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2IW4
Asym. Unit
Info
Asym.Unit (116 KB)
Biol.Unit 1 (109 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF BASILLUS SUBTILIS FAMILY II INORGANIC PYROPHOSPHATASE MUTANT, H98Q, IN COMPLEX WITH PNP
Authors
:
I. P. Fabrichniy, L. Lehtio, E. Oksanen, A. Goldman
Date
:
26 Jun 06 (Deposition) - 07 Nov 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Hydrolase, Pyrophosphatase, Substrate Complex, Mutant, Manganese, Metal-Binding
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. P. Fabrichniy, L. Lehtio, M. Tammenkoski, A. B. Zyryanov, E. Oksanen, A. A. Baykov, R. Lahti, A. Goldman
A Trimetal Site And Substrate Distortion In A Family Ii Inorganic Pyrophosphatase.
J. Biol. Chem. V. 282 1422 2007
[
close entry info
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Hetero Components
(7, 19)
Info
All Hetero Components
1a: IMIDODIPHOSPHORIC ACID (2PNa)
1b: IMIDODIPHOSPHORIC ACID (2PNb)
2a: FE (III) ION (FEa)
2b: FE (III) ION (FEb)
2c: FE (III) ION (FEc)
2d: FE (III) ION (FEd)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
4a: MAGNESIUM ION (MGa)
4b: MAGNESIUM ION (MGb)
4c: MAGNESIUM ION (MGc)
4d: MAGNESIUM ION (MGd)
5a: MANGANESE (II) ION (MNa)
5b: MANGANESE (II) ION (MNb)
5c: MANGANESE (II) ION (MNc)
6a: TETRAETHYLENE GLYCOL (PG4a)
6b: TETRAETHYLENE GLYCOL (PG4b)
7a: SULFATE ION (SO4a)
7b: SULFATE ION (SO4b)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
2PN
2
Ligand/Ion
IMIDODIPHOSPHORIC ACID
2
FE
4
Ligand/Ion
FE (III) ION
3
GOL
2
Ligand/Ion
GLYCEROL
4
MG
4
Ligand/Ion
MAGNESIUM ION
5
MN
3
Ligand/Ion
MANGANESE (II) ION
6
PG4
2
Ligand/Ion
TETRAETHYLENE GLYCOL
7
SO4
2
Ligand/Ion
SULFATE ION
[
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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
HIS A:9 , ASP A:13 , ASP A:75 , FE A:1310 , MG A:1312 , MN A:1314 , 2PN A:1315 , HOH A:2195
BINDING SITE FOR RESIDUE FE A1309
02
AC2
SOFTWARE
ASP A:15 , ASP A:75 , HIS A:97 , ASP A:149 , FE A:1309 , MN A:1313 , 2PN A:1315 , HOH A:2195
BINDING SITE FOR RESIDUE FE A1310
03
AC3
SOFTWARE
MG A:1312 , 2PN A:1315 , HOH A:2013 , HOH A:2131 , HOH A:2198 , HOH A:2199
BINDING SITE FOR RESIDUE MG A1311
04
AC4
SOFTWARE
ASP A:13 , ASP A:149 , FE A:1309 , MG A:1311 , MN A:1313 , 2PN A:1315 , HOH A:2105 , HOH A:2195 , HOH A:2199
BINDING SITE FOR RESIDUE MG A1312
05
AC5
SOFTWARE
HIS A:9 , ASP A:13 , ASP A:75 , FE A:1310 , MG A:1312 , MN A:1314 , 2PN A:1315 , HOH A:2195
BINDING SITE FOR RESIDUE MN A1313
06
AC6
SOFTWARE
ASP A:15 , ASP A:75 , HIS A:97 , ASP A:149 , FE A:1309 , MN A:1313 , 2PN A:1315 , HOH A:2195
BINDING SITE FOR RESIDUE MN A1314
07
AC7
SOFTWARE
ARG A:38 , GLN A:41
BINDING SITE FOR RESIDUE SO4 A1316
08
AC8
SOFTWARE
HIS B:9 , ASP B:13 , ASP B:75 , FE B:1312 , MG B:1314 , MN B:1317 , 2PN B:1318 , HOH B:2283
BINDING SITE FOR RESIDUE FE B1311
09
AC9
SOFTWARE
ASP B:15 , ASP B:75 , HIS B:97 , ASP B:149 , FE B:1311 , 2PN B:1318 , HOH B:2283
BINDING SITE FOR RESIDUE FE B1312
10
BC1
SOFTWARE
