Golgi-body localization protein domain; This is the C-terminus of a family of proteins ...
1560-2033
8.31e-127
Golgi-body localization protein domain; This is the C-terminus of a family of proteins conserved from plants to humans. The plant members are localized to the Golgi proteins and appear to regulate membrane trafficking, as they are required for rapid vesicle accumulation at the tip of the pollen tube. The C-terminus probably contains the Golgi localization signal and it is well-conserved.
:
Pssm-ID: 463055 Cd Length: 466 Bit Score: 407.80 E-value: 8.31e-127
Mitochondrial protein from FMP27; This family contains mitochondrial FMP27 proteins which in ...
1-531
2.21e-52
Mitochondrial protein from FMP27; This family contains mitochondrial FMP27 proteins which in yeasts together with SEN1 are long genes that exist in a looped conformation, effectively bringing together their promoter and terminator regions. Pol-II is located at both ends of FMP27 when this gene is transcribed from a GAL1 promoter under induced and non-induced conditions. The exact function of the Fmp27 protein is not certain.
The actual alignment was detected with superfamily member pfam10344:
Pssm-ID: 431223 Cd Length: 865 Bit Score: 200.76 E-value: 2.21e-52
RNA pol II promoter Fmp27 protein domain; Fmp27_GFWDK is a conserved domain of a family of ...
885-1017
1.05e-47
RNA pol II promoter Fmp27 protein domain; Fmp27_GFWDK is a conserved domain of a family of proteins involved in RNA polymerase II transcription initiation. It contains characteriztic GFWDK sequence motifs. Some members are associated with domain Fmp27_SW (pfam10305) towards the N terminus.
:
Pssm-ID: 402113 Cd Length: 155 Bit Score: 167.83 E-value: 1.05e-47
Golgi-body localization protein domain; This is the C-terminus of a family of proteins ...
1560-2033
8.31e-127
Golgi-body localization protein domain; This is the C-terminus of a family of proteins conserved from plants to humans. The plant members are localized to the Golgi proteins and appear to regulate membrane trafficking, as they are required for rapid vesicle accumulation at the tip of the pollen tube. The C-terminus probably contains the Golgi localization signal and it is well-conserved.
Pssm-ID: 463055 Cd Length: 466 Bit Score: 407.80 E-value: 8.31e-127
Mitochondrial protein from FMP27; This family contains mitochondrial FMP27 proteins which in ...
1-531
2.21e-52
Mitochondrial protein from FMP27; This family contains mitochondrial FMP27 proteins which in yeasts together with SEN1 are long genes that exist in a looped conformation, effectively bringing together their promoter and terminator regions. Pol-II is located at both ends of FMP27 when this gene is transcribed from a GAL1 promoter under induced and non-induced conditions. The exact function of the Fmp27 protein is not certain.
Pssm-ID: 431223 Cd Length: 865 Bit Score: 200.76 E-value: 2.21e-52
RNA pol II promoter Fmp27 protein domain; Fmp27_GFWDK is a conserved domain of a family of ...
885-1017
1.05e-47
RNA pol II promoter Fmp27 protein domain; Fmp27_GFWDK is a conserved domain of a family of proteins involved in RNA polymerase II transcription initiation. It contains characteriztic GFWDK sequence motifs. Some members are associated with domain Fmp27_SW (pfam10305) towards the N terminus.
Pssm-ID: 402113 Cd Length: 155 Bit Score: 167.83 E-value: 1.05e-47
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
1618-1812
4.44e-03
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]
Pssm-ID: 274008 [Multi-domain] Cd Length: 1179 Bit Score: 42.35 E-value: 4.44e-03
Golgi-body localization protein domain; This is the C-terminus of a family of proteins ...
1560-2033
8.31e-127
Golgi-body localization protein domain; This is the C-terminus of a family of proteins conserved from plants to humans. The plant members are localized to the Golgi proteins and appear to regulate membrane trafficking, as they are required for rapid vesicle accumulation at the tip of the pollen tube. The C-terminus probably contains the Golgi localization signal and it is well-conserved.
Pssm-ID: 463055 Cd Length: 466 Bit Score: 407.80 E-value: 8.31e-127
Mitochondrial protein from FMP27; This family contains mitochondrial FMP27 proteins which in ...
