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3MM8
Asym. Unit
Info
Asym.Unit (271 KB)
Biol.Unit 1 (260 KB)
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(1)
Title
:
DISSIMILATORY SULFITE REDUCTASE NITRATE COMPLEX
Authors
:
K. Parey, E. Warkentin, P. M. H. Kroneck, U. Ermler
Date
:
19 Apr 10 (Deposition) - 21 Jul 10 (Release) - 06 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.28
Chains
:
Asym. Unit : A,B,D,E
Biol. Unit 1: A,B,D,E (1x)
Keywords
:
Alpha-Beta-Protein, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
K. Parey, E. Warkentin, P. M. Kroneck, U. Ermler
Reaction Cycle Of The Dissimilatory Sulfite Reductase From Archaeoglobus Fulgidus.
Biochemistry V. 49 8912 2010
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Hetero Components
(3, 13)
Info
All Hetero Components
1a: NITRATE ION (NO3a)
2a: IRON/SULFUR CLUSTER (SF4a)
2b: IRON/SULFUR CLUSTER (SF4b)
2c: IRON/SULFUR CLUSTER (SF4c)
2d: IRON/SULFUR CLUSTER (SF4d)
2e: IRON/SULFUR CLUSTER (SF4e)
2f: IRON/SULFUR CLUSTER (SF4f)
2g: IRON/SULFUR CLUSTER (SF4g)
2h: IRON/SULFUR CLUSTER (SF4h)
3a: SIROHEME (SRMa)
3b: SIROHEME (SRMb)
3c: SIROHEME (SRMc)
3d: SIROHEME (SRMd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
NO3
1
Ligand/Ion
NITRATE ION
2
SF4
8
Ligand/Ion
IRON/SULFUR CLUSTER
3
SRM
4
Ligand/Ion
SIROHEME
[
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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: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:80 , ARG A:98 , GLY A:131 , SER A:132 , THR A:133 , GLY A:134 , ASP A:135 , TYR A:210 , LYS A:211 , LYS A:213 , LYS A:215 , ARG A:229 , LYS A:314 , ALA A:315 , PHE A:317 , ARG A:358 , ARG A:360 , NO3 A:590 , ARG B:60 , GLN B:135 , HIS B:139 , HIS B:141 , THR B:142 , ASN B:180 , CYS B:182 , GLY B:183 , THR B:249 , SF4 B:585
BINDING SITE FOR RESIDUE SRM A 580
02
AC2
SOFTWARE
CYS A:175 , MET A:176 , CYS A:181 , ALA A:184 , GLY A:218 , CYS A:219 , ASN A:221 , ASP A:222 , CYS A:223 , SRM B:570
BINDING SITE FOR RESIDUE SF4 A 575
03
AC3
SOFTWARE
CYS A:266 , THR A:268 , CYS A:285 , VAL A:286 , ARG A:287 , CYS A:288 , MET A:289 , CYS A:291
BINDING SITE FOR RESIDUE SF4 A 576
04
AC4
SOFTWARE
ARG A:98 , ARG A:170 , LYS A:211 , LYS A:213 , SRM A:580
BINDING SITE FOR RESIDUE NO3 A 590
05
AC5
SOFTWARE
SRM A:580 , THR B:134 , GLN B:135 , CYS B:140 , PRO B:143 , CYS B:177 , CYS B:178 , ASN B:180 , CYS B:182
