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Conserved domains on  [gi|698397856|ref|XP_009696706|]
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PREDICTED: LOW QUALITY PROTEIN: transcription factor IIIB 50 kDa subunit, partial [Cariama cristata]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_BRF2 cd20555
cyclin box found in B-related factor 2 (BRF-2) and similar proteins; BRF-2, also called ...
 14-110 9.12e-49

cyclin box found in B-related factor 2 (BRF-2) and similar proteins; BRF-2, also called transcription factor IIIB 50 kDa subunit (TFIIIB50), or BRFU, is a general activator of RNA polymerase (Pol) III transcription and is required for Pol III transcription of genes with promoter elements upstream of the initiation sites. It recruits Pol III to type III gene-external promoters, including the U6 spliceosomal RNA and selenocysteine tRNA genes. BRF-2 contains one cyclin box. The cyclin box fold is generally a protein binding domain, but binds DNA in BRF-2.


:

Pssm-ID: 410258 [Multi-domain]  Cd Length: 97  Bit Score: 162.45  E-value: 9.12e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 698397856  14 SRCLQRGIRRVQDLCKVLHLPTVFEETAVSYFQRALQHPSFHLVSLEKKELLGGCCVFVTCRQHNWPLTMGTICSLLYAK 93
Cdd:cd20555    1 SRGLKQGLKRVRDLCRVLRLSSVMEETAVELFEQAFKHPDFRHIRLEKKEVLVGCCVYIVCRQNNWPVTMGDICSLLQCD 80

                         90
                 ....*....|....*..
gi 698397856  94 QELFASVYLSLQKELGL 110
Cdd:cd20555   81 VSDFSSVYKELLKELNI 97
 
Name Accession Description Interval E-value
CYCLIN_BRF2 cd20555
cyclin box found in B-related factor 2 (BRF-2) and similar proteins; BRF-2, also called ...
 14-110 9.12e-49

cyclin box found in B-related factor 2 (BRF-2) and similar proteins; BRF-2, also called transcription factor IIIB 50 kDa subunit (TFIIIB50), or BRFU, is a general activator of RNA polymerase (Pol) III transcription and is required for Pol III transcription of genes with promoter elements upstream of the initiation sites. It recruits Pol III to type III gene-external promoters, including the U6 spliceosomal RNA and selenocysteine tRNA genes. BRF-2 contains one cyclin box. The cyclin box fold is generally a protein binding domain, but binds DNA in BRF-2.


Pssm-ID: 410258 [Multi-domain]  Cd Length: 97  Bit Score: 162.45  E-value: 9.12e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 698397856  14 SRCLQRGIRRVQDLCKVLHLPTVFEETAVSYFQRALQHPSFHLVSLEKKELLGGCCVFVTCRQHNWPLTMGTICSLLYAK 93
Cdd:cd20555    1 SRGLKQGLKRVRDLCRVLRLSSVMEETAVELFEQAFKHPDFRHIRLEKKEVLVGCCVYIVCRQNNWPVTMGDICSLLQCD 80

                         90
                 ....*....|....*..
gi 698397856  94 QELFASVYLSLQKELGL 110
Cdd:cd20555   81 VSDFSSVYKELLKELNI 97
SUA7 COG1405
Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB ...
 15-171 3.95e-05

Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription];


Pssm-ID: 441015 [Multi-domain]  Cd Length: 309  Bit Score: 45.59  E-value: 3.95e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 698397856  15 RCLQRGIRRVQDLCKVLHLPTVFEETAVSYFQRALQhpsfhlvslekKELLGG--------CCVFVTCRQHNWPLTMGTI 86
Cdd:COG1405  120 RNLVQALSEIDRLASALGLPDSVRETAAVIYRKAVE-----------KGLLRGrsiegvaaAALYAACRQAGVPRTLDEI 188