MG B:1314 , 2PN B:1318 , HOH B:2023 , HOH B:2219 , HOH B:2285 , HOH B:2286
BINDING SITE FOR RESIDUE MG B1313
11
BC2
SOFTWARE
ASP B:13 , ASP B:149 , FE B:1311 , MG B:1313 , 2PN B:1318 , HOH B:2187 , HOH B:2283 , HOH B:2285
BINDING SITE FOR RESIDUE MG B1314
12
BC3
SOFTWARE
ASP B:15 , ASP B:75 , HIS B:97 , ASP B:149 , FE B:1311 , 2PN B:1318 , HOH B:2283
BINDING SITE FOR RESIDUE MN B1317
13
BC4
SOFTWARE
ARG B:38 , GLN B:41 , HOH B:2287
BINDING SITE FOR RESIDUE SO4 B1319
14
BC5
SOFTWARE
HIS A:9 , ASP A:13 , ASP A:75 , HIS A:97 , GLN A:98 , ASP A:149 , LYS A:205 , ARG A:295 , LYS A:296 , FE A:1309 , FE A:1310 , MG A:1311 , MG A:1312 , MN A:1313 , MN A:1314 , HOH A:2013 , HOH A:2131 , HOH A:2146 , HOH A:2187 , HOH A:2195 , HOH A:2196 , HOH A:2197 , HOH A:2198 , HOH A:2199
BINDING SITE FOR RESIDUE 2PN A1315
15
BC6
SOFTWARE
TYR B:23 , LYS B:27 , LEU B:30 , PHE B:32 , GLU B:93 , TYR B:110 , ASN B:130 , HOH B:2135
BINDING SITE FOR RESIDUE PG4 B1309
16
BC7
SOFTWARE
MET B:1 , GLU B:2 , LYS B:128 , LYS B:167 , GLU B:168 , GLU B:171 , HOH B:2199
BINDING SITE FOR RESIDUE PG4 B1310
17
BC8
SOFTWARE
HIS B:9 , ASP B:13 , ASP B:75 , HIS B:97 , GLN B:98 , ASP B:149 , LYS B:205 , ARG B:295 , LYS B:296 , FE B:1311 , FE B:1312 , MG B:1313 , MG B:1314 , MN B:1317 , HOH B:2023 , HOH B:2137 , HOH B:2219 , HOH B:2234 , HOH B:2275 , HOH B:2283 , HOH B:2284 , HOH B:2285 , HOH B:2286
BINDING SITE FOR RESIDUE 2PN B1318
18
BC9
SOFTWARE
ASN B:69 , LYS B:133 , GLU B:135 , LYS B:136 , HOH B:2180 , HOH B:2282
BINDING SITE FOR RESIDUE GOL B1315
19
CC1
SOFTWARE
THR B:195 , VAL B:196 , GLU B:197 , ARG B:230 , GLU B:233
BINDING SITE FOR RESIDUE GOL B1316
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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;
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Exons
(0, 0)
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_d2iw4a_ (A:)
1b: SCOP_d2iw4b_ (B:)
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Classes
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(
)
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(
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
DHH phosphoesterases
(11)
Superfamily
:
DHH phosphoesterases
(11)
Family
:
Manganese-dependent inorganic pyrophosphatase (family II)
(9)
Protein domain
:
Manganese-dependent inorganic pyrophosphatase (family II)
(8)
Bacillus subtilis [TaxId: 1423]
(5)
1a
d2iw4a_
A:
1b
d2iw4b_
B:
[
close SCOP info
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2iw4A01 (A:2-189)
1b: CATH_2iw4B01 (B:1-189)
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Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
inorganic pyrophosphatase (n-terminal core)
(10)
Homologous Superfamily
:
inorganic pyrophosphatase (n-terminal core)
(10)
Bacillus subtilis. Organism_taxid: 1423.
(5)
1a
2iw4A01
A:2-189
1b
2iw4B01
B:1-189
[
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Pfam Domains
(0, 0)
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Asymmetric Unit 1
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