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3NN2
Asym. Unit
Info
Asym.Unit (441 KB)
Biol.Unit 1 (431 KB)
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(1)
Title
:
STRUCTURE OF CHLORITE DISMUTASE FROM CANDIDATUS NITROSPIRA DEFLUVII IN COMPLEX WITH CYANIDE
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
:
1.94
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, 41)
Info
All Hetero Components
1a: CYANIDE ION (CYNa)
1b: CYANIDE ION (CYNb)
1c: CYANIDE ION (CYNc)
1d: CYANIDE ION (CYNd)
1e: CYANIDE ION (CYNe)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
2j: GLYCEROL (GOLj)
2k: GLYCEROL (GOLk)
2l: GLYCEROL (GOLl)
2m: GLYCEROL (GOLm)
3a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
3b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
3c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
3d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
3e: PROTOPORPHYRIN IX CONTAINING FE (HEMe)
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)
4p: PHOSPHATE ION (PO4p)
4q: PHOSPHATE ION (PO4q)
4r: PHOSPHATE ION (PO4r)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CYN
5
Ligand/Ion
CYANIDE ION
2
GOL
13
Ligand/Ion
GLYCEROL
3
HEM
5
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
4
PO4
18
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(41, 41)
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)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (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 , LEU A:168 , ARG A:173 , PHE A:186 , PHE A:190 , LEU A:205 , PHE A:211 , PO4 A:240 , CYN A:245 , GOL A:246 , HOH A:290 , HOH A:930
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 , HOH A:256 , HOH A:290 , ARG C:203 , PO4 C:242
BINDING SITE FOR RESIDUE PO4 A 240
03
AC3
SOFTWARE
LYS A:140 , ARG A:215 , ARG A:216 , HOH A:972 , HIS C:219
BINDING SITE FOR RESIDUE PO4 A 241
04
AC4
SOFTWARE
HIS A:219 , LYS E:140 , ARG E:215 , ARG E:216 , HOH E:380
BINDING SITE FOR RESIDUE PO4 A 242
05
AC5
SOFTWARE
ARG A:194 , LEU A:195 , GLU A:196 , HOH A:437 , HOH A:802 , HOH A:985 , TYR E:13
BINDING SITE FOR RESIDUE PO4 A 243
06
AC6
SOFTWARE
HIS A:199 , ARG A:203 , HOH A:902 , LYS E:106 , HIS E:177 , PO4 E:240 , HOH E:256 , HOH E:274
BINDING SITE FOR RESIDUE PO4 A 244
07
AC7
SOFTWARE
HEM A:239 , GOL A:246 , HOH A:614
BINDING SITE FOR RESIDUE CYN A 245
08
AC8
SOFTWARE
ARG A:173 , HEM A:239 , CYN A:245 , HOH A:272 , HOH A:579
BINDING SITE FOR RESIDUE GOL A 246
09
AC9
SOFTWARE
GLN A:46 , LYS A:50 , HOH A:782
BINDING SITE FOR RESIDUE GOL A 247
10
BC1
SOFTWARE
LYS A:41 , PRO A:228 , LEU A:229 , ASP A:230 , HOH A:320 , HOH A:606 , HOH A:728
BINDING SITE FOR RESIDUE GOL A 248
11
BC2
