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3NN1
Asym. Unit
Info
Asym.Unit (459 KB)
Biol.Unit 1 (449 KB)
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(1)
Title
:
STRUCTURE OF CHLORITE DISMUTASE FROM CANDIDATUS NITROSPIRA DEFLUVII IN COMPLEX WITH IMIDAZOLE
Authors
:
J. Kostan, B. Sjoeblom, F. Maixner, G. Mlynek, P. G. Furtmueller, C. Obi M. Wagner, H. Daims, K. Djinovic-Carugo
Date
:
23 Jun 10 (Deposition) - 28 Jul 10 (Release) - 10 Nov 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (1x)
Keywords
:
Ferredoxin Like Fold, Chlorite Dismutation, Periplasmatic, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Kostan, B. Sjoeblom, F. Maixner, G. Mlynek, P. G. Furtmueller, C. Obinger, M. Wagner, H. Daims, K. Djinovic-Carugo
Structural And Functional Characterisation Of The Chlorite Dismutase From The Nitrite-Oxidizing Bacterium "Candidatus Nitrospira Defluvii": Identification Of A Catalytically Important Amino Acid Residue
J. Struct. Biol. V. 172 331 2010
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Hetero Components
(4, 34)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
2a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
2b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
2c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
2d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
2e: PROTOPORPHYRIN IX CONTAINING FE (HEMe)
3a: IMIDAZOLE (IMDa)
3b: IMIDAZOLE (IMDb)
3c: IMIDAZOLE (IMDc)
3d: IMIDAZOLE (IMDd)
3e: IMIDAZOLE (IMDe)
4a: PHOSPHATE ION (PO4a)
4b: PHOSPHATE ION (PO4b)
4c: PHOSPHATE ION (PO4c)
4d: PHOSPHATE ION (PO4d)
4e: PHOSPHATE ION (PO4e)
4f: PHOSPHATE ION (PO4f)
4g: PHOSPHATE ION (PO4g)
4h: PHOSPHATE ION (PO4h)
4i: PHOSPHATE ION (PO4i)
4j: PHOSPHATE ION (PO4j)
4k: PHOSPHATE ION (PO4k)
4l: PHOSPHATE ION (PO4l)
4m: PHOSPHATE ION (PO4m)
4n: PHOSPHATE ION (PO4n)
4o: PHOSPHATE ION (PO4o)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
2
HEM
5
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
3
IMD
5
Ligand/Ion
IMIDAZOLE
4
PO4
15
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(34, 34)
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)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO A:108 , THR A:109 , TYR A:110 , VAL A:111 , ILE A:139 , TRP A:145 , MET A:157 , HIS A:160 , THR A:161 , ALA A:164 , ARG A:173 , PHE A:186 , PHE A:190 , LEU A:205 , PHE A:217 , PO4 A:240 , IMD A:243 , HOH A:756 , HOH A:865
BINDING SITE FOR RESIDUE HEM A 239
02
AC2
SOFTWARE
THR A:109 , TYR A:110 , TRP A:146 , PHE A:186 , HEM A:239 , PO4 A:241 , HOH A:756 , HOH A:799 , ARG C:203
BINDING SITE FOR RESIDUE PO4 A 240
03
AC3
SOFTWARE
LYS A:106 , HIS A:177 , PHE A:186 , PO4 A:240 , HOH A:519 , HOH A:779 , HIS C:199 , ARG C:203
BINDING SITE FOR RESIDUE PO4 A 241
