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Conserved domains on  [gi|558212995|ref|XP_006134119|]
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transcription factor IIIB 50 kDa subunit [Pelodiscus sinensis]

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 ...
 66-162 1.09e-50

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: 164.76  E-value: 1.09e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  66 SRCTQRGIKRVQDLCKVLRLPAVFEDTALSYFQRAIKHPSFHLVRLEKKEILVGCCVFVTCRQHNWPLTMGTICSLLYAD 145
Cdd:cd20555    1 SRGLKQGLKRVRDLCRVLRLSSVMEETAVELFEQAFKHPDFRHIRLEKKEVLVGCCVYIVCRQNNWPVTMGDICSLLQCD 80

                         90
                 ....*....|....*..
gi 558212995 146 KELFASVYLAVLKELEL 162
Cdd:cd20555   81 VSDFSSVYKELLKELNI 97
SUA7 super family cl34255
Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB ...
 2-222 1.00e-14

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


The actual alignment was detected with superfamily member COG1405:

Pssm-ID: 441015 [Multi-domain]  Cd Length: 309  Bit Score: 74.09  E-value: 1.00e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995   2 SGPRKCPDCGSSDIVDDAHyaQNQLVCADCGFVLTEGLLTT-----TFQDEEHLQE------VTYSR------------- 57
Cdd:COG1405    9 EETSVCPECGGENLVTDTE--RGETVCEDCGLVVEEDVIDRgpewrAFDSEERDERsrtgapLTLARhdkglsteigwqd 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  58 --------STGQNEQLSRC-TQRGIKRVQD---------------LCKVLRLPAVFEDTALSYFQRAIKHpsfHLVRLEK 113
Cdd:COG1405   87 kdaygkslSGRKRRQLARLrKWQNRSRVSSskernlvqalseidrLASALGLPDSVRETAAVIYRKAVEK---GLLRGRS 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995 114 KEILVGCCVFVTCRQHNWPLTMGTICSLLYADKELFASVYLAVLKELELDVPALSLMDLVkthlnsfklfqssasipARF 193
Cdd:COG1405  164 IEGVAAAALYAACRQAGVPRTLDEIAEVSRVDRKEIARAYRLLNRELGLKVPPIDPIEYI-----------------PRI 226

                        250       260       270
                 ....*....|....*....|....*....|..
gi 558212995 194 AED---KDKMVARTIQIVELASETWLVTGRHP 222
Cdd:COG1405  227 ASElglSEEVERRAREILEKAKEKGLTSGKNP 258
 
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 ...
 66-162 1.09e-50

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: 164.76  E-value: 1.09e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  66 SRCTQRGIKRVQDLCKVLRLPAVFEDTALSYFQRAIKHPSFHLVRLEKKEILVGCCVFVTCRQHNWPLTMGTICSLLYAD 145
Cdd:cd20555    1 SRGLKQGLKRVRDLCRVLRLSSVMEETAVELFEQAFKHPDFRHIRLEKKEVLVGCCVYIVCRQNNWPVTMGDICSLLQCD 80

                         90
                 ....*....|....*..
gi 558212995 146 KELFASVYLAVLKELEL 162
Cdd:cd20555   81 VSDFSSVYKELLKELNI 97
SUA7 COG1405
Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB ...
 2-222 1.00e-14

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


Pssm-ID: 441015 [Multi-domain]  Cd Length: 309  Bit Score: 74.09  E-value: 1.00e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995   2 SGPRKCPDCGSSDIVDDAHyaQNQLVCADCGFVLTEGLLTT-----TFQDEEHLQE------VTYSR------------- 57
Cdd:COG1405    9 EETSVCPECGGENLVTDTE--RGETVCEDCGLVVEEDVIDRgpewrAFDSEERDERsrtgapLTLARhdkglsteigwqd 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  58 --------STGQNEQLSRC-TQRGIKRVQD---------------LCKVLRLPAVFEDTALSYFQRAIKHpsfHLVRLEK 113
Cdd:COG1405   87 kdaygkslSGRKRRQLARLrKWQNRSRVSSskernlvqalseidrLASALGLPDSVRETAAVIYRKAVEK---GLLRGRS 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995 114 KEILVGCCVFVTCRQHNWPLTMGTICSLLYADKELFASVYLAVLKELELDVPALSLMDLVkthlnsfklfqssasipARF 193
Cdd:COG1405  164 IEGVAAAALYAACRQAGVPRTLDEIAEVSRVDRKEIARAYRLLNRELGLKVPPIDPIEYI-----------------PRI 226

