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1KQP
Asym. Unit
Info
Asym.Unit (305 KB)
Biol.Unit 1 (298 KB)
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(1)
Title
:
NH3-DEPENDENT NAD+ SYNTHETASE FROM BACILLUS SUBTILIS AT 1 A RESOLUTION
Authors
:
J. Symersky, Y. Devedjiev, K. Moore, C. Brouillette, L. Delucas
Date
:
07 Jan 02 (Deposition) - 28 Jun 02 (Release) - 03 Aug 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.03
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Ligase, Amidotransferase, Atp Pyrophosphatase, Nad-Adenylate
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Symersky, Y. Devedjiev, K. Moore, C. Brouillette, L. Delucas
Nh3-Dependent Nad+ Synthetase From Bacillus Subtilis At 1 A Resolution.
Acta Crystallogr. , Sect. D V. 58 1138 2002
(for further references see the
PDB file header
)
[
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Hetero Components
(4, 19)
Info
All Hetero Components
1a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE-... (ADJa)
1b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE-... (ADJb)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
3e: MAGNESIUM ION (MGe)
4a: PYROPHOSPHATE 2- (POPa)
4b: PYROPHOSPHATE 2- (POPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADJ
2
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE-ADENYLATEINTERMEDIATE
2
EDO
10
Ligand/Ion
1,2-ETHANEDIOL
3
MG
5
Ligand/Ion
MAGNESIUM ION
4
POP
2
Ligand/Ion
PYROPHOSPHATE 2-
[
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]
Sites
(19, 19)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:50 , GLU A:162 , ADJ A:3001 , POP A:4001 , HOH A:6037
BINDING SITE FOR RESIDUE MG A 5001
02
AC2
SOFTWARE
THR A:208 , ADJ A:3001 , POP A:4001 , HOH A:6075 , HOH A:6234
BINDING SITE FOR RESIDUE MG A 5002
03
AC3
SOFTWARE
THR B:208 , ADJ B:3002 , POP B:4002 , HOH B:6039 , HOH B:6043
BINDING SITE FOR RESIDUE MG B 5003
04
AC4
SOFTWARE
ASP B:50 , GLU B:162 , ADJ B:3002 , POP B:4002 , HOH B:6019
BINDING SITE FOR RESIDUE MG B 5004
05
AC5
SOFTWARE
ASP B:124 , HOH B:6061 , HOH B:6073 , HOH B:6122 , HOH B:6149 , HOH B:6156
BINDING SITE FOR RESIDUE MG B 5005
06
AC6
SOFTWARE
GLY A:225 , GLU A:230 , LYS A:243 , EDO A:2002 , HOH A:6337 , HOH B:6188
BINDING SITE FOR RESIDUE EDO A 2001
07
AC7
SOFTWARE
GLU A:221 , GLY A:225 , ILE A:226 , GLU A:230 , EDO A:2001 , HOH A:6402 , HOH B:6073 , HOH B:6218
BINDING SITE FOR RESIDUE EDO A 2002
08
AC8
SOFTWARE
HOH A:6402 , GLY B:123 , LYS B:194 , GLU B:195 , HOH B:6137 , HOH B:6471
BINDING SITE FOR RESIDUE EDO B 2003
09
AC9
SOFTWARE
ARG B:56 , PHE B:96 , LYS B:98 , HOH B:6573 , HOH B:6596
BINDING SITE FOR RESIDUE EDO B 2004
10
BC1
SOFTWARE
HOH A:6612 , GLU B:23 , VAL B:26 , ASN B:27 , SER B:64 , EDO B:2006 , HOH B:6233 , HOH B:6489
BINDING SITE FOR RESIDUE EDO B 2005
11
BC2
SOFTWARE
GLN A:91 , LYS B:30 , SER B:64 , GLU B:67 , GLU B:68 , EDO B:2005
BINDING SITE FOR RESIDUE EDO B 2006
12
BC3
SOFTWARE
GLU A:121 , HOH A:6116 , TRP B:103 , LYS B:104
BINDING SITE FOR RESIDUE EDO B 2007
13
BC4
SOFTWARE
PRO A:262 , HOH A:6031 , HOH A:6298 , HOH A:6354 , ASP B:158 , PHE B:168 , GLY B:174
BINDING SITE FOR RESIDUE EDO A 2008
14
BC5
SOFTWARE
LEU A:179 , HOH A:6428 , VAL B:261 , PRO B:262 , SER B:264 , ASP B:267 , HOH B:6325
BINDING SITE FOR RESIDUE EDO B 2009
15
BC6
SOFTWARE
ARG B:56 , GLN B:59 , GLU B:63 , LYS B:98
BINDING SITE FOR RESIDUE EDO B 2010
16
BC7
SOFTWARE
