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Conserved domains on  [gi|398366491|ref|NP_010615|]
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SCF ubiquitin ligase subunit SKP1 [Saccharomyces cerevisiae S288C]

Protein Classification

SKP1 family protein( domain architecture ID 11474129)

SKP1 (Suppressor Of Kinetochore Protein 1) family protein is an essential component of SCF (SKP1-CUL1-F-box protein) E3 ubiquitin ligase complexes, which mediate the ubiquitination and subsequent proteasomal degradation of target proteins

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SKP1 COG5201
SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, ...
 3-194 5.00e-84

SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones];


:

Pssm-ID: 227528 [Multi-domain]  Cd Length: 158  Bit Score: 245.24  E-value: 5.00e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491   3 TSNVVLVSGEGERFTVDKKIAERSLLLKNYLNDMHDSNLQnnsdsesdsdsetnhkskdnnngddddedddeivMPVPNV 82
Cdd:COG5201    1 MSMIELESIDGEIFRVDENIAERSILIKNMLCDSTACNYP----------------------------------IPAPNV 46

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491  83 RSSVLQKVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRS 162
Cdd:COG5201   47 RSSVLMKVQEWMEHHTSSLSEDENDLEIRKSKPSDFWDRFFMEVDQEMLLEICLAANYLEIKPLLDLGCKIVAEMIRGKS 126

                        170       180       190
                 ....*....|....*....|....*....|..
gi 398366491 163 PEEIRRTFNIVNDFTPEEEAAIRRENEWAEDR 194
Cdd:COG5201  127 PEEIRETFNIENDFTPEEERRIRKENEWAEDR 158
 
Name Accession Description Interval E-value
SKP1 COG5201
SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, ...
 3-194 5.00e-84

SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 227528 [Multi-domain]  Cd Length: 158  Bit Score: 245.24  E-value: 5.00e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491   3 TSNVVLVSGEGERFTVDKKIAERSLLLKNYLNDMHDSNLQnnsdsesdsdsetnhkskdnnngddddedddeivMPVPNV 82
Cdd:COG5201    1 MSMIELESIDGEIFRVDENIAERSILIKNMLCDSTACNYP----------------------------------IPAPNV 46

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491  83 RSSVLQKVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRS 162
Cdd:COG5201   47 RSSVLMKVQEWMEHHTSSLSEDENDLEIRKSKPSDFWDRFFMEVDQEMLLEICLAANYLEIKPLLDLGCKIVAEMIRGKS 126

                        170       180       190
                 ....*....|....*....|....*....|..
gi 398366491 163 PEEIRRTFNIVNDFTPEEEAAIRRENEWAEDR 194
Cdd:COG5201  127 PEEIRETFNIENDFTPEEERRIRKENEWAEDR 158
BTB_POZ_SKP1 cd18322
BTB (Broad-Complex, Tramtrack and Bric a brac) /POZ (poxvirus and zinc finger) domain found in ...
 5-158 9.97e-50

BTB (Broad-Complex, Tramtrack and Bric a brac) /POZ (poxvirus and zinc finger) domain found in S-phase kinase-associated protein 1 (SKP1) and similar proteins; SKP1 is also called cyclin-A/CDK2-associated protein p19 (p19A), organ of Corti protein 2 (OCP-2), organ of Corti protein II (OCP-II), RNA polymerase II elongation factor-like protein, transcription elongation factor B polypeptide 1-like, or p19skp1. It is an essential component of the SCF (SKP1-CUL1-F-box protein) ubiquitin ligase complex, which mediates the ubiquitination of proteins involved in cell cycle progression, signal transduction and transcription. SKP1 serves as an adaptor protein that links the F-box protein to CUL1. SKP1 and CUL1 are invariant components of all SCF complexes, while F-box proteins are variable substrate binding modules that determine specificity. SKP1 belongs to the BTB/POZ domain family; the domain is a common protein-protein interaction motif of about 100 amino acids.


Pssm-ID: 349631  Cd Length: 120  Bit Score: 156.98  E-value: 9.97e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491   5 NVVLVSGEGERFTVDKKIAERSLLLKNYLNDMHDSNlqnnsdsesdsdsetnhkskdnnngddddedddeIVMPVPNVRS 84
Cdd:cd18322    1 KIKLQSSDGEIFEVDEEVARQSVTIKNMLEDLGYDD----------------------------------DPIPLPNVTS 46

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 398366491  85 SVLQKVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMI 158
Cdd:cd18322   47 KILKKVIEWCEHHKDDPPPEIDLDSEKRTDDIPEWDAEFLKVDQDTLFELILAANYLDIKGLLDLTCKTVANMI 120
Skp1 smart00512
Found in Skp1 protein family; Family of Skp1 (kinetochore protein required for cell cycle ...
 6-143 6.17e-32

Found in Skp1 protein family; Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.