                        250       260       270
                 ....*....|....*....|....*....|..
gi 558212995 194 AED---KDKMVARTIQIVELASETWLVTGRHP 222
Cdd:COG1405  227 ASElglSEEVERRAREILEKAKEKGLTSGKNP 258
tfb PRK00423
transcription initiation factor IIB; Reviewed
 1-222 1.44e-11

transcription initiation factor IIB; Reviewed


Pssm-ID: 234758 [Multi-domain]  Cd Length: 310  Bit Score: 64.64  E-value: 1.44e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995   1 MSGPRKCPDCGSSDIVDDahYAQNQLVCADCGFVLTE------------------------GLLTTTFQDEEHLQEVTYS 56
Cdd:PRK00423   8 EEEKLVCPECGSDKLIYD--YERGEIVCADCGLVIEEniidqgpewrafdpeqrekrsrvgAPMTYTIHDKGLSTDIDWR 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  57 R--STGQN------EQLSRCT--QRGIkRVQD---------------LCKVLRLPAVFEDTALSYFQRAIKHpsfHLVRL 111
Cdd:PRK00423  86 NkdSYGKSisgknrAQLYRLRkwQRRI-RVSNaaernlafalseldrIASQLGLPRSVREEAAVIYRKAVEK---GLIRG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995 112 EKKEILVGCCVFVTCRQHNWPLTMGTICSLLYADKELFASVYLAVLKELELDVPALSLMDLVkthlnsfklfqssasipA 191
Cdd:PRK00423 162 RSIEGVVAAALYAACRRCKVPRTLDEIAEVSRVSRKEIGRCYRFLLRELNLKLPPTDPIDYV-----------------P 224

                        250       260       270
                 ....*....|....*....|....*....|....
gi 558212995 192 RFAED---KDKMVARTIQIVELASETWLVTGRHP 222
Cdd:PRK00423 225 RFASElglSGEVQKKAIEILQKAKEKGLTSGKGP 258
TF_Zn_Ribbon pfam08271
TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the ...
 5-37 2.22e-06

TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ribbon like structure.


Pssm-ID: 400527 [Multi-domain]  Cd Length: 43  Bit Score: 44.22  E-value: 2.22e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 558212995    5 RKCPDCGSSDIVDDahYAQNQLVCADCGFVLTE 37
Cdd:pfam08271   1 YKCPNCGSTNLVED--YERGELVCTDCGLVLED 31
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 63-142 9.76e-03

Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair];


Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 37.40  E-value: 9.76e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  63 EQLSRCTQRGIKRVQDLCKVLRLPAVFEDTALSYFQRaikhpsFHL---VRLEKKEILVGCCVFVTCRQHNWPLTMGTIC 139
Cdd:COG5333   39 EKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSR------FYLknsVEEISLYSVVTTCVYLACKVEDTPRDISIES 112


                 ...
gi 558212995 140 SLL 142
Cdd:COG5333  113 FEA 115
 
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 ...
 66-162 1.09e-50

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: 164.76  E-value: 1.09e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  66 SRCTQRGIKRVQDLCKVLRLPAVFEDTALSYFQRAIKHPSFHLVRLEKKEILVGCCVFVTCRQHNWPLTMGTICSLLYAD 145
Cdd:cd20555    1 SRGLKQGLKRVRDLCRVLRLSSVMEETAVELFEQAFKHPDFRHIRLEKKEVLVGCCVYIVCRQNNWPVTMGDICSLLQCD 80

                         90
                 ....*....|....*..
gi 558212995 146 KELFASVYLAVLKELEL 162
Cdd:cd20555   81 VSDFSSVYKELLKELNI 97
SUA7 COG1405
Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB ...
 2-222 1.00e-14

