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Conserved domains on  [gi|446108685|ref|WP_000186540|]
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MULTISPECIES: heme exporter protein CcmD [Gammaproteobacteria]

Protein Classification

heme exporter protein CcmD( domain architecture ID 10006938)

heme exporter protein CcmD is required for the export of heme to the periplasm for the biogenesis of c-type cytochromes

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CcmD COG3114
Heme exporter protein D [Intracellular trafficking, secretion, and vesicular transport];
3-53 1.55e-18

Heme exporter protein D [Intracellular trafficking, secretion, and vesicular transport];


:

Pssm-ID: 442348  Cd Length: 65  Bit Score: 71.01  E-value: 1.55e-18
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 446108685  3 PAFASWNEFFAMGGYAFFVWLAVVMTVIPLVVLVVHSVMQHRAILRGVAQQ 53
Cdd:COG3114   1 MQFDSWSEFFAMGGYGFYVWLSYGITLLVLLGLVLLPRRRRRRLLKELRRR 51
 
Name Accession Description Interval E-value
CcmD COG3114
Heme exporter protein D [Intracellular trafficking, secretion, and vesicular transport];
3-53 1.55e-18

Heme exporter protein D [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442348  Cd Length: 65  Bit Score: 71.01  E-value: 1.55e-18
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 446108685  3 PAFASWNEFFAMGGYAFFVWLAVVMTVIPLVVLVVHSVMQHRAILRGVAQQ 53
Cdd:COG3114   1 MQFDSWSEFFAMGGYGFYVWLSYGITLLVLLGLVLLPRRRRRRLLKELRRR 51
cytochro_ccmD TIGR03141
heme exporter protein CcmD; The model for this protein family describes a small, hydrophobic, ...
 14-53 2.56e-10

heme exporter protein CcmD; The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.


Pssm-ID: 274445  Cd Length: 45  Bit Score: 49.91  E-value: 2.56e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 446108685  14 MGGYAFFVWLAVVMTVIPLVVLVVHSVMQHRAILRGVAQQ 53
Cdd:TIGR03141  1 MGGYAFYVWLAYGITFLVLAILILWSLLDRRRLLRELRRL 40
CcmD pfam04995
Heme exporter protein D (CcmD); The CcmD protein is part of a C-type cytochrome biogenesis ...
 15-53 3.96e-10

Heme exporter protein D (CcmD); The CcmD protein is part of a C-type cytochrome biogenesis operon. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation. This protein is found fused to CcmE in Swiss:P52224. These proteins contain a predicted transmembrane helix.


Pssm-ID: 428247  Cd Length: 44  Bit Score: 49.31  E-value: 3.96e-10
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 446108685  15 GGYAFFVWLAVVMTVIPLVVLVVHSVMQHRAILRGVAQQ 53
Cdd:pfam04995  1 GGYAFYVWLSYGITLLVLAGLILWTLRRRRRLLRELRRL 39
 
Name Accession Description Interval E-value
CcmD COG3114
Heme exporter protein D [Intracellular trafficking, secretion, and vesicular transport];
3-53 1.55e-18

Heme exporter protein D [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442348  Cd Length: 65  Bit Score: 71.01  E-value: 1.55e-18
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 446108685  3 PAFASWNEFFAMGGYAFFVWLAVVMTVIPLVVLVVHSVMQHRAILRGVAQQ 53
Cdd:COG3114   1 MQFDSWSEFFAMGGYGFYVWLSYGITLLVLLGLVLLPRRRRRRLLKELRRR 51
cytochro_ccmD TIGR03141
heme exporter protein CcmD; The model for this protein family describes a small, hydrophobic, ...
 14-53 2.56e-10

heme exporter protein CcmD; The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.


Pssm-ID: 274445  Cd Length: 45  Bit Score: 49.91  E-value: 2.56e-10
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 446108685  14 MGGYAFFVWLAVVMTVIPLVVLVVHSVMQHRAILRGVAQQ 53
Cdd:TIGR03141  1 MGGYAFYVWLAYGITFLVLAILILWSLLDRRRLLRELRRL 40
CcmD pfam04995
Heme exporter protein D (CcmD); The CcmD protein is part of a C-type cytochrome biogenesis ...
 15-53 3.96e-10

Heme exporter protein D (CcmD); The CcmD protein is part of a C-type cytochrome biogenesis operon. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation. This protein is found fused to CcmE in Swiss:P52224. These proteins contain a predicted transmembrane helix.


Pssm-ID: 428247  Cd Length: 44  Bit Score: 49.31  E-value: 3.96e-10
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 446108685  15 GGYAFFVWLAVVMTVIPLVVLVVHSVMQHRAILRGVAQQ 53
Cdd:pfam04995  1 GGYAFYVWLSYGITLLVLAGLILWTLRRRRRLLRELRRL 39
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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