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2DD4
Asym. Unit
Info
Asym.Unit (369 KB)
Biol.Unit 1 (362 KB)
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(1)
Title
:
THIOCYANATE HYDROLASE (SCNASE) FROM THIOBACILLUS THIOPARUS RECOMBINANT APO-ENZYME
Authors
:
T. Arakawa, Y. Kawano, S. Kataoka, Y. Katayama, N. Kamiya, M. Yohda, M. Odaka
Date
:
19 Jan 06 (Deposition) - 30 Jan 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.06
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L (1x)
Keywords
:
Hydrolase, Cobalt, Metalloprotein, Sulfenic Acid, Sulfinic Acid, Nitrile Hydratase, Thiocyanate, Carbonyl Sulfide, Claw Setting, Protein, Enzyme, Complex, Model Complex, Non- Corrin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Arakawa, Y. Kawano, S. Kataoka, Y. Katayama, N. Kamiya, M. Yohda, M. Odaka
Structure Of Thiocyanate Hydrolase: A New Nitrile Hydratase Family Protein With A Novel Five-Coordinate Cobalt(Iii) Center.
J. Mol. Biol. V. 366 1497 2007
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 16)
Info
All Hetero Components
1a: FRUCTOSE (FRUa)
1b: FRUCTOSE (FRUb)
1c: FRUCTOSE (FRUc)
1d: FRUCTOSE (FRUd)
1e: FRUCTOSE (FRUe)
1f: FRUCTOSE (FRUf)
1g: FRUCTOSE (FRUg)
1h: FRUCTOSE (FRUh)
2a: D(-)-TARTARIC ACID (TARa)
2b: D(-)-TARTARIC ACID (TARb)
2c: D(-)-TARTARIC ACID (TARc)
2d: D(-)-TARTARIC ACID (TARd)
2e: D(-)-TARTARIC ACID (TARe)
2f: D(-)-TARTARIC ACID (TARf)
2g: D(-)-TARTARIC ACID (TARg)
2h: D(-)-TARTARIC ACID (TARh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FRU
8
Ligand/Ion
FRUCTOSE
2
TAR
8
Ligand/Ion
D(-)-TARTARIC ACID
[
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Sites
(16, 16)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HOH A:401 , ARG C:157 , HOH C:3538 , HOH C:3572 , HOH C:3658 , HOH C:3727 , HIS E:10 , LEU E:13 , HOH E:208
BINDING SITE FOR RESIDUE FRU C 3001
02
AC2
SOFTWARE
HIS B:10 , LEU B:13 , GLY B:14 , HOH B:3019 , HOH B:3049 , HOH B:3054 , HOH B:3061 , GLY E:52 , ARG F:157
BINDING SITE FOR RESIDUE FRU B 3002
03
AC3
SOFTWARE
HOH G:138 , ARG I:157 , HIS K:10 , LEU K:13 , HOH K:3081 , HOH K:3090 , HOH K:3099 , HOH K:3164
BINDING SITE FOR RESIDUE FRU K 3003
04
AC4
SOFTWARE
HIS H:10 , GLY H:14 , HOH H:3022 , HOH H:3034 , HOH H:3052 , HOH H:3077 , HOH H:3093 , HOH H:3125 , HOH H:3171 , GLY K:52 , ARG L:157
BINDING SITE FOR RESIDUE FRU H 3004
05
AC5
SOFTWARE
PHE A:52 , PRO B:47 , CYS B:96 , ASP B:97 , ASP K:97 , VAL K:98 , ARG K:118 , HOH K:3013 , HOH K:3014 , HOH K:3051 , HOH K:3074 , HOH K:3076
BINDING SITE FOR RESIDUE FRU K 3005
06
AC6
SOFTWARE
PHE D:52 , HOH D:128 , ARG E:45 , CYS E:96 , ASP E:97 , HOH E:164 , HOH E:219 , ASP H:97 , VAL H:98 , VAL H:102 , ARG H:118 , HOH H:3020 , HOH H:3040 , HOH H:3056
BINDING SITE FOR RESIDUE FRU H 3006
07
AC7
SOFTWARE
ASP E:97 , VAL E:98 , VAL E:102 , ARG E:118 , PHE G:52 , TYR H:43 , ARG H:45 , CYS H:96 , ASP H:97 , GLY H:99 , HOH H:3011 , HOH H:3017 , HOH H:3030 , HOH H:3058 , HOH H:3116