Pssm-ID: 214704  Cd Length: 104  Bit Score: 111.23  E-value: 6.17e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491     6 VVLVSGEGERFTVDKKIAERSLLLKNYLNDMHDSNLQNNsdsesdsdsetnhkskdnnngddddedddeiVMPVPNVRSS 85
Cdd:smart00512   4 IKLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDENNN-------------------------------PIPLPNVTSK 52

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 398366491    86 VLQKVIEWAEHHRDSNFPDEDDDDsrksapVDSWDREFLKVDQEMLYEIILAANYLNI 143
Cdd:smart00512  53 ILSKVIEYCEHHVDDPPSVADKDD------IPTWDAEFLKIDQETLFELILAANYLDI 104
Skp1 pfam01466
Skp1 family, dimerization domain;
144-191 2.14e-24

Skp1 family, dimerization domain;


Pssm-ID: 460222  Cd Length: 48  Bit Score: 90.25  E-value: 2.14e-24
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 398366491  144 KPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRRENEWA 191
Cdd:pfam01466   1 KGLLDLTCKTVADMIKGKTPEEIREIFNIENDFTPEEEEEIRKENAWA 48
 
Name Accession Description Interval E-value
SKP1 COG5201
SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, ...
 3-194 5.00e-84

SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 227528 [Multi-domain]  Cd Length: 158  Bit Score: 245.24  E-value: 5.00e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491   3 TSNVVLVSGEGERFTVDKKIAERSLLLKNYLNDMHDSNLQnnsdsesdsdsetnhkskdnnngddddedddeivMPVPNV 82
Cdd:COG5201    1 MSMIELESIDGEIFRVDENIAERSILIKNMLCDSTACNYP----------------------------------IPAPNV 46

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491  83 RSSVLQKVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMIRGRS 162
Cdd:COG5201   47 RSSVLMKVQEWMEHHTSSLSEDENDLEIRKSKPSDFWDRFFMEVDQEMLLEICLAANYLEIKPLLDLGCKIVAEMIRGKS 126

                        170       180       190
                 ....*....|....*....|....*....|..
gi 398366491 163 PEEIRRTFNIVNDFTPEEEAAIRRENEWAEDR 194
Cdd:COG5201  127 PEEIRETFNIENDFTPEEERRIRKENEWAEDR 158
BTB_POZ_SKP1 cd18322
BTB (Broad-Complex, Tramtrack and Bric a brac) /POZ (poxvirus and zinc finger) domain found in ...
 5-158 9.97e-50

BTB (Broad-Complex, Tramtrack and Bric a brac) /POZ (poxvirus and zinc finger) domain found in S-phase kinase-associated protein 1 (SKP1) and similar proteins; SKP1 is also called cyclin-A/CDK2-associated protein p19 (p19A), organ of Corti protein 2 (OCP-2), organ of Corti protein II (OCP-II), RNA polymerase II elongation factor-like protein, transcription elongation factor B polypeptide 1-like, or p19skp1. It is an essential component of the SCF (SKP1-CUL1-F-box protein) ubiquitin ligase complex, which mediates the ubiquitination of proteins involved in cell cycle progression, signal transduction and transcription. SKP1 serves as an adaptor protein that links the F-box protein to CUL1. SKP1 and CUL1 are invariant components of all SCF complexes, while F-box proteins are variable substrate binding modules that determine specificity. SKP1 belongs to the BTB/POZ domain family; the domain is a common protein-protein interaction motif of about 100 amino acids.


Pssm-ID: 349631  Cd Length: 120  Bit Score: 156.98  E-value: 9.97e-50
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491   5 NVVLVSGEGERFTVDKKIAERSLLLKNYLNDMHDSNlqnnsdsesdsdsetnhkskdnnngddddedddeIVMPVPNVRS 84
Cdd:cd18322    1 KIKLQSSDGEIFEVDEEVARQSVTIKNMLEDLGYDD----------------------------------DPIPLPNVTS 46

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 398366491  85 SVLQKVIEWAEHHRDSNFPDEDDDDSRKSAPVDSWDREFLKVDQEMLYEIILAANYLNIKPLLDAGCKVVAEMI 158
Cdd:cd18322   47 KILKKVIEWCEHHKDDPPPEIDLDSEKRTDDIPEWDAEFLKVDQDTLFELILAANYLDIKGLLDLTCKTVANMI 120
Skp1 smart00512
Found in Skp1 protein family; Family of Skp1 (kinetochore protein required for cell cycle ...
 6-143 6.17e-32

Found in Skp1 protein family; Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.


