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1QNI
Asym. Unit
Info
Asym.Unit (585 KB)
Biol.Unit 1 (203 KB)
Biol.Unit 2 (194 KB)
Biol.Unit 3 (198 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF NITROUS OXIDE REDUCTASE FROM PSEUDOMONAS NAUTICA, AT 2.4A RESOLUTION
Authors
:
K. Brown, M. Tegoni, C. Cambillau
Date
:
15 Oct 99 (Deposition) - 13 Oct 00 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Keywords
:
Oxidoreductase, Denitrification, Mad, Crystal Structure, Electron Transfer
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Brown, M. Tegoni, M. Prudencio, A. S. Pereira, S. Besson, J. J. Moura, I. Moura, C. Cambillau
A Novel Type Of Catalytic Copper Cluster In Nitrous Oxide Reductase.
Nat. Struct. Biol. V. 7 191 2000
[
close entry info
]
Hetero Components
(4, 30)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
3a: DINUCLEAR COPPER ION (CUAa)
3b: DINUCLEAR COPPER ION (CUAb)
3c: DINUCLEAR COPPER ION (CUAc)
3d: DINUCLEAR COPPER ION (CUAd)
3e: DINUCLEAR COPPER ION (CUAe)
3f: DINUCLEAR COPPER ION (CUAf)
4a: (MU-4-SULFIDO)-TETRA-NUCLEAR COPPE... (CUZa)
4b: (MU-4-SULFIDO)-TETRA-NUCLEAR COPPE... (CUZb)
4c: (MU-4-SULFIDO)-TETRA-NUCLEAR COPPE... (CUZc)
4d: (MU-4-SULFIDO)-TETRA-NUCLEAR COPPE... (CUZd)
4e: (MU-4-SULFIDO)-TETRA-NUCLEAR COPPE... (CUZe)
4f: (MU-4-SULFIDO)-TETRA-NUCLEAR COPPE... (CUZf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
12
Ligand/Ion
CALCIUM ION
2
CL
6
Ligand/Ion
CHLORIDE ION
3
CUA
6
Ligand/Ion
DINUCLEAR COPPER ION
4
CUZ
6
Ligand/Ion
(MU-4-SULFIDO)-TETRA-NUCLEAR COPPER ION
[
close Hetero Component info
]
Sites
(30, 30)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:204 , GLU A:207 , THR A:215 , ASP A:221 , ASN A:268 , HOH A:2172
BINDING SITE FOR RESIDUE CA A 901
02
AC2
SOFTWARE
ARG A:131 , GLY A:271 , LEU A:272 , ASN A:273 , HIS A:325
BINDING SITE FOR RESIDUE CL A 902
03
AC3
SOFTWARE
LYS A:397 , GLU A:412 , HOH A:2235 , HOH A:2236 , HOH B:2288 , HOH B:2309
BINDING SITE FOR RESIDUE CA A 903
04
AC4
SOFTWARE
TYR B:204 , GLU B:207 , THR B:215 , ASP B:221 , ASN B:268
BINDING SITE FOR RESIDUE CA B 901
05
AC5
SOFTWARE
ARG B:131 , ASN B:189 , LEU B:272 , ASN B:273 , HIS B:325
BINDING SITE FOR RESIDUE CL B 902
06
AC6
SOFTWARE
HOH A:2309 , LYS B:397 , GLU B:412 , HOH B:2200 , HOH B:2209 , HOH B:2210
BINDING SITE FOR RESIDUE CA B 903
07
AC7
SOFTWARE
TYR C:204 , GLU C:207 , THR C:215 , ASP C:221 , ASN C:268
BINDING SITE FOR RESIDUE CA C 901
08
AC8
SOFTWARE
ARG C:131 , ASN C:189 , LEU C:272 , ASN C:273 , HIS C:325
BINDING SITE FOR RESIDUE CL C 902
09
AC9
SOFTWARE
LYS C:397 , GLU C:412 , HOH D:2100
BINDING SITE FOR RESIDUE CA C 903
10
BC1
SOFTWARE
TYR D:204 , GLU D:207 , THR D:215 , ASP D:221 , ASN D:268
BINDING SITE FOR RESIDUE CA D 901
11
BC2
SOFTWARE
ARG D:131 , GLY D:271 , LEU D:272 , ASN D:273 , HIS D:325
BINDING SITE FOR RESIDUE CL D 902
12
BC3
SOFTWARE
