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Protein

Succinate dehydrogenase iron-sulfur subunit

Gene

sdhB

Organism
Paracoccus denitrificans
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalytic activityi

Succinate + a quinone = fumarate + a quinol.

Cofactori

Protein has several cofactor binding sites:

Pathway: tricarboxylic acid cycle

This protein is involved in step 1 of the subpathway that synthesizes fumarate from succinate (bacterial route).
Proteins known to be involved in this subpathway in this organism are:
  1. Succinate dehydrogenase flavoprotein subunit (sdhA), Succinate dehydrogenase iron-sulfur subunit (sdhB)
This subpathway is part of the pathway tricarboxylic acid cycle, which is itself part of Carbohydrate metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes fumarate from succinate (bacterial route), the pathway tricarboxylic acid cycle and in Carbohydrate metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi80 – 801Iron-sulfur 1 (2Fe-2S)By similarity
Metal bindingi85 – 851Iron-sulfur 1 (2Fe-2S)By similarity
Metal bindingi100 – 1001Iron-sulfur 1 (2Fe-2S)By similarity
Metal bindingi170 – 1701Iron-sulfur 2 (4Fe-4S)By similarity
Metal bindingi173 – 1731Iron-sulfur 2 (4Fe-4S)By similarity
Metal bindingi176 – 1761Iron-sulfur 2 (4Fe-4S)By similarity
Metal bindingi180 – 1801Iron-sulfur 3 (3Fe-4S)By similarity
Binding sitei185 – 1851Ubiquinone; shared with SdhD subunitBy similarity
Metal bindingi227 – 2271Iron-sulfur 3 (3Fe-4S)By similarity
Metal bindingi233 – 2331Iron-sulfur 3 (3Fe-4S)By similarity
Metal bindingi237 – 2371Iron-sulfur 2 (4Fe-4S)By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Electron transport, Transport, Tricarboxylic acid cycle

Keywords - Ligandi

2Fe-2S, 3Fe-4S, 4Fe-4S, Iron, Iron-sulfur, Metal-binding

Enzyme and pathway databases

UniPathwayiUPA00223; UER01005.

Names & Taxonomyi

Protein namesi
Recommended name:
Succinate dehydrogenase iron-sulfur subunit (EC:1.3.5.1)
Gene namesi
Name:sdhB
OrganismiParacoccus denitrificans
Taxonomic identifieri266 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeParacoccus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 259259Succinate dehydrogenase iron-sulfur subunitPRO_0000158689Add
BLAST

Interactioni

Subunit structurei

Part of an enzyme complex containing four subunits: a flavoprotein, an iron-sulfur, cytochrome b-556, and a hydrophobic anchor protein.

Protein-protein interaction databases

STRINGi318586.Pden_0572.

Structurei

3D structure databases

ProteinModelPortaliQ59662.
SMRiQ59662. Positions 23-254.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini28 – 119922Fe-2S ferredoxin-typePROSITE-ProRule annotationAdd
BLAST
Domaini160 – 190314Fe-4S ferredoxin-typePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 2Fe-2S ferredoxin-type domain.PROSITE-ProRule annotation
Contains 1 4Fe-4S ferredoxin-type domain.PROSITE-ProRule annotation

Family and domain databases

Gene3Di3.10.20.30. 1 hit.
InterProiIPR001041. 2Fe-2S_ferredoxin-type.
IPR006058. 2Fe2S_fd_BS.
IPR017896. 4Fe4S_Fe-S-bd.
IPR017900. 4Fe4S_Fe_S_CS.
IPR012675. Beta-grasp_dom.
IPR009051. Helical_ferredxn.
IPR004489. Succ_DH/fum_Rdtase_Fe-S.
IPR025192. Succ_DH/fum_Rdtase_N.
[Graphical view]
PfamiPF13085. Fer2_3. 1 hit.
[Graphical view]
SUPFAMiSSF46548. SSF46548. 1 hit.
SSF54292. SSF54292. 1 hit.
TIGRFAMsiTIGR00384. dhsB. 1 hit.
PROSITEiPS00197. 2FE2S_FER_1. 1 hit.
PS51085. 2FE2S_FER_2. 1 hit.
PS00198. 4FE4S_FER_1. 1 hit.
PS51379. 4FE4S_FER_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q59662-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVQLTLPKNS RMRVGKTWPK PEGATNVRRF NIYRWDPDTG ENPRIDTYFV
60 70 80 90 100
DMDKCGPMVL DALIKIKNEI DPTLTFRRSC REGICGSCAM NIDGGNHLAC
110 120 130 140 150
IYGMDEIKGD VNIYPLPHMP VVKDLVPDLT HFYAQHASVQ PYLITETPTP
160 170 180 190 200
DKEWRQSIED RKKLDGLYEC VMCASCSTAC PSYWWNGDRY LGPAALLHAY
210 220 230 240 250
RWIIDSRDEA TGERLDSLED PFKLYRCHTI MNCTNTCPKG LNPAKAIASI

KHMMVDRIV
Length:259
Mass (Da):29,551
Last modified:November 1, 1996 - v1
Checksum:iF70C21BBA8205B4F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U31902 Genomic DNA. Translation: AAA75178.1.
PIRiT46881.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U31902 Genomic DNA. Translation: AAA75178.1.
PIRiT46881.

3D structure databases

ProteinModelPortaliQ59662.
SMRiQ59662. Positions 23-254.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi318586.Pden_0572.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Enzyme and pathway databases

UniPathwayiUPA00223; UER01005.

Family and domain databases

Gene3Di3.10.20.30. 1 hit.
InterProiIPR001041. 2Fe-2S_ferredoxin-type.
IPR006058. 2Fe2S_fd_BS.
IPR017896. 4Fe4S_Fe-S-bd.
IPR017900. 4Fe4S_Fe_S_CS.
IPR012675. Beta-grasp_dom.
IPR009051. Helical_ferredxn.
IPR004489. Succ_DH/fum_Rdtase_Fe-S.
IPR025192. Succ_DH/fum_Rdtase_N.
[Graphical view]
PfamiPF13085. Fer2_3. 1 hit.
[Graphical view]
SUPFAMiSSF46548. SSF46548. 1 hit.
SSF54292. SSF54292. 1 hit.
TIGRFAMsiTIGR00384. dhsB. 1 hit.
PROSITEiPS00197. 2FE2S_FER_1. 1 hit.
PS51085. 2FE2S_FER_2. 1 hit.
PS00198. 4FE4S_FER_1. 1 hit.
PS51379. 4FE4S_FER_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Cloning, sequencing, and expression of the succinate-ubiquinone oxidoreductase (SdhCDAB) operon from Paracoccus denitrificans."
    Dickins M.A., Dhawan T., Gunsalus R.P., Schroeder I., Cecchini G.
    Submitted (SEP-1995) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 13543 / NRRL B-3784 / NRC 449.

Entry informationi

Entry nameiSDHB_PARDE
AccessioniPrimary (citable) accession number: Q59662
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: June 24, 2015
This is version 81 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.