04
AC4
SOFTWARE
ARG A:215 , ARG A:216 , HOH A:409 , HOH A:600 , HIS C:219
BINDING SITE FOR RESIDUE PO4 A 242
05
AC5
SOFTWARE
LYS A:174 , LEU A:175 , HEM A:239 , EDO A:244 , EDO A:245
BINDING SITE FOR RESIDUE IMD A 243
06
AC6
SOFTWARE
ARG A:173 , IMD A:243 , EDO A:245 , HOH A:723
BINDING SITE FOR RESIDUE EDO A 244
07
AC7
SOFTWARE
ARG A:173 , LYS A:174 , LEU A:175 , IMD A:243 , EDO A:244 , HOH A:767
BINDING SITE FOR RESIDUE EDO A 245
08
AC8
SOFTWARE
PRO B:108 , THR B:109 , TYR B:110 , VAL B:111 , ILE B:139 , TRP B:145 , MET B:157 , HIS B:160 , THR B:161 , ALA B:164 , TYR B:167 , LEU B:168 , ARG B:173 , PHE B:186 , PHE B:190 , LEU B:205 , PHE B:211 , PO4 B:241 , IMD B:243 , EDO B:245 , HOH B:494
BINDING SITE FOR RESIDUE HEM B 239
09
AC9
SOFTWARE
HIS B:199 , ARG B:203 , HOH B:485 , HOH B:542 , LYS C:106 , HIS C:177 , PHE C:186 , PO4 C:240
BINDING SITE FOR RESIDUE PO4 B 240
10
BC1
SOFTWARE
THR B:109 , TYR B:110 , TRP B:146 , PHE B:186 , HEM B:239 , HOH B:262 , HOH B:494 , ARG D:203 , PO4 D:240
BINDING SITE FOR RESIDUE PO4 B 241
11
BC2
SOFTWARE
LYS B:140 , ARG B:215 , ARG B:216 , HOH B:603 , HIS D:219
BINDING SITE FOR RESIDUE PO4 B 242
12
BC3
SOFTWARE
LYS B:174 , LEU B:175 , HEM B:239 , EDO B:244
BINDING SITE FOR RESIDUE IMD B 243
13
BC4
SOFTWARE
ARG B:173 , LYS B:174 , LEU B:175 , IMD B:243 , EDO B:245 , HOH B:762
BINDING SITE FOR RESIDUE EDO B 244
14
BC5
SOFTWARE
LYS B:106 , HIS B:177 , HEM B:239 , EDO B:244 , HOH B:260 , HOH B:673 , HOH B:904
BINDING SITE FOR RESIDUE EDO B 245
15
BC6
SOFTWARE
PRO C:108 , THR C:109 , TYR C:110 , VAL C:111 , ILE C:139 , LYS C:141 , TRP C:145 , MET C:157 , HIS C:160 , THR C:161 , ALA C:164 , LEU C:168 , ARG C:173 , PHE C:186 , PHE C:190 , LEU C:205 , PHE C:217 , PO4 C:240 , IMD C:242 , HOH C:668 , HOH C:898
BINDING SITE FOR RESIDUE HEM C 239
16
BC7
SOFTWARE
ARG B:203 , PO4 B:240 , THR C:109 , TYR C:110 , TRP C:145 , TRP C:146 , PHE C:186 , HEM C:239 , HOH C:301 , HOH C:668
BINDING SITE FOR RESIDUE PO4 C 240
17
BC8
SOFTWARE
HIS B:219 , LYS C:140 , ARG C:215 , ARG C:216 , HOH C:797
BINDING SITE FOR RESIDUE PO4 C 241
18
BC9
SOFTWARE
LYS C:174 , LEU C:175 , HEM C:239 , EDO C:243 , EDO C:244
BINDING SITE FOR RESIDUE IMD C 242
19
CC1
SOFTWARE
ARG C:173 , LYS C:174 , LEU C:175 , IMD C:242 , EDO C:244 , HOH C:514
BINDING SITE FOR RESIDUE EDO C 243
20
CC2
SOFTWARE
LEU C:122 , ARG C:173 , IMD C:242 , EDO C:243
BINDING SITE FOR RESIDUE EDO C 244
21
CC3
SOFTWARE
PRO D:108 , THR D:109 , TYR D:110 , VAL D:111 , ILE D:139 , TRP D:145 , MET D:157 , HIS D:160 , THR D:161 , ALA D:164 , LEU D:168 , ARG D:173 , PHE D:186 , PHE D:190 , LEU D:205 , PO4 D:241 , IMD D:243 , HOH D:459 , HOH D:870
BINDING SITE FOR RESIDUE HEM D 239
22
CC4
SOFTWARE