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


Pssm-ID: 441015 [Multi-domain]  Cd Length: 309  Bit Score: 74.09  E-value: 1.00e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995   2 SGPRKCPDCGSSDIVDDAHyaQNQLVCADCGFVLTEGLLTT-----TFQDEEHLQE------VTYSR------------- 57
Cdd:COG1405    9 EETSVCPECGGENLVTDTE--RGETVCEDCGLVVEEDVIDRgpewrAFDSEERDERsrtgapLTLARhdkglsteigwqd 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  58 --------STGQNEQLSRC-TQRGIKRVQD---------------LCKVLRLPAVFEDTALSYFQRAIKHpsfHLVRLEK 113
Cdd:COG1405   87 kdaygkslSGRKRRQLARLrKWQNRSRVSSskernlvqalseidrLASALGLPDSVRETAAVIYRKAVEK---GLLRGRS 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995 114 KEILVGCCVFVTCRQHNWPLTMGTICSLLYADKELFASVYLAVLKELELDVPALSLMDLVkthlnsfklfqssasipARF 193
Cdd:COG1405  164 IEGVAAAALYAACRQAGVPRTLDEIAEVSRVDRKEIARAYRLLNRELGLKVPPIDPIEYI-----------------PRI 226

                        250       260       270
                 ....*....|....*....|....*....|..
gi 558212995 194 AED---KDKMVARTIQIVELASETWLVTGRHP 222
Cdd:COG1405  227 ASElglSEEVERRAREILEKAKEKGLTSGKNP 258
tfb PRK00423
transcription initiation factor IIB; Reviewed
 1-222 1.44e-11

transcription initiation factor IIB; Reviewed


Pssm-ID: 234758 [Multi-domain]  Cd Length: 310  Bit Score: 64.64  E-value: 1.44e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995   1 MSGPRKCPDCGSSDIVDDahYAQNQLVCADCGFVLTE------------------------GLLTTTFQDEEHLQEVTYS 56
Cdd:PRK00423   8 EEEKLVCPECGSDKLIYD--YERGEIVCADCGLVIEEniidqgpewrafdpeqrekrsrvgAPMTYTIHDKGLSTDIDWR 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  57 R--STGQN------EQLSRCT--QRGIkRVQD---------------LCKVLRLPAVFEDTALSYFQRAIKHpsfHLVRL 111
Cdd:PRK00423  86 NkdSYGKSisgknrAQLYRLRkwQRRI-RVSNaaernlafalseldrIASQLGLPRSVREEAAVIYRKAVEK---GLIRG 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995 112 EKKEILVGCCVFVTCRQHNWPLTMGTICSLLYADKELFASVYLAVLKELELDVPALSLMDLVkthlnsfklfqssasipA 191
Cdd:PRK00423 162 RSIEGVVAAALYAACRRCKVPRTLDEIAEVSRVSRKEIGRCYRFLLRELNLKLPPTDPIDYV-----------------P 224

                        250       260       270
                 ....*....|....*....|....*....|....
gi 558212995 192 RFAED---KDKMVARTIQIVELASETWLVTGRHP 222
Cdd:PRK00423 225 RFASElglSGEVQKKAIEILQKAKEKGLTSGKGP 258
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 71-154 3.72e-08

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: 50.10  E-value: 3.72e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  71 RGIKRVQDLCKVLRLPAVFEDTALSYFQRAIKHPSFHLVRLEkkeILVGCCVFVTCRQHNWPLTMGTICSLLYADKELFA 150
Cdd:cd00043    1 KAVDFIRRLCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPE---LIAAACLYLACKLEELPRTLKEIAKVSGVSEKELR 77


                 ....
gi 558212995 151 SVYL 154
Cdd:cd00043   78 KAEK 81
TF_Zn_Ribbon pfam08271
TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the ...
 5-37 2.22e-06

TFIIB zinc-binding; The transcription factor TFIIB contains a zinc-binding motif near the N-terminus. This domain is involved in the interaction with RNA pol II and TFIIF and plays a crucial role in selecting the transcription initiation site. The domain adopts a zinc ribbon like structure.


Pssm-ID: 400527 [Multi-domain]  Cd Length: 43  Bit Score: 44.22  E-value: 2.22e-06
                          10        20        30
                  ....*....|....*....|....*....|...
gi 558212995    5 RKCPDCGSSDIVDDahYAQNQLVCADCGFVLTE 37
Cdd:pfam08271   1 YKCPNCGSTNLVED--YERGELVCTDCGLVLED 31
CYCLIN_TFIIB_rpt1 cd20551
first cyclin box found in transcription initiation factor IIB (TFIIB) and similar proteins; ...
 71-161 1.49e-04

first cyclin box found in transcription initiation factor IIB (TFIIB) and similar proteins; TFIIB, also called B-related factor 2 (BRF-2) or S300-II, is a general transcription factor that plays a role in transcription initiation by RNA polymerase II (Pol II). It is involved in the pre-initiation complex (PIC) formation and Pol II recruitment at promoter DNA. TFIIB 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 TFIIB.


