NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|75709187|ref|NP_001028677|]
View 

cleavage stimulation factor subunit 3 isoform 2 [Homo sapiens]

Protein Classification

HAT repeat-containing protein( domain architecture ID 10647625)

HAT (Half-A-TPR) repeat-containing protein similar to Candida albicans pre-mRNA-splicing factor CLF1 that is involved in pre-mRNA splicing and cell cycle progression

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
HAT smart00386
HAT (Half-A-TPR) repeats; Present in several RNA-binding proteins. Structurally and ...
 45-75 2.03e-05

HAT (Half-A-TPR) repeats; Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.


:

Pssm-ID: 214642 [Multi-domain]  Cd Length: 33  Bit Score: 38.30  E-value: 2.03e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 75709187     45 QPIDKARKTYERLVAQFPSSGRFWKLYIEAE 75
Cdd:smart00386   1 GDIERARKIYERALEKFPKSVELWLKYAEFE 31
RNA14 super family cl34906
Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and ...
 14-76 2.86e-05

Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification];


The actual alignment was detected with superfamily member COG5107:

Pssm-ID: 227438 [Multi-domain]  Cd Length: 660  Bit Score: 41.16  E-value: 2.86e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 75709187  14 VPEKVKKAEKKLEENPYDLDAWSILIREAQNQ-PIDKARKTYERLVAQFPSSGRFWKLYIEAEV 76
Cdd:COG5107  24 IHGDELRLRERIKDNPTNILSYFQLIQYLETQeSMDAEREMYEQLSSPFPIMEHAWRLYMSGEL 87
 
Name Accession Description Interval E-value
HAT smart00386
HAT (Half-A-TPR) repeats; Present in several RNA-binding proteins. Structurally and ...
 45-75 2.03e-05

HAT (Half-A-TPR) repeats; Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.


Pssm-ID: 214642 [Multi-domain]  Cd Length: 33  Bit Score: 38.30  E-value: 2.03e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 75709187     45 QPIDKARKTYERLVAQFPSSGRFWKLYIEAE 75
Cdd:smart00386   1 GDIERARKIYERALEKFPKSVELWLKYAEFE 31
RNA14 COG5107
Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and ...
 14-76 2.86e-05

Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification];


Pssm-ID: 227438 [Multi-domain]  Cd Length: 660  Bit Score: 41.16  E-value: 2.86e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 75709187  14 VPEKVKKAEKKLEENPYDLDAWSILIREAQNQ-PIDKARKTYERLVAQFPSSGRFWKLYIEAEV 76
Cdd:COG5107  24 IHGDELRLRERIKDNPTNILSYFQLIQYLETQeSMDAEREMYEQLSSPFPIMEHAWRLYMSGEL 87
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 16-74 3.77e-04

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 36.91  E-value: 3.77e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 75709187  16 EKVKKAEKKLEENPYDLDAWSIL--IREAQNQPiDKARKTYERLVAQFPSSGRFWKLYIEA 74
Cdd:COG4235   1 EAIARLRQALAANPNDAEGWLLLgrAYLRLGRY-DEALAAYEKALRLDPDNADALLDLAEA 60
 
Name Accession Description Interval E-value
HAT smart00386
HAT (Half-A-TPR) repeats; Present in several RNA-binding proteins. Structurally and ...
 45-75 2.03e-05

HAT (Half-A-TPR) repeats; Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.


Pssm-ID: 214642 [Multi-domain]  Cd Length: 33  Bit Score: 38.30  E-value: 2.03e-05
                           10        20        30
                   ....*....|....*....|....*....|.
gi 75709187     45 QPIDKARKTYERLVAQFPSSGRFWKLYIEAE 75
Cdd:smart00386   1 GDIERARKIYERALEKFPKSVELWLKYAEFE 31
RNA14 COG5107
Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and ...
 14-76 2.86e-05

Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification];


Pssm-ID: 227438 [Multi-domain]  Cd Length: 660  Bit Score: 41.16  E-value: 2.86e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 75709187  14 VPEKVKKAEKKLEENPYDLDAWSILIREAQNQ-PIDKARKTYERLVAQFPSSGRFWKLYIEAEV 76
Cdd:COG5107  24 IHGDELRLRERIKDNPTNILSYFQLIQYLETQeSMDAEREMYEQLSSPFPIMEHAWRLYMSGEL 87
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 16-74 3.77e-04

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 36.91  E-value: 3.77e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 75709187  16 EKVKKAEKKLEENPYDLDAWSIL--IREAQNQPiDKARKTYERLVAQFPSSGRFWKLYIEA 74
Cdd:COG4235   1 EAIARLRQALAANPNDAEGWLLLgrAYLRLGRY-DEALAAYEKALRLDPDNADALLDLAEA 60
 
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