LEU A:43 , GLY A:44 , ILE A:45 , SER A:46 , SER A:51 , ARG A:78 , LEU A:79 , GLN A:84 , PHE A:129 , ASN A:133 , ARG A:137 , ARG A:139 , THR A:157 , GLU A:162 , PHE A:167 , PHE A:168 , THR A:169 , LYS A:170 , ASP A:173 , THR A:208 , ALA A:209 , LEU A:211 , GLU A:223 , HIS A:257 , LYS A:258 , POP A:4001 , MG A:5001 , MG A:5002 , HOH A:6001 , HOH A:6002 , HOH A:6005 , HOH A:6037 , HOH A:6098 , HOH A:6181 , HOH A:6184 , HOH A:6204 , HOH A:6216 , HOH A:6234 , HOH A:6235 , HOH A:6271 , HOH A:6452 , HOH A:6595 , HOH A:6621 , HOH A:6631 , TYR B:32 , THR B:36 , TYR B:144 , LEU B:153 , ASP B:177 , HOH B:6093 , HOH B:6359
BINDING SITE FOR RESIDUE ADJ A 3001
17
BC8
SOFTWARE
TYR A:32 , THR A:36 , TYR A:144 , LEU A:153 , ASP A:177 , HOH A:6135 , LEU B:43 , GLY B:44 , ILE B:45 , SER B:46 , SER B:51 , ARG B:78 , LEU B:79 , GLN B:84 , ASN B:133 , ARG B:137 , ARG B:139 , THR B:157 , GLU B:162 , PHE B:167 , PHE B:168 , THR B:169 , LYS B:170 , ASP B:173 , THR B:208 , ALA B:209 , LEU B:211 , GLU B:223 , HIS B:257 , LYS B:258 , POP B:4002 , MG B:5003 , MG B:5004 , HOH B:6003 , HOH B:6004 , HOH B:6006 , HOH B:6019 , HOH B:6039 , HOH B:6136 , HOH B:6178 , HOH B:6200 , HOH B:6214 , HOH B:6295 , HOH B:6339 , HOH B:6435 , HOH B:6580 , HOH B:6583 , HOH B:6634 , HOH B:6667 , HOH B:6708
BINDING SITE FOR RESIDUE ADJ B 3002
18
BC9
SOFTWARE
SER A:46 , GLY A:48 , GLN A:49 , ASP A:50 , SER A:51 , GLU A:162 , LYS A:186 , PRO A:207 , THR A:208 , ADJ A:3001 , MG A:5001 , MG A:5002 , HOH A:6005 , HOH A:6037 , HOH A:6041 , HOH A:6075 , HOH A:6234
BINDING SITE FOR RESIDUE POP A 4001
19
CC1
SOFTWARE
SER B:46 , GLY B:48 , GLN B:49 , ASP B:50 , SER B:51 , GLU B:162 , LYS B:186 , PRO B:207 , THR B:208 , ADJ B:3002 , MG B:5003 , MG B:5004 , HOH B:6006 , HOH B:6015 , HOH B:6019 , HOH B:6039 , HOH B:6043
BINDING SITE FOR RESIDUE POP B 4002
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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Exons
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Info
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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
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1kqpa_ (A:)
1b: SCOP_d1kqpb_ (B:)
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Adenine nucleotide alpha hydrolase-like
(440)
Superfamily
:
Adenine nucleotide alpha hydrolases-like
(110)
Family
:
N-type ATP pyrophosphatases
(44)
Protein domain
:
NH3-dependent NAD+-synthetase
(12)
Bacillus subtilis [TaxId: 1423]
(7)
1a
d1kqpa_
A:
1b
d1kqpb_
B:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1kqpA00 (A:1-271)
1b: CATH_1kqpB00 (B:1-271)
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Organisms
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)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1
(328)
Bacillus subtilis. Organism_taxid: 1423.
(7)
1a
1kqpA00
A:1-271
1b
1kqpB00
B:1-271
[
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]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_NAD_synthase_1kqpB01 (B:21-262)
1b: PFAM_NAD_synthase_1kqpB02 (B:21-262)
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(
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Organisms
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(
)
Clan
:
HUP
(230)
Family
:
NAD_synthase
(14)
Bacillus subtilis
(3)
1a
NAD_synthase-1kqpB01
B:21-262
1b
NAD_synthase-1kqpB02
B:21-262
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