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2AHJ
Asym. Unit
Info
Asym.Unit (150 KB)
Biol.Unit 1 (144 KB)
Biol.Unit 2 (284 KB)
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(1)
Title
:
NITRILE HYDRATASE COMPLEXED WITH NITRIC OXIDE
Authors
:
S. Nagashima, M. Nakasako, N. Dohmae, M. Tsujimura, K. Takio, M. Odaka, M. Yohda, N. Kamiya, I. Endo
Date
:
24 Dec 97 (Deposition) - 27 Jan 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: A,B,C,D (2x)
Keywords
:
Lyase, Photoreactive Enzyme, Nitric Oxide Binding Enzyme, Non-Heme Iron Center, Post-Translational Modification Of Cysteine Residues, Hydratase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Nagashima, M. Nakasako, N. Dohmae, M. Tsujimura, K. Takio, M. Odaka, M. Yohda, N. Kamiya, I. Endo
Novel Non-Heme Iron Center Of Nitrile Hydratase With A Claw Setting Of Oxygen Atoms.
Nat. Struct. Biol. V. 5 347 1998
(for further references see the
PDB file header
)
[
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]
Hetero Components
(7, 15)
Info
All Hetero Components
1a: 3-SULFINOALANINE (CSDa)
1b: 3-SULFINOALANINE (CSDb)
2a: S-HYDROXYCYSTEINE (CSOa)
2b: S-HYDROXYCYSTEINE (CSOb)
3a: 1,4-DIETHYLENE DIOXIDE (DIOa)
3b: 1,4-DIETHYLENE DIOXIDE (DIOb)
4a: FE (III) ION (FEa)
4b: FE (III) ION (FEb)
5a: NITRIC OXIDE (NOa)
5b: NITRIC OXIDE (NOb)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
7a: ZINC ION (ZNa)
7b: ZINC ION (ZNb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CSD
2
Mod. Amino Acid
3-SULFINOALANINE
2
CSO
2
Mod. Amino Acid
S-HYDROXYCYSTEINE
3
DIO
2
Ligand/Ion
1,4-DIETHYLENE DIOXIDE
4
FE
2
Ligand/Ion
FE (III) ION
5
NO
2
Ligand/Ion
NITRIC OXIDE
6
SO4
3
Ligand/Ion
SULFATE ION
7
ZN
2
Ligand/Ion
ZINC ION
[
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]
Sites
(13, 13)
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: CTA (UNKNOWN)
13: CTB (UNKNOWN)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
CYS A:109 , CSD A:112 , SER A:113 , CSO A:114 , NO A:301
BINDING SITE FOR RESIDUE FE A 300
02
AC2
SOFTWARE
HIS B:29 , HIS C:6 , HOH C:394 , GLU D:31
BINDING SITE FOR RESIDUE ZN C 303
03
AC3
SOFTWARE
CYS C:109 , CSD C:112 , SER C:113 , CSO C:114 , NO C:301
BINDING SITE FOR RESIDUE FE C 300
04
AC4
SOFTWARE
HIS A:6 , HOH A:387 , HOH A:460 , GLU B:31 , HIS D:29
BINDING SITE FOR RESIDUE ZN A 303
05
AC5
SOFTWARE
ARG B:107 , GLY D:14 , LYS D:15 , HOH D:461 , HOH D:462 , HOH D:486
BINDING SITE FOR RESIDUE SO4 D 304
06
AC6
SOFTWARE
SER A:182 , GLN A:183 , ARG D:128 , THR D:152 , HOH D:309 , HOH D:414
BINDING SITE FOR RESIDUE SO4 A 305
07
AC7
SOFTWARE
GLY B:14 , LYS B:15 , HOH B:410 , ARG D:107
BINDING SITE FOR RESIDUE SO4 B 306
08
AC8
SOFTWARE
CSD A:112 , SER A:113 , CSO A:114 , FE A:300 , DIO B:302
BINDING SITE FOR RESIDUE NO A 301
09
AC9
SOFTWARE
TRP A:117 , NO A:301 , TYR B:37 , VAL B:52 , ARG B:56 , TYR B:76
BINDING SITE FOR RESIDUE DIO B 302
10
BC1
SOFTWARE
CSD C:112 , SER C:113 , CSO C:114 , FE C:300 , DIO D:302
BINDING SITE FOR RESIDUE NO C 301
11
BC2
SOFTWARE
NO C:301 , TYR D:37 , VAL D:52 , TYR D:76
BINDING SITE FOR RESIDUE DIO D 302
12
CTA
UNKNOWN
CYS A:109 , CSD A:112 , SER A:113 , CSO A:114
NON-HEME IRON CENTER AND CATALYTIC SITE IN CHAIN A
13
CTB
UNKNOWN
CYS C:109 , CSD C:112 , SER C:113 , CSO C:114
NON-HEME IRON CENTER AND CATALYTIC SITE IN CHAIN C
[
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]
SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_NHAB_RHOER_001 (M40V, chain B/D, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_NHAB_RHOER_001
*
M
40
V
NHAB_RHOER
---
---
B/D
M
40
V
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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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, 4)
Info
All SCOP Domains
1a: SCOP_d2ahjb_ (B:)
1b: SCOP_d2ahjd_ (D:)
2a: SCOP_d2ahja_ (A:)
2b: SCOP_d2ahjc_ (C:)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
SH3-like barrel
(1035)
Superfamily
:
Electron transport accessory proteins
(58)
Family
:
Nitrile hydratase beta chain
(30)
Protein domain
:
Iron-containing nitrile hydratase
(21)
Rhodococcus erythropolis [TaxId: 1833]
(21)
1a
d2ahjb_
B:
1b
d2ahjd_
D:
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Nitrile hydratase alpha chain
(36)
Superfamily
:
Nitrile hydratase alpha chain
(36)
Family
:
Nitrile hydratase alpha chain
(35)
Protein domain
:
Iron-containing nitrile hydratase
(3)
Rhodococcus erythropolis [TaxId: 1833]
(3)
2a
d2ahja_
A:
2b
d2ahjc_
C:
[
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CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_2ahjC00 (C:4-203)
1b: CATH_2ahjA00 (A:4-203)
2a: CATH_2ahjB01 (B:1-110)
2b: CATH_2ahjD01 (D:1-110)
3a: CATH_2ahjB02 (B:111-211)
3b: CATH_2ahjD02 (D:111-212)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Nitrile Hydratase; Chain A
(34)
Homologous Superfamily
:
Nitrile Hydratase; Chain A
(34)
Rhodococcus erythropolis. Organism_taxid: 1833. Strain: sp. N-771.
(1)
1a
2ahjC00
C:4-203
1b
2ahjA00
A:4-203
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Cyclin A; domain 1
(136)
Homologous Superfamily
:
[code=1.10.472.20, no name defined]
(29)
Rhodococcus erythropolis. Organism_taxid: 1833. Strain: sp. N-771.
(1)
2a
2ahjB01
B:1-110
2b
2ahjD01
D:1-110
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
SH3 type barrels.
(648)
Homologous Superfamily
:
[code=2.30.30.50, no name defined]
(46)
Rhodococcus erythropolis. Organism_taxid: 1833. Strain: sp. N-771.
(1)
3a
2ahjB02
B:111-211
3b
2ahjD02
D:111-212
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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