1-531
2.21e-52
Mitochondrial protein from FMP27; This family contains mitochondrial FMP27 proteins which in yeasts together with SEN1 are long genes that exist in a looped conformation, effectively bringing together their promoter and terminator regions. Pol-II is located at both ends of FMP27 when this gene is transcribed from a GAL1 promoter under induced and non-induced conditions. The exact function of the Fmp27 protein is not certain.
Pssm-ID: 431223 Cd Length: 865 Bit Score: 200.76 E-value: 2.21e-52
RNA pol II promoter Fmp27 protein domain; Fmp27_GFWDK is a conserved domain of a family of ...
885-1017
1.05e-47
RNA pol II promoter Fmp27 protein domain; Fmp27_GFWDK is a conserved domain of a family of proteins involved in RNA polymerase II transcription initiation. It contains characteriztic GFWDK sequence motifs. Some members are associated with domain Fmp27_SW (pfam10305) towards the N terminus.
Pssm-ID: 402113 Cd Length: 155 Bit Score: 167.83 E-value: 1.05e-47
Domain of unknown function (DUF4670); This family of proteins is found in eukaryotes. Proteins ...
1637-1793
2.26e-06
Domain of unknown function (DUF4670); This family of proteins is found in eukaryotes. Proteins in this family are typically between 373 and 763 amino acids in length.
Pssm-ID: 464815 [Multi-domain] Cd Length: 522 Bit Score: 52.65 E-value: 2.26e-06
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
1618-1812
4.44e-03
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]
Pssm-ID: 274008 [Multi-domain] Cd Length: 1179 Bit Score: 42.35 E-value: 4.44e-03
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.
of the residues that compose this conserved feature have been mapped to the query sequence.
Click on the triangle to view details about the feature, including a multiple sequence alignment
of your query sequence and the protein sequences used to curate the domain model,
where hash marks (#) above the aligned sequences show the location of the conserved feature residues.
The thumbnail image, if present, provides an approximate view of the feature's location in 3 dimensions.
Click on the triangle for interactive 3D structure viewing options.
Functional characterization of the conserved domain architecture found on the query.
Click here to see more details.
This image shows a graphical summary of conserved domains identified on the query sequence.
The Show Concise/Full Display button at the top of the page can be used to select the desired level of detail: only top scoring hits
(labeled illustration) or all hits
(labeled illustration).
Domains are color coded according to superfamilies
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(specific hits) are drawn in bright colors.
Others (non-specific hits) and
superfamily placeholders are drawn in pastel colors.
if a domain or superfamily has been annotated with functional sites (conserved features),
they are mapped to the query sequence and indicated through sets of triangles
with the same color and shade of the domain or superfamily that provides the annotation. Mouse over the colored bars or triangles to see descriptions of the domains and features.
click on the bars or triangles to view your query sequence embedded in a multiple sequence alignment of the proteins used to develop the corresponding domain model.
The table lists conserved domains identified on the query sequence. Click on the plus sign (+) on the left to display full descriptions, alignments, and scores.
Click on the domain model's accession number to view the multiple sequence alignment of the proteins used to develop the corresponding domain model.
To view your query sequence embedded in that multiple sequence alignment, click on the colored bars in the Graphical Summary portion of the search results page,
or click on the triangles, if present, that represent functional sites (conserved features)
mapped to the query sequence.
Concise Display shows only the best scoring domain model, in each hit category listed below except non-specific hits, for each region on the query sequence.
(labeled illustration) Standard Display shows only the best scoring domain model from each source, in each hit category listed below for each region on the query sequence.
(labeled illustration) Full Display shows all domain models, in each hit category below, that meet or exceed the RPS-BLAST threshold for statistical significance.
(labeled illustration) Four types of hits can be shown, as available,
for each region on the query sequence:
specific hits meet or exceed a domain-specific e-value threshold
(illustrated example)
and represent a very high confidence that the query sequence belongs to the same protein family as the sequences use to create the domain model
non-specific hits
meet or exceed the RPS-BLAST threshold for statistical significance (default E-value cutoff of 0.01, or an E-value selected by user via the
advanced search options)
the domain superfamily to which the specific and non-specific hits belong
multi-domain models that were computationally detected and are likely to contain multiple single domains
Retrieve proteins that contain one or more of the domains present in the query sequence, using the Conserved Domain Architecture Retrieval Tool
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