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 , THR B:188 , PHE B:190 , LEU B:205 , PHE B:217 , PO4 B:243 , CYN B:244 , HOH B:302 , HOH B:927
BINDING SITE FOR RESIDUE HEM B 239
12
BC3
SOFTWARE
LYS B:140 , ARG B:215 , ARG B:216 , HOH B:338 , HIS D:219
BINDING SITE FOR RESIDUE PO4 B 240
13
BC4
SOFTWARE
ARG B:194 , LEU B:195 , GLU B:196 , HOH B:456 , HOH B:630 , HOH B:812 , TYR C:13
BINDING SITE FOR RESIDUE PO4 B 241
14
BC5
SOFTWARE
HIS B:199 , ARG B:203 , HOH B:412 , HOH B:532 , LYS C:106 , HIS C:177 , PO4 C:241 , HOH C:257 , HOH C:258
BINDING SITE FOR RESIDUE PO4 B 242
15
BC6
SOFTWARE
THR B:109 , TYR B:110 , TRP B:146 , PHE B:186 , HEM B:239 , HOH B:291 , HOH B:302 , ARG D:203 , PO4 D:240
BINDING SITE FOR RESIDUE PO4 B 243
16
BC7
SOFTWARE
HEM B:239 , GOL B:245 , HOH B:356
BINDING SITE FOR RESIDUE CYN B 244
17
BC8
SOFTWARE
ARG B:173 , CYN B:244 , HOH B:760 , HOH B:929
BINDING SITE FOR RESIDUE GOL B 245
18
BC9
SOFTWARE
GLU B:127 , PRO B:132 , THR B:170 , GLU B:191 , THR B:192 , GLU B:193 , ARG B:194
BINDING SITE FOR RESIDUE GOL B 246
19
CC1
SOFTWARE
ILE A:35 , ARG A:90 , SER B:117 , MET B:118 , GLU B:121 , GLN B:162
BINDING SITE FOR RESIDUE GOL B 247
20
CC2
SOFTWARE
HIS B:219 , HOH B:975 , HOH B:1027 , ASP C:183 , ARG C:216
BINDING SITE FOR RESIDUE GOL B 248
21
CC3
SOFTWARE
PRO C:108 , THR C:109 , TYR C:110 , VAL C:111 , TRP C:145 , MET C:157 , HIS C:160 , THR C:161 , ALA C:164 , LEU C:168 , ARG C:173 , PHE C:186 , THR C:188 , PHE C:190 , LEU C:205 , PHE C:217 , PO4 C:241 , CYN C:243 , GOL C:244 , GOL C:246 , HOH C:303
BINDING SITE FOR RESIDUE HEM C 239
22
CC4
SOFTWARE
HIS B:219 , LYS C:140 , ARG C:215 , HOH C:791 , HOH C:810 , HOH C:919
BINDING SITE FOR RESIDUE PO4 C 240
23
CC5
SOFTWARE
ARG B:203 , PO4 B:242 , THR C:109 , TYR C:110 , TRP C:145 , TRP C:146 , PHE C:186 , HEM C:239 , HOH C:303 , HOH C:313
BINDING SITE FOR RESIDUE PO4 C 241
24
CC6
SOFTWARE
LYS A:106 , HIS A:177 , PHE A:186 , PO4 A:240 , HOH A:267 , HOH A:268 , HIS C:199 , ARG C:203 , HOH C:700
BINDING SITE FOR RESIDUE PO4 C 242
25
CC7
SOFTWARE
HEM C:239 , GOL C:244 , HOH C:307
BINDING SITE FOR RESIDUE CYN C 243
26
CC8
SOFTWARE
ARG C:173 , HEM C:239 , CYN C:243 , GOL C:246
BINDING SITE FOR RESIDUE GOL C 244
27
CC9
SOFTWARE
ASP A:183 , ARG A:216 , HOH A:766 , HIS C:219 , PRO C:220 , HOH C:589
BINDING SITE FOR RESIDUE GOL C 245
28
DC1
SOFTWARE
LYS C:106 , PRO C:108 , LEU C:175 , HIS C:177 , HEM C:239 , GOL C:244 , HOH C:291
BINDING SITE FOR RESIDUE GOL C 246
29
DC2
SOFTWARE
PRO D:108 , THR D:109 , TYR D:110 , VAL D:111 , ILE D:137 , 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 , THR D:188 , PHE D:190 , LEU D:205 , PO4 D:242 , CYN D:244 , GOL D:245 , HOH D:268 , HOH D:573
