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Conserved domains on  [gi|82617610|ref|NP_796227|]
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cleavage stimulation factor subunit 3 isoform 2 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RNA14 super family cl34906
Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and ...
 2-76 1.89e-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: 41.93  E-value: 1.89e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 82617610   2 SGDAAAEQAaEYVPEKVKKAEKKLEENPYDLDAWSILIREAQNQ-PIDKARKTYERLVAQFPSSGRFWKLYIEAEV 76
Cdd:COG5107  13 SADKVAEPS-DNIHGDELRLRERIKDNPTNILSYFQLIQYLETQeSMDAEREMYEQLSSPFPIMEHAWRLYMSGEL 87
 
Name Accession Description Interval E-value
RNA14 COG5107
Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and ...
 2-76 1.89e-05

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


Pssm-ID: 227438 [Multi-domain]  Cd Length: 660  Bit Score: 41.93  E-value: 1.89e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 82617610   2 SGDAAAEQAaEYVPEKVKKAEKKLEENPYDLDAWSILIREAQNQ-PIDKARKTYERLVAQFPSSGRFWKLYIEAEV 76
Cdd:COG5107  13 SADKVAEPS-DNIHGDELRLRERIKDNPTNILSYFQLIQYLETQeSMDAEREMYEQLSSPFPIMEHAWRLYMSGEL 87
HAT smart00386
HAT (Half-A-TPR) repeats; Present in several RNA-binding proteins. Structurally and ...
 45-77 2.57e-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: 37.91  E-value: 2.57e-05
                           10        20        30
                   ....*....|....*....|....*....|...
gi 82617610     45 QPIDKARKTYERLVAQFPSSGRFWKLYIEAEVN 77
Cdd:smart00386   1 GDIERARKIYERALEKFPKSVELWLKYAEFEER 33
 
Name Accession Description Interval E-value
RNA14 COG5107
Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and ...
 2-76 1.89e-05

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


Pssm-ID: 227438 [Multi-domain]  Cd Length: 660  Bit Score: 41.93  E-value: 1.89e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 82617610   2 SGDAAAEQAaEYVPEKVKKAEKKLEENPYDLDAWSILIREAQNQ-PIDKARKTYERLVAQFPSSGRFWKLYIEAEV 76
Cdd:COG5107  13 SADKVAEPS-DNIHGDELRLRERIKDNPTNILSYFQLIQYLETQeSMDAEREMYEQLSSPFPIMEHAWRLYMSGEL 87
HAT smart00386
HAT (Half-A-TPR) repeats; Present in several RNA-binding proteins. Structurally and ...
 45-77 2.57e-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: 37.91  E-value: 2.57e-05
                           10        20        30
                   ....*....|....*....|....*....|...
gi 82617610     45 QPIDKARKTYERLVAQFPSSGRFWKLYIEAEVN 77
Cdd:smart00386   1 GDIERARKIYERALEKFPKSVELWLKYAEFEER 33
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 16-74 2.23e-03

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: 34.98  E-value: 2.23e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 82617610  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.
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