BINDING SITE FOR RESIDUE FRU H 3007
08
AC8
SOFTWARE
ASP B:97 , VAL B:98 , ARG B:118 , HOH B:3027 , HOH B:3046 , HOH B:3081 , PHE J:52 , PRO K:47 , CYS K:96 , ASP K:97 , GLY K:99 , HOH K:3068 , HOH K:3119
BINDING SITE FOR RESIDUE FRU B 3008
09
AC9
SOFTWARE
ARG B:90 , ARG B:91 , GLN B:94 , ASN B:95 , TYR B:108 , TRP B:112 , SER C:108 , CYS C:131 , SER C:132 , CYS C:133 , ARG C:136 , HOH C:3509 , HOH C:3520
BINDING SITE FOR RESIDUE TAR C 3401
10
BC1
SOFTWARE
VAL A:68 , HOH A:268 , ARG C:177 , HOH C:3573 , HOH C:3591 , HOH C:3593 , HOH C:3625 , HOH C:3666 , HOH C:3699 , HOH C:3736
BINDING SITE FOR RESIDUE TAR C 3501
11
BC2
SOFTWARE
ARG E:90 , ARG E:91 , GLN E:94 , ASN E:95 , TYR E:108 , TRP E:112 , SER F:108 , CYS F:131 , SER F:132 , CYS F:133 , ARG F:136 , HOH F:4506 , HOH F:4515
BINDING SITE FOR RESIDUE TAR F 4401
12
BC3
SOFTWARE
VAL D:68 , ARG F:177 , HOH F:4531 , HOH F:4574 , HOH F:4575 , HOH F:4584 , HOH F:4597 , HOH F:4602 , HOH F:4622
BINDING SITE FOR RESIDUE TAR F 4501
13
BC4
SOFTWARE
ARG H:90 , ARG H:91 , GLN H:94 , ASN H:95 , TYR H:108 , TRP H:112 , SER I:108 , CYS I:131 , SER I:132 , CYS I:133 , ARG I:136 , HOH I:5536 , HOH I:5564
BINDING SITE FOR RESIDUE TAR I 5401
14
BC5
SOFTWARE
VAL G:68 , HOH G:188 , ARG I:177 , HOH I:5555 , HOH I:5616 , HOH I:5637 , HOH I:5640 , HOH I:5646 , HOH I:5655
BINDING SITE FOR RESIDUE TAR I 5501
15
BC6
SOFTWARE
ARG K:90 , ARG K:91 , GLN K:94 , ASN K:95 , TYR K:108 , TRP K:112 , SER L:108 , CYS L:131 , SER L:132 , CYS L:133 , ARG L:136 , HOH L:6503 , HOH L:6537
BINDING SITE FOR RESIDUE TAR L 6401
16
BC7
SOFTWARE
VAL J:68 , HOH J:169 , ARG L:177 , HOH L:6544 , HOH L:6584 , HOH L:6627 , HOH L:6648 , HOH L:6650 , HOH L:6710
BINDING SITE FOR RESIDUE TAR L 6501
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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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
(0, 0)
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2dd4F00 (F:24-239)
1b: CATH_2dd4L00 (L:24-239)
1c: CATH_2dd4C00 (C:23-239)
1d: CATH_2dd4I00 (I:23-239)
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Nitrile Hydratase; Chain A
(34)
Homologous Superfamily
:
Nitrile Hydratase; Chain A
(34)
Thiobacillus thioparus. Organism_taxid: 931. Strain: thi115.
(3)
1a
2dd4F00
F:24-239
1b
2dd4L00
L:24-239
1c
2dd4C00
C:23-239
1d
2dd4I00
I:23-239
[
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]
Pfam Domains
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Atom Selection
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Protein & NOT Site
Protein & NOT PROSITE
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Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Chain K
Chain L
Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (369 KB)
Header - Asym.Unit
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Header - Biol.Unit 1
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