BINDING SITE FOR RESIDUE HEM D 239
30
DC3
SOFTWARE
LYS B:106 , HIS B:177 , PO4 B:243 , HOH B:273 , HOH B:287 , HIS D:199 , ARG D:203 , HOH D:249 , HOH D:894 , HOH D:986
BINDING SITE FOR RESIDUE PO4 D 240
31
DC4
SOFTWARE
LYS D:140 , ARG D:215 , ARG D:216 , HOH D:267 , HOH D:309 , HIS E:219
BINDING SITE FOR RESIDUE PO4 D 241
32
DC5
SOFTWARE
THR D:109 , TYR D:110 , TRP D:145 , TRP D:146 , PHE D:186 , HEM D:239 , PO4 D:243 , HOH D:248 , HOH D:573 , ARG E:203
BINDING SITE FOR RESIDUE PO4 D 242
33
DC6
SOFTWARE
LYS D:106 , HIS D:177 , PO4 D:242 , HOH D:253 , HOH D:257 , HOH D:631 , HOH D:1023 , HIS E:199 , ARG E:203
BINDING SITE FOR RESIDUE PO4 D 243
34
DC7
SOFTWARE
HEM D:239 , GOL D:245 , HOH D:829
BINDING SITE FOR RESIDUE CYN D 244
35
DC8
SOFTWARE
PRO D:108 , ARG D:173 , LEU D:175 , HEM D:239 , CYN D:244 , HOH D:265 , HOH D:671
BINDING SITE FOR RESIDUE GOL D 245
36
DC9
SOFTWARE
TYR B:13 , THR B:75 , LEU B:76 , TYR D:133 , GLU D:193 , ARG D:194 , LEU D:195
BINDING SITE FOR RESIDUE GOL D 246
37
EC1
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 , LEU E:175 , PHE E:186 , THR E:188 , PHE E:190 , LEU E:201 , LEU E:205 , PHE E:211 , PO4 E:240 , CYN E:242 , HOH E:252 , HOH E:296
BINDING SITE FOR RESIDUE HEM E 239
38
EC2
SOFTWARE
ARG A:203 , PO4 A:244 , THR E:109 , TYR E:110 , TRP E:146 , PHE E:186 , HEM E:239 , HOH E:248 , HOH E:296
BINDING SITE FOR RESIDUE PO4 E 240
39
EC3
SOFTWARE
TYR D:13 , ARG E:194 , LEU E:195 , GLU E:196 , HOH E:732
BINDING SITE FOR RESIDUE PO4 E 241
40
EC4
SOFTWARE
HEM E:239 , GOL E:243 , HOH E:635
BINDING SITE FOR RESIDUE CYN E 242
41
EC5
SOFTWARE
PRO E:108 , ARG E:173 , CYN E:242 , HOH E:645
BINDING SITE FOR RESIDUE GOL E 243
[
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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
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
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CATH Domains
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all CATH domains
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Pfam Domains
(1, 5)
Info
all PFAM domains
1a: PFAM_Chlor_dismutase_3nn2E01 (E:31-224)
1b: PFAM_Chlor_dismutase_3nn2E02 (E:31-224)
1c: PFAM_Chlor_dismutase_3nn2E03 (E:31-224)
1d: PFAM_Chlor_dismutase_3nn2E04 (E:31-224)
1e: PFAM_Chlor_dismutase_3nn2E05 (E:31-224)
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Clan
:
Dim_A_B_barrel
(36)
Family
:
Chlor_dismutase
(6)
Candidatus Nitrospira defluvii
(4)
1a
Chlor_dismutase-3nn2E01
E:31-224
1b
Chlor_dismutase-3nn2E02
E:31-224
1c
Chlor_dismutase-3nn2E03
E:31-224
1d
Chlor_dismutase-3nn2E04
E:31-224
1e
Chlor_dismutase-3nn2E05
E:31-224
[
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