BINDING SITE FOR RESIDUE SF4 B 585
06
AC6
SOFTWARE
CYS B:220 , THR B:222 , LEU B:225 , CYS B:241 , MET B:242 , CYS B:244 , GLY B:245 , CYS B:247 , LEU B:256
BINDING SITE FOR RESIDUE SF4 B 586
07
AC7
SOFTWARE
CYS A:175 , MET A:176 , CYS A:181 , GLU A:182 , PHE A:183 , ASN A:221 , CYS A:223 , ASN A:293 , HOH A:457 , SF4 A:575 , HIS B:33 , ILE B:41 , ARG B:43 , ARG B:55 , ARG B:83 , THR B:85 , SER B:86 , ARG B:87 , ASN B:89 , GLY B:117 , TRP B:119 , ALA B:121 , SER B:129 , MET B:170 , ARG B:172 , LEU B:272 , SER B:273 , ARG B:276 , ARG B:319 , HOH B:369 , HOH B:370 , HOH B:385 , HOH B:405 , HOH B:419
BINDING SITE FOR RESIDUE SRM B 570
08
AC8
SOFTWARE
ILE D:78 , ARG D:80 , THR D:96 , GLY D:131 , SER D:132 , THR D:133 , ILE D:137 , TYR D:210 , LYS D:211 , LYS D:213 , LYS D:215 , ARG D:229 , ALA D:315 , PHE D:317 , ARG D:358 , ARG D:360 , GLN E:135 , HIS E:139 , HIS E:141 , THR E:142 , ASN E:180 , MET E:181 , CYS E:182 , GLY E:183 , THR E:249 , SF4 E:585
BINDING SITE FOR RESIDUE SRM D 580
09
AC9
SOFTWARE
CYS D:175 , CYS D:181 , PHE D:183 , GLY D:218 , CYS D:219 , ASN D:221 , CYS D:223 , SRM E:570
BINDING SITE FOR RESIDUE SF4 D 575
10
BC1
SOFTWARE
CYS D:266 , THR D:268 , CYS D:285 , VAL D:286 , CYS D:288 , CYS D:291 , HOH D:423
BINDING SITE FOR RESIDUE SF4 D 576
11
BC2
SOFTWARE
SRM D:580 , THR E:134 , CYS E:140 , PRO E:143 , CYS E:177 , CYS E:178 , ASN E:180 , CYS E:182
BINDING SITE FOR RESIDUE SF4 E 585
12
BC3
SOFTWARE
CYS E:220 , THR E:222 , LEU E:225 , CYS E:241 , CYS E:244 , GLY E:245 , CYS E:247
BINDING SITE FOR RESIDUE SF4 E 586
13
BC4
SOFTWARE
MET D:176 , CYS D:181 , GLU D:182 , PHE D:183 , ASN D:221 , CYS D:223 , ASN D:293 , SF4 D:575 , HIS E:33 , ARG E:43 , ARG E:55 , ARG E:83 , THR E:85 , SER E:86 , ARG E:87 , ASN E:89 , TRP E:119 , ALA E:121 , SER E:129 , ARG E:172 , LEU E:272 , SER E:273 , ARG E:276 , ARG E:319
BINDING SITE FOR RESIDUE SRM E 570
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 6)
Info
All PROSITE Patterns/Profiles
1: 4FE4S_FER_2 (B:232-262,E:232-262,A:276-304,D:27...)
2: 4FE4S_FER_1 (B:241-252,E:241-252)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
4FE4S_FER_2
PS51379
4Fe-4S ferredoxin-type iron-sulfur binding domain profile.
DSRB_ARCFU
232-262
2
B:232-262
E:232-262
DSRA_ARCFU
277-305
2
A:276-304
D:276-304
2
4FE4S_FER_1
PS00198
4Fe-4S ferredoxin-type iron-sulfur binding region signature.