ASP C:523 , HOH C:2089 , LYS D:397 , GLU D:412 , HOH D:2068
BINDING SITE FOR RESIDUE CA D 903
13
BC4
SOFTWARE
TYR E:204 , GLU E:207 , THR E:215 , ASP E:221 , ASN E:268
BINDING SITE FOR RESIDUE CA E 901
14
BC5
SOFTWARE
ARG E:131 , GLY E:271 , LEU E:272 , ASN E:273 , HIS E:325
BINDING SITE FOR RESIDUE CL E 902
15
BC6
SOFTWARE
LYS E:397 , GLU E:412 , HOH E:2172 , HOH E:2181 , HOH F:2200
BINDING SITE FOR RESIDUE CA E 903
16
BC7
SOFTWARE
TYR F:204 , GLU F:207 , THR F:215 , ASP F:221 , ASN F:268
BINDING SITE FOR RESIDUE CA F 901
17
BC8
SOFTWARE
ARG F:131 , ASN F:189 , GLY F:271 , LEU F:272 , ASN F:273 , HIS F:325
BINDING SITE FOR RESIDUE CL F 902
18
BC9
SOFTWARE
HOH E:2214 , LYS F:397 , GLU F:412 , HOH F:2133
BINDING SITE FOR RESIDUE CA F 903
19
CC1
SOFTWARE
HIS A:526 , CYS A:561 , TRP A:563 , CYS A:565 , HIS A:569 , MET A:572
BINDING SITE FOR RESIDUE CUA A 701
20
CC2
SOFTWARE
HIS A:79 , HIS A:80 , HIS A:128 , HIS A:270 , HIS A:325 , HIS A:376 , HIS A:437 , HOH A:2252
BINDING SITE FOR RESIDUE CUZ A 801
21
CC3
SOFTWARE
HIS B:526 , CYS B:561 , TRP B:563 , CYS B:565 , HIS B:569 , MET B:572
BINDING SITE FOR RESIDUE CUA B 701
22
CC4
SOFTWARE
HIS B:79 , HIS B:80 , HIS B:128 , HIS B:270 , HIS B:325 , HIS B:376 , HIS B:437 , HOH B:2201
BINDING SITE FOR RESIDUE CUZ B 801
23
CC5
SOFTWARE
HIS C:526 , CYS C:561 , TRP C:563 , CYS C:565 , HIS C:569 , MET C:572
BINDING SITE FOR RESIDUE CUA C 701
24
CC6
SOFTWARE
HIS C:79 , HIS C:80 , HIS C:128 , HIS C:270 , HIS C:325 , HIS C:376 , HIS C:437 , HOH C:2060
BINDING SITE FOR RESIDUE CUZ C 801
25
CC7
SOFTWARE
HIS D:526 , CYS D:561 , TRP D:563 , CYS D:565 , HIS D:569 , MET D:572
BINDING SITE FOR RESIDUE CUA D 701
26
CC8
SOFTWARE
HOH C:2036 , HIS D:79 , HIS D:80 , HIS D:128 , HIS D:270 , HIS D:325 , HIS D:376 , HIS D:437 , HOH D:2064
BINDING SITE FOR RESIDUE CUZ D 801
27
CC9
SOFTWARE
HIS E:526 , CYS E:561 , TRP E:563 , CYS E:565 , HIS E:569 , MET E:572
BINDING SITE FOR RESIDUE CUA E 701
28
DC1
SOFTWARE
HIS E:79 , HIS E:80 , HIS E:128 , HIS E:270 , HIS E:325 , HIS E:376 , HIS E:437 , HOH E:2171
BINDING SITE FOR RESIDUE CUZ E 801
29
DC2
SOFTWARE
HIS F:526 , CYS F:561 , TRP F:563 , CYS F:565 , HIS F:569 , MET F:572
BINDING SITE FOR RESIDUE CUA F 701
30
DC3
SOFTWARE
HIS F:79 , HIS F:80 , HIS F:128 , ASN F:189 , HIS F:270 , HIS F:325 , HIS F:376 , HIS F:437 , HOH F:2042 , HOH F:2094 , HOH F:2144
BINDING SITE FOR RESIDUE CUZ F 801
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
View:
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Label:
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
(2, 12)
Info
All SCOP Domains
1a: SCOP_d1qnia2 (A:10-450)
1b: SCOP_d1qnib2 (B:10-450)
1c: SCOP_d1qnic2 (C:10-450)
1d: SCOP_d1qnid2 (D:10-450)
1e: SCOP_d1qnie2 (E:10-450)
1f: SCOP_d1qnif2 (F:10-450)
2a: SCOP_d1qnia1 (A:451-581)
2b: SCOP_d1qnib1 (B:451-581)
2c: SCOP_d1qnic1 (C:451-581)
2d: SCOP_d1qnid1 (D:451-581)
2e: SCOP_d1qnie1 (E:451-581)
