l
d1nqtl1
L:209-501
[
close SCOP info
]
CATH Domains
(3, 36)
Info
all CATH domains
1a: CATH_1nqtA01 (A:57-205)
1b: CATH_1nqtB01 (B:57-205)
1c: CATH_1nqtC01 (C:57-205)
1d: CATH_1nqtD01 (D:57-205)
1e: CATH_1nqtE01 (E:57-205)
1f: CATH_1nqtF01 (F:57-205)
1g: CATH_1nqtG01 (G:57-205)
1h: CATH_1nqtH01 (H:57-205)
1i: CATH_1nqtI01 (I:57-205)
1j: CATH_1nqtJ01 (J:57-205)
1k: CATH_1nqtK01 (K:57-205)
1l: CATH_1nqtL01 (L:57-205)
2a: CATH_1nqtA02 (A:206-500)
2b: CATH_1nqtB02 (B:206-500)
2c: CATH_1nqtC02 (C:206-500)
2d: CATH_1nqtD02 (D:206-500)
2e: CATH_1nqtE02 (E:206-500)
2f: CATH_1nqtF02 (F:206-500)
2g: CATH_1nqtG02 (G:206-500)
2h: CATH_1nqtH02 (H:206-500)
2i: CATH_1nqtI02 (I:206-500)
2j: CATH_1nqtJ02 (J:206-500)
2k: CATH_1nqtK02 (K:206-500)
2l: CATH_1nqtL02 (L:206-500)
3a: CATH_1nqtA03 (A:6-56)
3b: CATH_1nqtB03 (B:6-56)
3c: CATH_1nqtC03 (C:6-56)
3d: CATH_1nqtD03 (D:6-56)
3e: CATH_1nqtE03 (E:6-56)
3f: CATH_1nqtF03 (F:6-56)
3g: CATH_1nqtG03 (G:6-56)
3h: CATH_1nqtH03 (H:6-56)
3i: CATH_1nqtI03 (I:6-56)
3j: CATH_1nqtJ03 (J:6-56)
3k: CATH_1nqtK03 (K:6-56)
3l: CATH_1nqtL03 (L:6-56)
View:
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)
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)
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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)
Cattle (Bos taurus)
(5)
1a
1nqtA01
A:57-205
1b
1nqtB01
B:57-205
1c
1nqtC01
C:57-205
1d
1nqtD01
D:57-205
1e
1nqtE01
E:57-205
1f
1nqtF01
F:57-205
1g
1nqtG01
G:57-205
1h
1nqtH01
H:57-205
1i
1nqtI01
I:57-205
1j
1nqtJ01
J:57-205
1k
1nqtK01
K:57-205
1l
1nqtL01
L:57-205
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Cattle (Bos taurus)
(6)
2a
1nqtA02
A:206-500
2b
1nqtB02
B:206-500
2c
1nqtC02
C:206-500
2d
1nqtD02
D:206-500
2e
1nqtE02
E:206-500
2f
1nqtF02
F:206-500
2g
1nqtG02
G:206-500
2h
1nqtH02
H:206-500
2i
1nqtI02
I:206-500
2j
1nqtJ02
J:206-500
2k
1nqtK02
K:206-500
2l
1nqtL02
L:206-500
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
[code=1.10.287.140, no name defined]
(11)
Cattle (Bos taurus)
(5)
3a
1nqtA03
A:6-56
3b
1nqtB03
B:6-56
3c
1nqtC03
C:6-56
3d
1nqtD03
D:6-56
3e
1nqtE03
E:6-56
3f
1nqtF03
F:6-56
3g
1nqtG03
G:6-56
3h
1nqtH03
H:6-56
3i
1nqtI03
I:6-56
3j
1nqtJ03
J:6-56
3k
1nqtK03
K:6-56
3l
1nqtL03
L:6-56
[
close CATH info
]
Pfam Domains
(2, 24)
Info
all PFAM domains
1a: PFAM_ELFV_dehydrog_1nqtL01 (L:206-420)