DSRB_ARCFU
241-252
2
B:241-252
E:241-252
[
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Exons
(0, 0)
Info
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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
(6, 12)
Info
All SCOP Domains
1a: SCOP_d3mm8a3 (A:239-304)
1b: SCOP_d3mm8d3 (D:239-304)
2a: SCOP_d3mm8b3 (B:197-261)
2b: SCOP_d3mm8e3 (E:197-261)
3a: SCOP_d3mm8a1 (A:1-166)
3b: SCOP_d3mm8d1 (D:1-166)
4a: SCOP_d3mm8b1 (B:4-122)
4b: SCOP_d3mm8e1 (E:4-122)
5a: SCOP_d3mm8a2 (A:167-238,A:305-417)
5b: SCOP_d3mm8d2 (D:167-238,D:305-417)
6a: SCOP_d3mm8b2 (B:123-196,B:262-366)
6b: SCOP_d3mm8e2 (E:123-196,E:262-366)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Ferredoxin-like
(1795)
Superfamily
:
4Fe-4S ferredoxins
(143)
Family
:
Ferredoxin domains from multidomain proteins
(69)
Protein domain
:
DsrA insert domain
(9)
Archaeoglobus fulgidus [TaxId: 2234]
(8)
1a
d3mm8a3
A:239-304
1b
d3mm8d3
D:239-304
Protein domain
:
DsrB insert domain
(9)
Archaeoglobus fulgidus [TaxId: 2234]
(8)
2a
d3mm8b3
B:197-261
2b
d3mm8e3
E:197-261
Superfamily
:
Nitrite/Sulfite reductase N-terminal domain-like
(52)
Family
:
DsrA/DsrB N-terminal-domain-like
(18)
Protein domain
:
Dissimilatory sulfite reductase subunit alpha, DsrA
(9)
Archaeoglobus fulgidus [TaxId: 2234]
(8)
3a
d3mm8a1
A:1-166
3b
d3mm8d1
D:1-166
Protein domain
:
Dissimilatory sulfite reductase subunit beta, DsrB
(9)
Archaeoglobus fulgidus [TaxId: 2234]
(8)
4a
d3mm8b1
B:4-122
4b
d3mm8e1
E:4-122
Fold
:
Nitrite and sulphite reductase 4Fe-4S domain-like
(52)
Superfamily
:
Nitrite and sulphite reductase 4Fe-4S domain-like
(52)
Family
:
Nitrite and sulphite reductase 4Fe-4S domain-like
(33)
Protein domain
:
Dissimilatory sulfite reductase subunit alpha, DsrA
(9)
Archaeoglobus fulgidus [TaxId: 2234]
(8)
5a
d3mm8a2
A:167-238,A:305-417
5b
d3mm8d2
D:167-238,D:305-417
Protein domain
:
Dissimilatory sulfite reductase subunit beta, DsrB
(9)
Archaeoglobus fulgidus [TaxId: 2234]
(8)
6a
d3mm8b2
B:123-196,B:262-366
6b
d3mm8e2
E:123-196,E:262-366
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(3, 10)
Info
all PFAM domains
1a: PFAM_Fer4_3mm8E01 (E:234-256)
1b: PFAM_Fer4_3mm8E02 (E:234-256)
2a: PFAM_NIR_SIR_3mm8D01 (D:165-385)
2b: PFAM_NIR_SIR_3mm8D02 (D:165-385)
2c: PFAM_NIR_SIR_3mm8E03 (E:125-344)
2d: PFAM_NIR_SIR_3mm8E04 (E:125-344)
3a: PFAM_NIR_SIR_ferr_3mm8D03 (D:86-156)
3b: PFAM_NIR_SIR_ferr_3mm8D04 (D:86-156)
3c: PFAM_NIR_SIR_ferr_3mm8E05 (E:43-110)
3d: PFAM_NIR_SIR_ferr_3mm8E06 (E:43-110)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
4Fe-4S
(51)
Family
:
Fer4
(18)
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
(10)
1a
Fer4-3mm8E01
E:234-256
1b
Fer4-3mm8E02
E:234-256
Clan
:
no clan defined [family: NIR_SIR]
(11)
Family
:
NIR_SIR
(11)
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
(8)
2a
NIR_SIR-3mm8D01
D:165-385
2b
NIR_SIR-3mm8D02
D:165-385
2c
NIR_SIR-3mm8E03
E:125-344
2d
NIR_SIR-3mm8E04
E:125-344
Clan
:
no clan defined [family: NIR_SIR_ferr]
(11)
Family
:
NIR_SIR_ferr
(11)
Archaeoglobus fulgidus (strain ATCC 49558 / VC-16 / DSM 4304 / JCM 9628 / NBRC 100126)
(8)
3a
NIR_SIR_ferr-3mm8D03
D:86-156
3b
NIR_SIR_ferr-3mm8D04
D:86-156
3c
NIR_SIR_ferr-3mm8E05
E:43-110
3d
NIR_SIR_ferr-3mm8E06
E:43-110
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