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 698397856  87 CSLLYAKQELFASVYLSLQKELGLSVPALSLVDLVkthlnsfRLFQQAANIPapfvedkEKMVARTMQIVELASETWLVT 166
Cdd:COG1405  189 AEVSRVDRKEIARAYRLLNRELGLKVPPIDPIEYI-------PRIASELGLS-------EEVERRAREILEKAKEKGLTS 254


                 ....*
gi 698397856 167 GPHPS 171
Cdd:COG1405  255 GKNPA 259
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 22-87 2.01e-03

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 37.19  E-value: 2.01e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 698397856    22 RRVQDLCKVLHLPTVFEETAVSYFQRALQHPSFHLVSLekkELLGGCCVFVTCRQHNWPLTMGTIC 87
Cdd:smart00385   1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSP---SLIAAAALYLASKTEETPPWTKELV 63
 
Name Accession Description Interval E-value
CYCLIN_BRF2 cd20555
cyclin box found in B-related factor 2 (BRF-2) and similar proteins; BRF-2, also called ...
 14-110 9.12e-49

cyclin box found in B-related factor 2 (BRF-2) and similar proteins; BRF-2, also called transcription factor IIIB 50 kDa subunit (TFIIIB50), or BRFU, is a general activator of RNA polymerase (Pol) III transcription and is required for Pol III transcription of genes with promoter elements upstream of the initiation sites. It recruits Pol III to type III gene-external promoters, including the U6 spliceosomal RNA and selenocysteine tRNA genes. BRF-2 contains one cyclin box. The cyclin box fold is generally a protein binding domain, but binds DNA in BRF-2.


Pssm-ID: 410258 [Multi-domain]  Cd Length: 97  Bit Score: 162.45  E-value: 9.12e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 698397856  14 SRCLQRGIRRVQDLCKVLHLPTVFEETAVSYFQRALQHPSFHLVSLEKKELLGGCCVFVTCRQHNWPLTMGTICSLLYAK 93
Cdd:cd20555    1 SRGLKQGLKRVRDLCRVLRLSSVMEETAVELFEQAFKHPDFRHIRLEKKEVLVGCCVYIVCRQNNWPVTMGDICSLLQCD 80

                         90
                 ....*....|....*..
gi 698397856  94 QELFASVYLSLQKELGL 110
Cdd:cd20555   81 VSDFSSVYKELLKELNI 97
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 19-96 3.41e-09

Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in cell-cycle and transcriptional control. It is about 100 amino acids in length, composed of five helices, and is present in cyclins, transcription initiation factor IIB (TFIIB), and retinoblastoma tumour suppressor protein (Rb). Cyclins consist of 8 classes of cell cycle regulators that function as regulatory subunits of cyclin-dependent kinases (CDKs), which are serine/threonine kinases. The catalytic activities of CDKs are modulated not only by their interactions with cyclins but also by CDK inhibitors (CKIs). CDKs, cyclins and CKIs play key roles in transcription, epigenetic regulation, metabolism, stem cell self-renewal, neuronal functions, and spermatogenesis. TFIIB is a transcription factor that binds the TATA box. Members in this superfamily contain one or two copies of the cyclin box.


Pssm-ID: 410207 [Multi-domain]  Cd Length: 82  Bit Score: 53.57  E-value: 3.41e-09
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 698397856  19 RGIRRVQDLCKVLHLPTVFEETAVSYFQRALQHPSFHLVSLEkkeLLGGCCVFVTCRQHNWPLTMGTICSLL-YAKQEL 96
Cdd:cd00043    1 KAVDFIRRLCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPE---LIAAACLYLACKLEELPRTLKEIAKVSgVSEKEL 76
SUA7 COG1405
Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB ...
 15-171 3.95e-05

Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription];


Pssm-ID: 441015 [Multi-domain]  Cd Length: 309  Bit Score: 45.59  E-value: 3.95e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 698397856  15 RCLQRGIRRVQDLCKVLHLPTVFEETAVSYFQRALQhpsfhlvslekKELLGG--------CCVFVTCRQHNWPLTMGTI 86
Cdd:COG1405  120 RNLVQALSEIDRLASALGLPDSVRETAAVIYRKAVE-----------KGLLRGrsiegvaaAALYAACRQAGVPRTLDEI 188