2f: SCOP_d1qnif1 (F:451-581)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
7-bladed beta-propeller
(245)
Superfamily
:
Nitrous oxide reductase, N-terminal domain
(7)
Family
:
Nitrous oxide reductase, N-terminal domain
(7)
Protein domain
:
Nitrous oxide reductase, N-terminal domain
(2)
Pseudomonas nautica [TaxId: 2743]
(1)
1a
d1qnia2
A:10-450
1b
d1qnib2
B:10-450
1c
d1qnic2
C:10-450
1d
d1qnid2
D:10-450
1e
d1qnie2
E:10-450
1f
d1qnif2
F:10-450
Fold
:
Cupredoxin-like
(545)
Superfamily
:
Cupredoxins
(543)
Family
:
Nitrosocyanin
(5)
Protein domain
:
Nitrous oxide reductase, C-terminal domain
(2)
Pseudomonas nautica [TaxId: 2743]
(1)
2a
d1qnia1
A:451-581
2b
d1qnib1
B:451-581
2c
d1qnic1
C:451-581
2d
d1qnid1
D:451-581
2e
d1qnie1
E:451-581
2f
d1qnif1
F:451-581
[
close SCOP info
]
CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_1qniF01 (F:11-449)
1b: CATH_1qniA01 (A:10-460)
1c: CATH_1qniB01 (B:10-460)
1d: CATH_1qniC01 (C:10-460)
1e: CATH_1qniD01 (D:10-460)
1f: CATH_1qniE01 (E:10-460)
2a: CATH_1qniF02 (F:450-579)
2b: CATH_1qniA02 (A:461-580)
2c: CATH_1qniB02 (B:461-580)
2d: CATH_1qniC02 (C:461-580)
2e: CATH_1qniD02 (D:461-580)
2f: CATH_1qniE02 (E:461-580)
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)
(
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Architectures
(
)
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Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
7 Propellor
(136)
Topology
:
Methylamine Dehydrogenase; Chain H
(136)
Homologous Superfamily
:
YVTN repeat-like/Quinoprotein amine dehydrogenase
(76)
Pseudomonas nautica. Organism_taxid: 2743.
(1)
1a
1qniF01
F:11-449
1b
1qniA01
A:10-460
1c
1qniB01
B:10-460
1d
1qniC01
C:10-460
1e
1qniD01
D:10-460
1f
1qniE01
E:10-460
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Cupredoxins - blue copper proteins
(420)
Pseudomonas nautica. Organism_taxid: 2743.
(1)
2a
1qniF02
F:450-579
2b
1qniA02
A:461-580
2c
1qniB02
B:461-580
2d
1qniC02
C:461-580
2e
1qniD02
D:461-580
2f
1qniE02
E:461-580
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_COX2_1qniF01 (F:497-579)
1b: PFAM_COX2_1qniF02 (F:497-579)
1c: PFAM_COX2_1qniF03 (F:497-579)
1d: PFAM_COX2_1qniF04 (F:497-579)
1e: PFAM_COX2_1qniF05 (F:497-579)
1f: PFAM_COX2_1qniF06 (F:497-579)
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Clans
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Organisms
(
)
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)
Clan
:
CU_oxidase
(192)
Family
:
COX2
(19)
Marinobacter hydrocarbonoclasticus (Pseudomonas nautica)
(1)
1a
COX2-1qniF01
F:497-579
1b
COX2-1qniF02
F:497-579
1c
COX2-1qniF03
F:497-579
1d
COX2-1qniF04
F:497-579
1e
COX2-1qniF05
F:497-579
1f
COX2-1qniF06
F:497-579
[
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]
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Asym.Unit (585 KB)
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