Pssm-ID: 214704  Cd Length: 104  Bit Score: 111.23  E-value: 6.17e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491     6 VVLVSGEGERFTVDKKIAERSLLLKNYLNDMHDSNLQNNsdsesdsdsetnhkskdnnngddddedddeiVMPVPNVRSS 85
Cdd:smart00512   4 IKLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDENNN-------------------------------PIPLPNVTSK 52

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 398366491    86 VLQKVIEWAEHHRDSNFPDEDDDDsrksapVDSWDREFLKVDQEMLYEIILAANYLNI 143
Cdd:smart00512  53 ILSKVIEYCEHHVDDPPSVADKDD------IPTWDAEFLKIDQETLFELILAANYLDI 104
Skp1 pfam01466
Skp1 family, dimerization domain;
144-191 2.14e-24

Skp1 family, dimerization domain;


Pssm-ID: 460222  Cd Length: 48  Bit Score: 90.25  E-value: 2.14e-24
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 398366491  144 KPLLDAGCKVVAEMIRGRSPEEIRRTFNIVNDFTPEEEAAIRRENEWA 191
Cdd:pfam01466   1 KGLLDLTCKTVADMIKGKTPEEIREIFNIENDFTPEEEEEIRKENAWA 48
Skp1_POZ pfam03931
Skp1 family, tetramerization domain;
6-99 6.35e-07

Skp1 family, tetramerization domain;


Pssm-ID: 397838  Cd Length: 60  Bit Score: 44.98  E-value: 6.35e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491    6 VVLVSGEGERFTVDKKIAERSLLLKNYLNDMHDSNLqnnsdsesdsdsetnhkskdnnngddddedddeivmPVPNVRSS 85
Cdd:pfam03931   3 IVLQSSDGESFEVEEAVARKSKTIKHMIEDDGDDPI------------------------------------PLPNVTSK 46

                          90
                  ....*....|....
gi 398366491   86 VLQKVIEWAEHHRD 99
Cdd:pfam03931  47 ILEKVIEYCKHHRV 60
BTB_POZ_EloC cd18321
BTB (Broad-Complex, Tramtrack and Bric a brac) /POZ (poxvirus and zinc finger) domain found in ...
 6-143 4.24e-04

BTB (Broad-Complex, Tramtrack and Bric a brac) /POZ (poxvirus and zinc finger) domain found in Elongin-C (EloC) and similar proteins; Elongin-C is also called elongin 15 kDa subunit, RNA polymerase II transcription factor SIII subunit C, SIII p15, or transcription elongation factor B polypeptide 1 (TCEB1). It is a component of SIII (also known as elongin), which is a general transcription elongation factor that increases the RNA polymerase II transcription elongation past template-encoded arresting sites. It forms a regulatory complex with subunit B or elongin-B (BC) that enhances the activity of the transcriptionally active subunit A. The BC complex also functions as an adaptor protein in the proteasomal degradation of target proteins via different E3 ubiquitin ligase complexes, including the von Hippel-Lindau ubiquitination complex CBC (VHL) and the suppressors of cytokine signaling (SOCS) box ubiquitin ligase family. Elongin-C belongs to the BTB/POZ domain family; the domain is a common protein-protein interaction motif of about 100 amino acids.


Pssm-ID: 349630  Cd Length: 95  Bit Score: 37.95  E-value: 4.24e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 398366491   6 VVLVSGEGERFTVDKKIAERSLLLKNYLNDmhdsnlqnnsdSESDSDSETNhkskdnnngddddedddeiVMPVPNVRSS 85
Cdd:cd18321    2 VKLISSDGHEFIVDREAAMVSGTIKAMLSG-----------PGQFAENETN-------------------EVRFPEISSH 51

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 398366491  86 VLQKVIEWAEHH-RDSNFPDEDdddsrksaPvdswdrEFlKVDQEMLYEIILAANYLNI 143
Cdd:cd18321   52 ILEKVCEYFYYKvRYTNSSTEI--------P------EF-PIPPEIALELLMAANFLDC 95
 
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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