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Conserved domains on  [gi|4432963|dbj|BAA20885|]
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Cdc5, partial [Homo sapiens]

Protein Classification

SANT/Myb-like DNA-binding domain-containing protein( domain architecture ID 1001130)

SANT/Myb-like DNA-binding domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
REB1 super family cl34920
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 1-155 1.44e-39

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


The actual alignment was detected with superfamily member COG5147:

Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 139.15  E-value: 1.44e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4432963    1 GGVWKNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAKLMPTQWRTIAP 80
Cdd:COG5147  20 GGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIAD 99

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 4432963   81 II-GRTAAQCLEHYefllDKAAQRDNEEETTDDPRKLKPGEIDPNPETKPARPDPIDMDEDELEMLSEARARLANT 155
Cdd:COG5147 100 YKdRRTAQQCVERY----VNTLEDLSSTHDSKLQRRNEFDKIDPFNENSARRPDIYEDELLEREVNREASYRLRVP 171
 
Name Accession Description Interval E-value
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 1-155 1.44e-39

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 139.15  E-value: 1.44e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4432963    1 GGVWKNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAKLMPTQWRTIAP 80
Cdd:COG5147  20 GGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIAD 99

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 4432963   81 II-GRTAAQCLEHYefllDKAAQRDNEEETTDDPRKLKPGEIDPNPETKPARPDPIDMDEDELEMLSEARARLANT 155
Cdd:COG5147 100 YKdRRTAQQCVERY----VNTLEDLSSTHDSKLQRRNEFDKIDPFNENSARRPDIYEDELLEREVNREASYRLRVP 171
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 49-100 1.55e-30

SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, cell division cycle 5-like protein (CDC5) functions in pre-mRNA splicing in cell cycle control. The DNA-binding, myb-like domain of CDC5 is a member of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 212557 [Multi-domain]  Cd Length: 53  Bit Score: 104.70  E-value: 1.55e-30
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 4432963   49 PSIKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKA 100
Cdd:cd11659   1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTIAPIVGRTAQQCLERYNKLLDEA 52
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 4-64 2.16e-13

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 61.17  E-value: 2.16e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 4432963      4 WKNTEDEILKAAVMKYGkNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKL 64
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 2-129 6.61e-12

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 61.25  E-value: 6.61e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4432963     2 GVWKNTEDEILKAAVMKYGKNQWSRI---ASLLhrKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAKLMPTQWRTI 78
Cdd:PLN03212  26 GPWTVEEDEILVSFIKKEGEGRWRSLpkrAGLL--RCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLI 103

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 4432963    79 A-PIIGRTAAQCLEHYEFLLDKAAQRDNeeettDDPRKLKPgeIDPNPETKP 129
Cdd:PLN03212 104 AgRIPGRTDNEIKNYWNTHLRKKLLRQG-----IDPQTHKP--LDANNIHKP 148
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
1-49 1.98e-11

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 55.69  E-value: 1.98e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 4432963       1 GGVWKNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDP 49
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
 
Name Accession Description Interval E-value
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 1-155 1.44e-39

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 139.15  E-value: 1.44e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4432963    1 GGVWKNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAKLMPTQWRTIAP 80
Cdd:COG5147  20 GGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWSTIAD 99

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 4432963   81 II-GRTAAQCLEHYefllDKAAQRDNEEETTDDPRKLKPGEIDPNPETKPARPDPIDMDEDELEMLSEARARLANT 155
Cdd:COG5147 100 YKdRRTAQQCVERY----VNTLEDLSSTHDSKLQRRNEFDKIDPFNENSARRPDIYEDELLEREVNREASYRLRVP 171
SANT_CDC5_II cd11659
SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, ...
 49-100 1.55e-30

SANT/myb-like DNA-binding domain of Cell Division Cycle 5-Like Protein repeat II; In humans, cell division cycle 5-like protein (CDC5) functions in pre-mRNA splicing in cell cycle control. The DNA-binding, myb-like domain of CDC5 is a member of the SANT/myb group. SANT is named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. The SANT domain resembles the 3 alpha-helix bundle of DNA-binding Myb domains and is found in a diverse set of proteins.


Pssm-ID: 212557 [Multi-domain]  Cd Length: 53  Bit Score: 104.70  E-value: 1.55e-30
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 4432963   49 PSIKKTEWSREEEEKLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKA 100
Cdd:cd11659   1 PSIKKTEWTREEDEKLLHLAKLLPTQWRTIAPIVGRTAQQCLERYNKLLDEA 52
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 4-64 2.16e-13

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 61.17  E-value: 2.16e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 4432963      4 WKNTEDEILKAAVMKYGkNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEKL 64
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAKELGRRTPKQCFDRWRRKLNPKISRGPWSKEEDQRL 60
PLN03212 PLN03212
Transcription repressor MYB5; Provisional
 2-129 6.61e-12

Transcription repressor MYB5; Provisional


Pssm-ID: 178751 [Multi-domain]  Cd Length: 249  Bit Score: 61.25  E-value: 6.61e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4432963     2 GVWKNTEDEILKAAVMKYGKNQWSRI---ASLLhrKSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAKLMPTQWRTI 78
Cdd:PLN03212  26 GPWTVEEDEILVSFIKKEGEGRWRSLpkrAGLL--RCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRWSLI 103

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 4432963    79 A-PIIGRTAAQCLEHYEFLLDKAAQRDNeeettDDPRKLKPgeIDPNPETKP 129
Cdd:PLN03212 104 AgRIPGRTDNEIKNYWNTHLRKKLLRQG-----IDPQTHKP--LDANNIHKP 148
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
1-49 1.98e-11

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 55.69  E-value: 1.98e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 4432963       1 GGVWKNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDP 49
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 4-47 1.98e-11

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 55.66  E-value: 1.98e-11
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 4432963    4 WKNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWL 47
Cdd:cd00167   2 WTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 2-47 6.67e-11

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 54.05  E-value: 6.67e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 4432963      2 GVWKNTEDEILKAAVMKYGkNQWSRIASLLHRKSAKQCKARWYEWL 47
Cdd:pfam00249   2 GPWTPEEDELLLEAVEKLG-NRWKKIAKLLPGRTDNQCKNRWQNYL 46
PLN03091 PLN03091
hypothetical protein; Provisional
 2-124 7.09e-10

hypothetical protein; Provisional


Pssm-ID: 215570 [Multi-domain]  Cd Length: 459  Bit Score: 56.14  E-value: 7.09e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 4432963     2 GVWKNTEDEILKAAVMKYGKNQWSRIASL--LHRkSAKQCKARWYEWLDPSIKKTEWSREEEEKLLHLAKLMPTQWRTIA 79
Cdd:PLN03091  15 GLWSPEEDEKLLRHITKYGHGCWSSVPKQagLQR-CGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRWSQIA 93

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 4432963    80 P-IIGRTaaqclehyeflldkaaqrDNEEETTDDP---RKLKPGEIDPN 124
Cdd:PLN03091  94 AqLPGRT------------------DNEIKNLWNSclkKKLRQRGIDPN 124
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 53-93 2.70e-06

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 42.11  E-value: 2.70e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 4432963     53 KTEWSREEEEKLLHLAKLMPTQWRTIAPII-GRTAAQCLEHY 93
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLGNRWKKIAKLLpGRTDNQCKNRW 42
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
53-99 1.86e-05

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 39.90  E-value: 1.86e-05
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 4432963      53 KTEWSREEEEKLLHLAKLMPT-QWRTIAPIIG-RTAAQCLEHYEFLLDK 99
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKnNWEKIAKELPgRTAEQCRERWRNLLKP 49
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 55-97 1.10e-04

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 37.94  E-value: 1.10e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 4432963   55 EWSREEEEKLLHL-AKLMPTQWRTIAPIIG-RTAAQCLEHYEFLL 97
Cdd:cd00167   1 PWTEEEDELLLEAvKKYGKNNWEKIAKELPgRTPKQCRERWRNLL 45
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 4-43 3.08e-04

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 36.78  E-value: 3.08e-04
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 4432963    4 WKNTEDEILKAAVMKYGKNQWSRI---ASLLHRKSAKQCKARW 43
Cdd:cd11660   3 WTDEEDEALVEGVEKYGVGNWAKIlkdYFFVNNRTSVDLKDKW 45
REB1 COG5147
Myb superfamily proteins, including transcription factors and mRNA splicing factors ...
 2-65 6.62e-04

Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning];


Pssm-ID: 227476 [Multi-domain]  Cd Length: 512  Bit Score: 39.00  E-value: 6.62e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 4432963    2 GVWKNTEDEILKAAVMKYGKnQWSRIASLLHRKSAKqCKARWYEW--LDPSIKKTEWSREEEEKLL 65
Cdd:COG5147 292 GKWTKEEEQELAKLVVEHGG-SWTEIGKLLGRMPND-CRDRWRDYvkCGDTLKRNRWSIEEEELLD 355
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 56-109 4.36e-03

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 33.82  E-value: 4.36e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 4432963     56 WSREEEEKLLHLAKLMPTQWRTIAPIIG-RTAAQCLEHYEFLLDKAAQRD--NEEET 109
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYGNDWKQIAKELGrRTPKQCFDRWRRKLNPKISRGpwSKEED 57
 
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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