1b: PFAM_ELFV_dehydrog_1nqtL02 (L:206-420)
1c: PFAM_ELFV_dehydrog_1nqtL03 (L:206-420)
1d: PFAM_ELFV_dehydrog_1nqtL04 (L:206-420)
1e: PFAM_ELFV_dehydrog_1nqtL05 (L:206-420)
1f: PFAM_ELFV_dehydrog_1nqtL06 (L:206-420)
1g: PFAM_ELFV_dehydrog_1nqtL07 (L:206-420)
1h: PFAM_ELFV_dehydrog_1nqtL08 (L:206-420)
1i: PFAM_ELFV_dehydrog_1nqtL09 (L:206-420)
1j: PFAM_ELFV_dehydrog_1nqtL10 (L:206-420)
1k: PFAM_ELFV_dehydrog_1nqtL11 (L:206-420)
1l: PFAM_ELFV_dehydrog_1nqtL12 (L:206-420)
2a: PFAM_ELFV_dehydrog_N_1nqtL13 (L:55-187)
2b: PFAM_ELFV_dehydrog_N_1nqtL14 (L:55-187)
2c: PFAM_ELFV_dehydrog_N_1nqtL15 (L:55-187)
2d: PFAM_ELFV_dehydrog_N_1nqtL16 (L:55-187)
2e: PFAM_ELFV_dehydrog_N_1nqtL17 (L:55-187)
2f: PFAM_ELFV_dehydrog_N_1nqtL18 (L:55-187)
2g: PFAM_ELFV_dehydrog_N_1nqtL19 (L:55-187)
2h: PFAM_ELFV_dehydrog_N_1nqtL20 (L:55-187)
2i: PFAM_ELFV_dehydrog_N_1nqtL21 (L:55-187)
2j: PFAM_ELFV_dehydrog_N_1nqtL22 (L:55-187)
2k: PFAM_ELFV_dehydrog_N_1nqtL23 (L:55-187)
2l: PFAM_ELFV_dehydrog_N_1nqtL24 (L:55-187)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
NADP_Rossmann
(1239)
Family
:
ELFV_dehydrog
(13)
Bos taurus (Bovine)
(5)
1a
ELFV_dehydrog-1nqtL01
L:206-420
1b
ELFV_dehydrog-1nqtL02
L:206-420
1c
ELFV_dehydrog-1nqtL03
L:206-420
1d
ELFV_dehydrog-1nqtL04
L:206-420
1e
ELFV_dehydrog-1nqtL05
L:206-420
1f
ELFV_dehydrog-1nqtL06
L:206-420
1g
ELFV_dehydrog-1nqtL07
L:206-420
1h
ELFV_dehydrog-1nqtL08
L:206-420
1i
ELFV_dehydrog-1nqtL09
L:206-420
1j
ELFV_dehydrog-1nqtL10
L:206-420
1k
ELFV_dehydrog-1nqtL11
L:206-420
1l
ELFV_dehydrog-1nqtL12
L:206-420
Clan
:
no clan defined [family: ELFV_dehydrog_N]
(13)
Family
:
ELFV_dehydrog_N
(13)
Bos taurus (Bovine)
(5)
2a
ELFV_dehydrog_N-1nqtL13
L:55-187
2b
ELFV_dehydrog_N-1nqtL14
L:55-187
2c
ELFV_dehydrog_N-1nqtL15
L:55-187
2d
ELFV_dehydrog_N-1nqtL16
L:55-187
2e
ELFV_dehydrog_N-1nqtL17
L:55-187
2f
ELFV_dehydrog_N-1nqtL18
L:55-187
2g
ELFV_dehydrog_N-1nqtL19
L:55-187
2h
ELFV_dehydrog_N-1nqtL20
L:55-187
2i
ELFV_dehydrog_N-1nqtL21
L:55-187
2j
ELFV_dehydrog_N-1nqtL22
L:55-187
2k
ELFV_dehydrog_N-1nqtL23
L:55-187
2l
ELFV_dehydrog_N-1nqtL24
L:55-187
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Show PDB file:
Asym.Unit (969 KB)
Header - Asym.Unit
Biol.Unit 1 (481 KB)
Header - Biol.Unit 1
Biol.Unit 2 (480 KB)
Header - Biol.Unit 2
Biol.Unit 3 (950 KB)
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