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0  structures 358  species 0  interactions 688  sequences 4  architectures

Family: DcuC (PF03606)

Summary: C4-dicarboxylate anaerobic carrier

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This is the Wikipedia entry entitled "Anaerobic C4-dicarboxylate membrane transporter protein". More...

Anaerobic C4-dicarboxylate membrane transporter protein Edit Wikipedia article

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C4-dicarboxylate anaerobic carrier Provide feedback

No Pfam abstract.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR018385

Escherichia coli contains four different secondary carriers (DcuA, DcuB, DcuC, and DctA) for C4-dicarboxylates [PUBMED:10482502, PUBMED:1512189, PUBMED:7961398, PUBMED:8955408] DcuA is used for aerobic growth on C4-dicarboxylates [PUBMED:10482502, PUBMED:5541510], whereas the Dcu carriers (encoded by the dcuA, dcuB, and dcuC genes) are used under anaerobic conditions and form a distinct family of carriers [PUBMED:1512189, PUBMED:8020497, PUBMED:9889977, PUBMED:7961398, PUBMED:9230919, PUBMED:8955408]. Each of the Dcu carriers is able to catalyze the uptake, antiport, and possibly also efflux of C4-dicarboxylates. DcuB is the major C4-dicarboxylate carrier for fumarate respiration with high fumarate-succinate exchange activity. It is synthesized only in the absence of oxygen and nitrate and in the presence of C4-dicarboxylates [PUBMED:1512189, PUBMED:9973351, PUBMED:9852003, PUBMED:9765574]. DcuA is expressed constitutively in aerobic and anaerobic growth and can substitute for DcuB [PUBMED:9852003, PUBMED:7961398]. These proteins are members of the C4-dicarboxylate Uptake C (DcuC) family. DcuC has 12 GES predicted transmembrane regions, is induced only under anaerobic conditions, and is not repressed by glucose. DcuC may therefore function as a succinate efflux system during anaerobic glucose fermentation. However, when overexpressed, it can replace either DcuA or DcuB in catalyzing fumarate-succinate exchange and fumarate uptake [PUBMED:8020497, PUBMED:10368146]. DcuC shows the same transport modes as DcuA and DcuB (exchange, uptake, and presumably efflux of C4-dicarboxylates) [PUBMED:8955408].

Gene Ontology

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Domain organisation

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Pfam Clan

This family is a member of clan IT (CL0182), which has the following description:

This superfamily of secondary carriers specific for cationic and anionic compounds, has been termed the ion transporter (IT) superfamily [1].

The clan contains the following 19 members:

ABG_transport ArsB CitMHS CitMHS_2 DctM DcuA_DcuB DcuC DUF1646 DUF401 EXS GntP_permease Lactate_perm MatC_N Na_H_antiport_2 Na_H_antiport_3 Na_H_antiporter Na_sulph_symp NhaB SCFA_trans

Alignments

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We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(13)
Full
(688)
Representative proteomes UniProt
(5982)
NCBI
(13014)
Meta
(266)
RP15
(134)
RP35
(487)
RP55
(742)
RP75
(1128)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(13)
Full
(688)
Representative proteomes UniProt
(5982)
NCBI
(13014)
Meta
(266)
RP15
(134)
RP35
(487)
RP55
(742)
RP75
(1128)
Alignment:
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We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(13)
Full
(688)
Representative proteomes UniProt
(5982)
NCBI
(13014)
Meta
(266)
RP15
(134)
RP35
(487)
RP55
(742)
RP75
(1128)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

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Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

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Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: TIGRFAMs
Previous IDs: none
Type: Family
Author: TIGRFAMs, Griffiths-Jones SR
Number in seed: 13
Number in full: 688
Average length of the domain: 437.10 aa
Average identity of full alignment: 22 %
Average coverage of the sequence by the domain: 96.23 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 11927849 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.7 22.7
Trusted cut-off 22.7 22.7
Noise cut-off 22.6 22.6
Model length: 465
Family (HMM) version: 12
Download: download the raw HMM for this family

Species distribution

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