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 698397856  87 CSLLYAKQELFASVYLSLQKELGLSVPALSLVDLVkthlnsfRLFQQAANIPapfvedkEKMVARTMQIVELASETWLVT 166
Cdd:COG1405  189 AEVSRVDRKEIARAYRLLNRELGLKVPPIDPIEYI-------PRIASELGLS-------EEVERRAREILEKAKEKGLTS 254


                 ....*
gi 698397856 167 GPHPS 171
Cdd:COG1405  255 GKNPA 259
CYCLIN_TFIIIB90_rpt1 cd20553
first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 17-80 2.78e-04

first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar proteins; TFIIIB90, also called B-related factor 1 (BRF-1), or TATA box-binding protein-associated factor, RNA polymerase III, subunit 2 (TAF3B2), is a general activator of RNA polymerase which utilizes different TFIIIB complexes at structurally distinct promoters. TFIIIB90 contains two cyclin boxes. This model corresponds to the first one. The cyclin box fold is generally a protein binding domain, but binds DNA in TFIIIB90.


Pssm-ID: 410256 [Multi-domain]  Cd Length: 91  Bit Score: 39.82  E-value: 2.78e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 698397856  17 LQRGIRRVQDLCKVLHLPTVFEETAVSYFQRALQHpsfHLVSLEKKELLGGCCVFVTCRQHNWP 80
Cdd:cd20553    3 LQNGRRKIQQLGSQLKLNQHHIDTAFRFYKLAVQR---NFTRGRKTSHVAAACLYIVCRREKTP 63
CYCLIN_RB-like cd20548
cyclin box found in retinoblastoma-associated protein (RB) family; The RB family includes ...
 13-94 6.94e-04

cyclin box found in retinoblastoma-associated protein (RB) family; The RB family includes retinoblastoma-associated protein (RB), and two retinoblastoma-like proteins, RBL1 and RBL2. RB, also called p105-Rb, pRb, or pp110, is a key regulator of entry into cell division, and also acts as a tumor suppressor. It promotes G0-G1 transition when phosphorylated by CDK3/cyclin-C. It also acts as a transcription repressor of E2F1 target genes. RB is directly involved in heterochromatin formation by maintaining overall chromatin structure. It recruits and targets histone methyltransferases SUV39H1, KMT5B and KMT5C, leading to epigenetic transcriptional repression. RBL1 and RBL2 are also key regulators of entry into cell division. RBL1 and RBL2 recruit and target histone methyltransferases KMT5B and KMT5C, leading to epigenetic transcriptional repression. They control histone H4 'Lys-20' trimethylation and probably act as transcription repressors by recruiting chromatin-modifying enzymes to promoters. They may also act as tumor suppressors. Members of this family contain one cyclin box. The cyclin box is a protein binding domain.


Pssm-ID: 410251  Cd Length: 122  Bit Score: 39.60  E-value: 6.94e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 698397856  13 LSRCLQRGIRRVQDLCKVLHL--PTVFEETAVSyFQRALQHPSFHLVSLEKKELLgGCCVFVTCRQHNWPLTMGTICSlL 90
Cdd:cd20548    5 FRKLYRLAAARLQDLCKRLDLlsPPLRERIWTV-FKHILSEETELLFDRHLDQII-LCSIYAVCKVNNENLTFKEILD-A 81


                 ....
gi 698397856  91 YAKQ 94
Cdd:cd20548   82 YRKQ 85
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 22-87 2.01e-03

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 37.19  E-value: 2.01e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 698397856    22 RRVQDLCKVLHLPTVFEETAVSYFQRALQHPSFHLVSLekkELLGGCCVFVTCRQHNWPLTMGTIC 87
Cdd:smart00385   1 DFLRRVCKALNLDPETLNLAVNLLDRFLSDYKFLKYSP---SLIAAAALYLASKTEETPPWTKELV 63
 
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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