LYS B:106 , HIS B:177 , PO4 B:241 , HIS D:199 , ARG D:203 , HOH D:495 , HOH D:522
BINDING SITE FOR RESIDUE PO4 D 240
23
CC5
SOFTWARE
THR D:109 , TYR D:110 , TRP D:145 , TRP D:146 , PHE D:186 , HEM D:239 , HOH D:269 , HOH D:870 , ARG E:203 , PO4 E:241
BINDING SITE FOR RESIDUE PO4 D 241
24
CC6
SOFTWARE
LYS D:140 , ARG D:215 , ARG D:216 , HOH D:824 , HIS E:219
BINDING SITE FOR RESIDUE PO4 D 242
25
CC7
SOFTWARE
ARG D:173 , LYS D:174 , LEU D:175 , HEM D:239 , EDO D:244
BINDING SITE FOR RESIDUE IMD D 243
26
CC8
SOFTWARE
ARG D:173 , LYS D:174 , LEU D:175 , IMD D:243 , HOH D:994
BINDING SITE FOR RESIDUE EDO D 244
27
CC9
SOFTWARE
PRO E:108 , THR E:109 , TYR E:110 , VAL E:111 , ILE E:139 , TRP E:145 , MET E:157 , HIS E:160 , THR E:161 , ALA E:164 , LEU E:168 , ARG E:173 , PHE E:186 , PHE E:190 , LEU E:205 , PHE E:217 , PO4 E:240 , IMD E:244 , EDO E:245 , HOH E:500 , HOH E:643
BINDING SITE FOR RESIDUE HEM E 239
28
DC1
SOFTWARE
ARG A:203 , THR E:109 , TYR E:110 , TRP E:145 , TRP E:146 , PHE E:186 , HEM E:239 , PO4 E:242 , HOH E:643 , HOH E:803
BINDING SITE FOR RESIDUE PO4 E 240
29
DC2
SOFTWARE
LYS D:106 , HIS D:177 , PHE D:186 , PO4 D:241 , HIS E:199 , ARG E:203 , HOH E:526 , HOH E:577
BINDING SITE FOR RESIDUE PO4 E 241
30
DC3
SOFTWARE
HIS A:199 , ARG A:203 , LYS E:106 , HIS E:177 , PHE E:186 , PO4 E:240 , HOH E:515 , HOH E:585
BINDING SITE FOR RESIDUE PO4 E 242
31
DC4
SOFTWARE
HIS A:219 , LYS E:140 , ARG E:215 , ARG E:216 , HOH E:284 , HOH E:714
BINDING SITE FOR RESIDUE PO4 E 243
32
DC5
SOFTWARE
LYS E:174 , LEU E:175 , HEM E:239 , EDO E:245 , EDO E:246
BINDING SITE FOR RESIDUE IMD E 244
33
DC6
SOFTWARE
ARG E:173 , HEM E:239 , IMD E:244 , EDO E:246 , HOH E:282
BINDING SITE FOR RESIDUE EDO E 245
34
DC7
SOFTWARE
LYS E:174 , LEU E:175 , IMD E:244 , EDO E:245 , HOH E:290 , HOH E:440
BINDING SITE FOR RESIDUE EDO E 246
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Label:
Sorry, no Info available
[
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Pfam Domains
(1, 5)
Info
all PFAM domains
1a: PFAM_Chlor_dismutase_3nn1E01 (E:31-224)
1b: PFAM_Chlor_dismutase_3nn1E02 (E:31-224)
1c: PFAM_Chlor_dismutase_3nn1E03 (E:31-224)
1d: PFAM_Chlor_dismutase_3nn1E04 (E:31-224)
1e: PFAM_Chlor_dismutase_3nn1E05 (E:31-224)
View:
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Clans
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Families
(
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(
)
Organisms
(
)
(
)
Clan
:
Dim_A_B_barrel
(36)
Family
:
Chlor_dismutase
(6)
Candidatus Nitrospira defluvii
(4)
1a
Chlor_dismutase-3nn1E01
E:31-224
1b
Chlor_dismutase-3nn1E02
E:31-224
1c
Chlor_dismutase-3nn1E03
E:31-224
1d
Chlor_dismutase-3nn1E04
E:31-224
1e
Chlor_dismutase-3nn1E05
E:31-224
[
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