Pssm-ID: 410254 [Multi-domain]  Cd Length: 88  Bit Score: 40.26  E-value: 1.49e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  71 RGIKRVQDLCKVLRLPAVFEDTALSYFQRAIKHPSfhlVRLEKKEILVGCCVFVTCRQHNWPLTMGTICSLLYADKELFA 150
Cdd:cd20551    1 AAFKEIGEMADRMNLPRTIKDRAKELFKQVHDQKS---LKGRSNDAIAAACLYIACRQEGVPRTFKEICAVSNVSKKEIG 77

                         90
                 ....*....|.
gi 558212995 151 SVYLAVLKELE 161
Cdd:cd20551   78 RCFKLILKALE 88
CYCLIN_TFIIIB90_rpt1 cd20553
first cyclin box found in transcription factor IIIB 90 kDa subunit (TFIIIB90) and similar ...
 70-160 7.92e-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: 38.28  E-value: 7.92e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  70 QRGIKRVQDLCKVLRLPAVFEDTALSYFQRAIkhpSFHLVRLEKKEILVGCCVFVTCRQHNWPLTMGTICSLLYADKELF 149
Cdd:cd20553    4 QNGRRKIQQLGSQLKLNQHHIDTAFRFYKLAV---QRNFTRGRKTSHVAAACLYIVCRREKTPHMLIDFSDVLQVNVYVL 80

                         90
                 ....*....|.
gi 558212995 150 ASVYLAVLKEL 160
Cdd:cd20553   81 GKTFLKLCKLL 91
CYCLIN_TFIIB_archaea_like_rpt1 cd20549
first cyclin box found in archaeal transcription initiation factor IIB (TFIIB) and similar ...
 83-162 1.51e-03

first cyclin box found in archaeal transcription initiation factor IIB (TFIIB) and similar proteins; Archaeal TFIIB stabilizes TATA-binding protein (TBP) binding to an archaeal box-A promoter. It is also responsible for recruiting RNA polymerase II to the pre-initiation complex (DNA-TBP-TFIIB). TFIIB 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 TFIIB.


Pssm-ID: 410252 [Multi-domain]  Cd Length: 99  Bit Score: 37.64  E-value: 1.51e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  83 LRLPAVFEDTALSYFQRAIKHpsfHLVRLEKKEILVGCCVFVTCRQHNWPLTMGTICSLLYADKELFASVYLAVLKELEL 162
Cdd:cd20549   23 LGLPRSVREEAAVIYRKAVEK---GLVRGRSIESVVAAALYAACRICNVPRTLDEIAEATRVSRKEIARCYRLLARELNL 99
CYCLIN_CCNH_rpt1 cd20524
first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 74-139 8.68e-03

first cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410228  Cd Length: 150  Bit Score: 36.42  E-value: 8.68e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  74 KRVQDLCKVLRLPAVFEDTALSYFQRaikhpsFHLVR--LEK--KEILVgCCVFVTCRQHNWPLTMGTIC 139
Cdd:cd20524   60 KKLLEFCRAFKLPDSVLATALTYFKR------FYLKNsvMEYhpKEIML-TCLYLACKVEEFNISIDQFV 122
CYCLIN_RB-like cd20548
cyclin box found in retinoblastoma-associated protein (RB) family; The RB family includes ...
 65-138 8.88e-03

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: 36.13  E-value: 8.88e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 558212995  65 LSRCTQRGIKRVQDLCKVLRL--PAVFEDTAlSYFQRAIKHPSFHLVRLEKKEILVgCCVFVTCRQHNWPLTMGTI 138
Cdd:cd20548    5 FRKLYRLAAARLQDLCKRLDLlsPPLRERIW-TVFKHILSEETELLFDRHLDQIIL-CSIYAVCKVNNENLTFKEI 78
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 63-142 9.76e-03

Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair];


Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 37.40  E-value: 9.76e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 558212995  63 EQLSRCTQRGIKRVQDLCKVLRLPAVFEDTALSYFQRaikhpsFHL---VRLEKKEILVGCCVFVTCRQHNWPLTMGTIC 139
Cdd:COG5333   39 EKELNLVIYYLKLIMDLCTRLNLPQTVLATAILFFSR------FYLknsVEEISLYSVVTTCVYLACKVEDTPRDISIES 112


                 ...
gi 558212995 140 SLL 142
Cdd:COG5333  113 FEA 115
 
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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