NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1045560288|ref|NP_001316542|]
View 

snRNA-activating protein complex subunit 5 isoform 2 [Homo sapiens]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
SNAPC5 super family cl21309
snRNA-activating protein complex subunit 19, SNAPc subunit 19; SNAPc19 is a family of proteins ...
1-53 4.82e-06

snRNA-activating protein complex subunit 19, SNAPc subunit 19; SNAPc19 is a family of proteins found in eukaryotes. It is one of the five core components of the snRNA-activating protein complex or SNAPc that helps direct the nucleation of RNA polymerases II and III. The core RNA polymerase II snRNA promoters consist of a single essential element, the proximal sequence element (PSE), whereas the core RNA polymerase III snRNA promoters consist of both a PSE and a TATA box. The SNAPc binds to the PSE of both of these. SNAPc recognizes the PSE sequence common to all human snRNA genes, irrespective of polymerase specificity. SNAPc is also known as the PSE transcription factor (PTF) or PSE-binding protein (PBP). The human SNAP19 and SNAP45 subunits are dispensable for transcription in vitro and are not as widely conserved as the other three, SNAP190, SNAP43 and SNAP50, suggesting that these vertebrate-specific SNAPc subunits may have adapted specialized regulatory roles for snRNA gene transcription.


The actual alignment was detected with superfamily member pfam15497:

Pssm-ID: 464748  Cd Length: 101  Bit Score: 40.41  E-value: 4.82e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1045560288   1 MLSRLQELRKEEETLLRLKAALHDQLNRLK-----------------------------------MLVHVDNEASINQTT 45
Cdd:pfam15497   1 LLKELQELKEEEKKLLKLLSKLNDQLNRLKveelalksmirkqegenqttspepsqqssngnspsMESSVDNEEEINQTE 80

                  ....*...
gi 1045560288  46 LELSTKSH 53
Cdd:pfam15497  81 LDLSVNPN 88
 
Name Accession Description Interval E-value
SNAPC5 pfam15497
snRNA-activating protein complex subunit 19, SNAPc subunit 19; SNAPc19 is a family of proteins ...
1-53 4.82e-06

snRNA-activating protein complex subunit 19, SNAPc subunit 19; SNAPc19 is a family of proteins found in eukaryotes. It is one of the five core components of the snRNA-activating protein complex or SNAPc that helps direct the nucleation of RNA polymerases II and III. The core RNA polymerase II snRNA promoters consist of a single essential element, the proximal sequence element (PSE), whereas the core RNA polymerase III snRNA promoters consist of both a PSE and a TATA box. The SNAPc binds to the PSE of both of these. SNAPc recognizes the PSE sequence common to all human snRNA genes, irrespective of polymerase specificity. SNAPc is also known as the PSE transcription factor (PTF) or PSE-binding protein (PBP). The human SNAP19 and SNAP45 subunits are dispensable for transcription in vitro and are not as widely conserved as the other three, SNAP190, SNAP43 and SNAP50, suggesting that these vertebrate-specific SNAPc subunits may have adapted specialized regulatory roles for snRNA gene transcription.


Pssm-ID: 464748  Cd Length: 101  Bit Score: 40.41  E-value: 4.82e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1045560288   1 MLSRLQELRKEEETLLRLKAALHDQLNRLK-----------------------------------MLVHVDNEASINQTT 45
Cdd:pfam15497   1 LLKELQELKEEEKKLLKLLSKLNDQLNRLKveelalksmirkqegenqttspepsqqssngnspsMESSVDNEEEINQTE 80

                  ....*...
gi 1045560288  46 LELSTKSH 53
Cdd:pfam15497  81 LDLSVNPN 88
 
Name Accession Description Interval E-value
SNAPC5 pfam15497
snRNA-activating protein complex subunit 19, SNAPc subunit 19; SNAPc19 is a family of proteins ...
1-53 4.82e-06

snRNA-activating protein complex subunit 19, SNAPc subunit 19; SNAPc19 is a family of proteins found in eukaryotes. It is one of the five core components of the snRNA-activating protein complex or SNAPc that helps direct the nucleation of RNA polymerases II and III. The core RNA polymerase II snRNA promoters consist of a single essential element, the proximal sequence element (PSE), whereas the core RNA polymerase III snRNA promoters consist of both a PSE and a TATA box. The SNAPc binds to the PSE of both of these. SNAPc recognizes the PSE sequence common to all human snRNA genes, irrespective of polymerase specificity. SNAPc is also known as the PSE transcription factor (PTF) or PSE-binding protein (PBP). The human SNAP19 and SNAP45 subunits are dispensable for transcription in vitro and are not as widely conserved as the other three, SNAP190, SNAP43 and SNAP50, suggesting that these vertebrate-specific SNAPc subunits may have adapted specialized regulatory roles for snRNA gene transcription.


Pssm-ID: 464748  Cd Length: 101  Bit Score: 40.41  E-value: 4.82e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1045560288   1 MLSRLQELRKEEETLLRLKAALHDQLNRLK-----------------------------------MLVHVDNEASINQTT 45
Cdd:pfam15497   1 LLKELQELKEEEKKLLKLLSKLNDQLNRLKveelalksmirkqegenqttspepsqqssngnspsMESSVDNEEEINQTE 80

                  ....*...
gi 1045560288  46 LELSTKSH 53
Cdd:pfam15497  81 LDLSVNPN 88
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH