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Conserved domains on  [gi|633056432|gb|KDB31479|]
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hypothetical protein H112_06364 [Trichophyton rubrum D6]

Protein Classification

SET domain-containing protein( domain architecture ID 1562517)

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain-containing protein may function as a protein-lysine N-methyltransferase, catalyzing the S-adenosyl-L-methionine (SAM)-dependent methylation at specific lysine residues of target proteins such as histones

CATH:  2.170.270.10
EC:  2.1.1.-
Gene Ontology:  GO:0005515|GO:0008168|GO:1904047
PubMed:  12372294|17013555|16086857

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SET super family cl40432
SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily; The Su(var)3-9, ...
 779-854 3.28e-09

SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily; The Su(var)3-9, Enhancer-of-zeste, Trithorax (SET) domain superfamily corresponds to SET domain-containing lysine methyltransferases, which catalyze site and state-specific methylation of lysine residues in histones that are fundamental in epigenetic regulation of gene activation and silencing in eukaryotic organisms. SET domains appear to be protein-protein interaction domains. It has been demonstrated that SET domains mediate interactions with a family of proteins that display similarity with dual-specificity phosphatases (dsPTPases). A subset of SET domains has been called PR domains. These domains are divergent in sequence from other SET domains, but also appear to mediate protein-protein interaction. The SET domain consists of two regions known as N-SET and C-SET. C-SET forms an unusual and conserved knot-like structure of probable functional importance. In addition to N-SET and C-SET, an insert region (I-SET) and flanking regions of high structural variability form part of the overall structure. Some family members contain a pre-SET domain, which is found in a number of histone methyltransferases (HMTase), and a post-SET domain, which harbors a zinc-binding site.


The actual alignment was detected with superfamily member cd20071:

Pssm-ID: 394802 [Multi-domain]  Cd Length: 122  Bit Score: 55.85  E-value: 3.28e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  779 FPNLYVFPAISVFNHACPPyhNVDWNWDTEipNRLILHANRFIKHGEELFIRYTKAPLPNNTAVR----LFGRSCLCPDC 854
Cdd:cd20071    47 EIGVGLFPLASLLNHSCDP--NAVVVFDGN--GTLRVRALRDIKAGEELTISYIDPLLPRTERRRelleKYGFTCSCPRC 122
PLN03088 super family cl33632
SGT1, suppressor of G2 allele of SKP1; Provisional
 234-275 7.16e-05

SGT1, suppressor of G2 allele of SKP1; Provisional


The actual alignment was detected with superfamily member PLN03088:

Pssm-ID: 215568 [Multi-domain]  Cd Length: 356  Bit Score: 46.32  E-value: 7.16e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 633056432  234 ALDMYTWAIHLSPYNPAFWTSRAYLYYQMGHFDLAIGDAYRA 275
Cdd:PLN03088   21 AVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKA 62
PTZ00449 super family cl33186
104 kDa microneme/rhoptry antigen; Provisional
 877-1064 3.21e-04

104 kDa microneme/rhoptry antigen; Provisional


The actual alignment was detected with superfamily member PTZ00449:

Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 45.07  E-value: 3.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  877 EPENSSSPGEPIQGPGLALWRSPEPSEEE-TSGDNGNTPGSRERRSGGNNQRRDAEADDQEEDEHEDYKSssqeesvsyS 955
Cdd:PTZ00449  500 EEEDSDKHDEPPEGPEASGLPPKAPGDKEgEEGEHEDSKESDEPKEGGKPGETKEGEVGKKPGPAKEHKP---------S 570

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  956 NINVYQGRTPFDYNQARERQPRNQTSDDDYQLAaqlvlQSMSTYPEPEVPQHSSQPSTQTRegqnsqqqgetrePPSSTA 1035
Cdd:PTZ00449  571 KIPTLSKKPEFPKDPKHPKDPEEPKKPKRPRSA-----QRPTRPKSPKLPELLDIPKSPKR-------------PESPKS 632

                         170       180       190
                  ....*....|....*....|....*....|.
gi 633056432 1036 ARvAMPPPSRGLGPR--ASLANTRCSKSPQA 1064
Cdd:PTZ00449  633 PK-RPPPPQRPSSPErpEGPKIIKSPKPPKS 662
 
Name Accession Description Interval E-value
SET_SMYD cd20071
SET domain (including SET domain and post-SET domain) found in SET and MYND domain-containing ...
 779-854 3.28e-09

SET domain (including SET domain and post-SET domain) found in SET and MYND domain-containing protein, and similar proteins; The family includes SET and MYND domain-containing proteins, SMYD1-SYMD5. SMYD1 (EC 2.1.1.43; also termed BOP) is a heart and muscle specific SET-MYND domain containing protein, which functions as a histone methyltransferase and regulates downstream gene transcription. It methylates histone H3 at 'Lys-4' (H3K4me), seems able to perform both mono-, di-, and trimethylation. SMYD2 (also termed HSKM-B, or lysine N-methyltransferase 3C (KMT3C)) functions as a histone methyltransferase that methylates both histones and non-histone proteins, including p53/TP53 and RB1. It specifically methylates histone H3 'Lys-4' (H3K4me) and dimethylates histone H3 'Lys-36' (H3K36me2). SMYD3 (also termed zinc finger MYND domain-containing protein 1) functions as a histone methyltransferase that specifically methylates 'Lys-4' of histone H3, inducing di- and tri-methylation, but not monomethylation. It also methylates 'Lys-5' of histone H4. SMYD3 plays an important role in transcriptional activation as a member of an RNA polymerase complex. SMYD4 functions as a potential tumor suppressor that plays a critical role in breast carcinogenesis at least partly through inhibiting the expression of PDGFR-alpha. SMYD5 (also termed protein NN8-4AG, or retinoic acid-induced protein 15) functions as histone lysine methyltransferase that mediates H4K20me3 at heterochromatin regions.


Pssm-ID: 380997 [Multi-domain]  Cd Length: 122  Bit Score: 55.85  E-value: 3.28e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  779 FPNLYVFPAISVFNHACPPyhNVDWNWDTEipNRLILHANRFIKHGEELFIRYTKAPLPNNTAVR----LFGRSCLCPDC 854
Cdd:cd20071    47 EIGVGLFPLASLLNHSCDP--NAVVVFDGN--GTLRVRALRDIKAGEELTISYIDPLLPRTERRRelleKYGFTCSCPRC 122
PLN03088 PLN03088
SGT1, suppressor of G2 allele of SKP1; Provisional
 234-275 7.16e-05

SGT1, suppressor of G2 allele of SKP1; Provisional


Pssm-ID: 215568 [Multi-domain]  Cd Length: 356  Bit Score: 46.32  E-value: 7.16e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 633056432  234 ALDMYTWAIHLSPYNPAFWTSRAYLYYQMGHFDLAIGDAYRA 275
Cdd:PLN03088   21 AVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKA 62
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 877-1064 3.21e-04

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 45.07  E-value: 3.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  877 EPENSSSPGEPIQGPGLALWRSPEPSEEE-TSGDNGNTPGSRERRSGGNNQRRDAEADDQEEDEHEDYKSssqeesvsyS 955
Cdd:PTZ00449  500 EEEDSDKHDEPPEGPEASGLPPKAPGDKEgEEGEHEDSKESDEPKEGGKPGETKEGEVGKKPGPAKEHKP---------S 570

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  956 NINVYQGRTPFDYNQARERQPRNQTSDDDYQLAaqlvlQSMSTYPEPEVPQHSSQPSTQTRegqnsqqqgetrePPSSTA 1035
Cdd:PTZ00449  571 KIPTLSKKPEFPKDPKHPKDPEEPKKPKRPRSA-----QRPTRPKSPKLPELLDIPKSPKR-------------PESPKS 632

                         170       180       190
                  ....*....|....*....|....*....|.
gi 633056432 1036 ARvAMPPPSRGLGPR--ASLANTRCSKSPQA 1064
Cdd:PTZ00449  633 PK-RPPPPQRPSSPErpEGPKIIKSPKPPKS 662
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
234-275 2.57e-03

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 40.76  E-value: 2.57e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 633056432  234 ALDMYTWAIHLSPYNPAFWTSRAYLYYQMGHFDLAIGDAYRA 275
Cdd:COG0457    95 ALEDYDKALELDPDDAEALYNLGLALLELGRYDEAIEAYERA 136
SET pfam00856
SET domain; SET domains are protein lysine methyltransferase enzymes. SET domains appear to be ...
 791-831 4.37e-03

SET domain; SET domains are protein lysine methyltransferase enzymes. SET domains appear to be protein-protein interaction domains. It has been demonstrated that SET domains mediate interactions with a family of proteins that display similarity with dual-specificity phosphatases (dsPTPases). A subset of SET domains have been called PR domains. These domains are divergent in sequence from other SET domains, but also appear to mediate protein-protein interaction. The SET domain consists of two regions known as SET-N and SET-C. SET-C forms an unusual and conserved knot-like structure of probably functional importance. Additionally to SET-N and SET-C, an insert region (SET-I) and flanking regions of high structural variability form part of the overall structure.


Pssm-ID: 459965 [Multi-domain]  Cd Length: 115  Bit Score: 38.27  E-value: 4.37e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 633056432   791 FNHACPPyhNVDWNWDTEIPN-RLILHANRFIKHGEELFIRY 831
Cdd:pfam00856   75 INHSCDP--NCEVRVVYVNGGpRIVIFALRDIKPGEELTIDY 114
 
Name Accession Description Interval E-value
SET_SMYD cd20071
SET domain (including SET domain and post-SET domain) found in SET and MYND domain-containing ...
 779-854 3.28e-09

SET domain (including SET domain and post-SET domain) found in SET and MYND domain-containing protein, and similar proteins; The family includes SET and MYND domain-containing proteins, SMYD1-SYMD5. SMYD1 (EC 2.1.1.43; also termed BOP) is a heart and muscle specific SET-MYND domain containing protein, which functions as a histone methyltransferase and regulates downstream gene transcription. It methylates histone H3 at 'Lys-4' (H3K4me), seems able to perform both mono-, di-, and trimethylation. SMYD2 (also termed HSKM-B, or lysine N-methyltransferase 3C (KMT3C)) functions as a histone methyltransferase that methylates both histones and non-histone proteins, including p53/TP53 and RB1. It specifically methylates histone H3 'Lys-4' (H3K4me) and dimethylates histone H3 'Lys-36' (H3K36me2). SMYD3 (also termed zinc finger MYND domain-containing protein 1) functions as a histone methyltransferase that specifically methylates 'Lys-4' of histone H3, inducing di- and tri-methylation, but not monomethylation. It also methylates 'Lys-5' of histone H4. SMYD3 plays an important role in transcriptional activation as a member of an RNA polymerase complex. SMYD4 functions as a potential tumor suppressor that plays a critical role in breast carcinogenesis at least partly through inhibiting the expression of PDGFR-alpha. SMYD5 (also termed protein NN8-4AG, or retinoic acid-induced protein 15) functions as histone lysine methyltransferase that mediates H4K20me3 at heterochromatin regions.


Pssm-ID: 380997 [Multi-domain]  Cd Length: 122  Bit Score: 55.85  E-value: 3.28e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  779 FPNLYVFPAISVFNHACPPyhNVDWNWDTEipNRLILHANRFIKHGEELFIRYTKAPLPNNTAVR----LFGRSCLCPDC 854
Cdd:cd20071    47 EIGVGLFPLASLLNHSCDP--NAVVVFDGN--GTLRVRALRDIKAGEELTISYIDPLLPRTERRRelleKYGFTCSCPRC 122
SET_SpSet7-like cd10540
SET domain found in Schizossacharomyces pombe Set7 and similar proteins; Schizosaccharomyces ...
 747-831 4.78e-05

SET domain found in Schizossacharomyces pombe Set7 and similar proteins; Schizosaccharomyces pombe Set7 is a novel histone-lysine N-methyltransferase. The family also includes a viral histone H3 lysine 27 methyltransferase from Paramecium bursaria Chlorella virus 1 (PBCV-1).


Pssm-ID: 380938  Cd Length: 112  Bit Score: 43.78  E-value: 4.78e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  747 REDIPEtqDEIIERTREISkFTPSESNLIMPTFPNLYVFP------AI-----SVFNHACPPyhNVDWNWDTEiPNRLIL 815
Cdd:cd10540    17 TRPIKK--GEVIEEAPVIV-LPKEEYQHLCKTVLDHYVFSwgdgclALalgygSMFNHSYTP--NAEYEIDFE-NQTIVF 90

                          90
                  ....*....|....*.
gi 633056432  816 HANRFIKHGEELFIRY 831
Cdd:cd10540    91 YALRDIEAGEELTINY 106
PLN03088 PLN03088
SGT1, suppressor of G2 allele of SKP1; Provisional
 234-275 7.16e-05

SGT1, suppressor of G2 allele of SKP1; Provisional


Pssm-ID: 215568 [Multi-domain]  Cd Length: 356  Bit Score: 46.32  E-value: 7.16e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 633056432  234 ALDMYTWAIHLSPYNPAFWTSRAYLYYQMGHFDLAIGDAYRA 275
Cdd:PLN03088   21 AVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKA 62
PTZ00449 PTZ00449
104 kDa microneme/rhoptry antigen; Provisional
 877-1064 3.21e-04

104 kDa microneme/rhoptry antigen; Provisional


Pssm-ID: 185628 [Multi-domain]  Cd Length: 943  Bit Score: 45.07  E-value: 3.21e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  877 EPENSSSPGEPIQGPGLALWRSPEPSEEE-TSGDNGNTPGSRERRSGGNNQRRDAEADDQEEDEHEDYKSssqeesvsyS 955
Cdd:PTZ00449  500 EEEDSDKHDEPPEGPEASGLPPKAPGDKEgEEGEHEDSKESDEPKEGGKPGETKEGEVGKKPGPAKEHKP---------S 570

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 633056432  956 NINVYQGRTPFDYNQARERQPRNQTSDDDYQLAaqlvlQSMSTYPEPEVPQHSSQPSTQTRegqnsqqqgetrePPSSTA 1035
Cdd:PTZ00449  571 KIPTLSKKPEFPKDPKHPKDPEEPKKPKRPRSA-----QRPTRPKSPKLPELLDIPKSPKR-------------PESPKS 632

                         170       180       190
                  ....*....|....*....|....*....|.
gi 633056432 1036 ARvAMPPPSRGLGPR--ASLANTRCSKSPQA 1064
Cdd:PTZ00449  633 PK-RPPPPQRPSSPErpEGPKIIKSPKPPKS 662
SET_LSMT cd10527
SET domain found in Rubisco large subunit methyltransferase (LSMT) and similar proteins; ...
 791-838 5.05e-04

SET domain found in Rubisco large subunit methyltransferase (LSMT) and similar proteins; Rubisco LSMT is a non-histone protein methyl transferase responsible for the trimethylation of lysine14 in the large subunit of Rubisco (ribulose-1,5-bisphosphate carboxylase/oxygenase). The family also includes SET domain-containing proteins, SETD3, SETD4 and SETD6, which belong to methyltransferase class VII that represents classical non-histone SET domain methyltransferases. Members in this family contain a SET domain and a C-terminal RubisCO LSMT substrate-binding (Rubis-subs-bind) domain.


Pssm-ID: 380925 [Multi-domain]  Cd Length: 236  Bit Score: 42.82  E-value: 5.05e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 633056432  791 FNHAcPPYHNVDWNWDTEiPNRLILHANRFIKHGEELFIRYtkAPLPN 838
Cdd:cd10527   183 LNHS-PDAPNVRYEYDED-EGSFVLVATRDIAAGEEVFISY--GPKSN 226
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
234-275 2.57e-03

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 40.76  E-value: 2.57e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 633056432  234 ALDMYTWAIHLSPYNPAFWTSRAYLYYQMGHFDLAIGDAYRA 275
Cdd:COG0457    95 ALEDYDKALELDPDDAEALYNLGLALLELGRYDEAIEAYERA 136
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 234-278 3.09e-03

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 39.56  E-value: 3.09e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 633056432  234 ALDMYTWAIHLSPYNPAFWTSRAYLYYQMGHFDLAIGDAYRAQLL 278
Cdd:COG5010    73 SLALLEQALQLDPNNPELYYNLALLYSRSGDKDEAKEYYEKALAL 117
SET pfam00856
SET domain; SET domains are protein lysine methyltransferase enzymes. SET domains appear to be ...
 791-831 4.37e-03

SET domain; SET domains are protein lysine methyltransferase enzymes. SET domains appear to be protein-protein interaction domains. It has been demonstrated that SET domains mediate interactions with a family of proteins that display similarity with dual-specificity phosphatases (dsPTPases). A subset of SET domains have been called PR domains. These domains are divergent in sequence from other SET domains, but also appear to mediate protein-protein interaction. The SET domain consists of two regions known as SET-N and SET-C. SET-C forms an unusual and conserved knot-like structure of probably functional importance. Additionally to SET-N and SET-C, an insert region (SET-I) and flanking regions of high structural variability form part of the overall structure.


Pssm-ID: 459965 [Multi-domain]  Cd Length: 115  Bit Score: 38.27  E-value: 4.37e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 633056432   791 FNHACPPyhNVDWNWDTEIPN-RLILHANRFIKHGEELFIRY 831
Cdd:pfam00856   75 INHSCDP--NCEVRVVYVNGGpRIVIFALRDIKPGEELTIDY 114
NlpI COG4785
Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];
233-289 5.01e-03

Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 443815 [Multi-domain]  Cd Length: 223  Bit Score: 39.90  E-value: 5.01e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 633056432  233 SALDMYTWAIHLSPYNPAFWTSRAYLYYQMGHFDLAIGDAYRA-QLLCEKLVNPLNRH 289
Cdd:COG4785   125 AALEDFDRALELDPDYAYAYLNRGIALYYLGRYELAIADLEKAlELDPNDPERALWLY 182
 
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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