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Conserved domains on  [gi|193209002|ref|NP_507574|]
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Skp1_POZ domain-containing protein [Caenorhabditis elegans]

Protein Classification

SKP1 family protein( domain architecture ID 13605747)

SKP1 family protein may be a component of E3 ubiquitin ligase SCF complex involved in ubiquitination and subsequent proteasomal degradation of target proteins

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
BTB_POZ super family cl38908
BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain ...
 1-77 2.24e-31

BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain superfamily; Proteins in this superfamily are characterized by the presence of a common protein-protein interaction motif of about 100 amino acids, known as the BTB/POZ domain. Members include transcription factors, oncogenic proteins, ion channel proteins, and potassium channel tetramerization domain (KCTD) proteins. They have been identified in poxviruses and many eukaryotes, and have diverse functions, such as transcriptional regulation, chromatin remodeling, protein degradation and cytoskeletal regulation. Many BTB/POZ proteins contain one or two additional domains, such as kelch repeats, zinc-finger domains, FYVE (Fab1, YOTB, Vac1, and EEA1) fingers, or ankyrin repeats, among others. These special additional domains or interaction partners provide unique characteristics and functions to BTB/POZ proteins. In ion channel proteins and KCTD proteins, the BTB/POZ domain is also called the tetramerization (T1) domain.


The actual alignment was detected with superfamily member cd18322:

Pssm-ID: 453885  Cd Length: 120  Bit Score: 106.91  E-value: 2.24e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193209002   1 MDAIPLTKVDAKIFEKIIEYCE-HQGTP-------RPLLNGEIGEWDSEFLKLDQNTLFDLVLAANYLNIENLFDVTTQF 72
Cdd:cd18322   36 DDPIPLPNVTSKILKKVIEWCEhHKDDPppeidldSEKRTDDIPEWDAEFLKVDQDTLFELILAANYLDIKGLLDLTCKT 115


                 ....*
gi 193209002  73 IANMM 77
Cdd:cd18322  116 VANMI 120
Skp1 pfam01466
Skp1 family, dimerization domain;
65-93 1.54e-06

Skp1 family, dimerization domain;


:

Pssm-ID: 460222  Cd Length: 48  Bit Score: 41.72  E-value: 1.54e-06
                          10        20
                  ....*....|....*....|....*....
gi 193209002   65 LFDVTTQFIANMMKNNTPSQIRARFGVSN 93
Cdd:pfam01466   3 LLDLTCKTVADMIKGKTPEEIREIFNIEN 31
 
Name Accession Description Interval E-value
BTB_POZ_SKP1 cd18322
BTB (Broad-Complex, Tramtrack and Bric a brac) /POZ (poxvirus and zinc finger) domain found in ...
 1-77 2.24e-31

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: 106.91  E-value: 2.24e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193209002   1 MDAIPLTKVDAKIFEKIIEYCE-HQGTP-------RPLLNGEIGEWDSEFLKLDQNTLFDLVLAANYLNIENLFDVTTQF 72
Cdd:cd18322   36 DDPIPLPNVTSKILKKVIEWCEhHKDDPppeidldSEKRTDDIPEWDAEFLKVDQDTLFELILAANYLDIKGLLDLTCKT 115


                 ....*
gi 193209002  73 IANMM 77
Cdd:cd18322  116 VANMI 120
Skp1 smart00512
Found in Skp1 protein family; Family of Skp1 (kinetochore protein required for cell cycle ...
 2-62 2.74e-23

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: 85.81  E-value: 2.74e-23
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 193209002     2 DAIPLTKVDAKIFEKIIEYCEHQGTPRPLLN--GEIGEWDSEFLKLDQNTLFDLVLAANYLNI 62
Cdd:smart00512  42 NPIPLPNVTSKILSKVIEYCEHHVDDPPSVAdkDDIPTWDAEFLKIDQETLFELILAANYLDI 104
SKP1 COG5201
SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, ...
 4-101 2.66e-21

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


Pssm-ID: 227528 [Multi-domain]  Cd Length: 158  Bit Score: 82.30  E-value: 2.66e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193209002   4 IPLTKVDAKIFEKIIEYCEH---QGTP-----RPLLNGEIGEWDSEFLKLDQNTLFDLVLAANYLNIENLFDVTTQFIAN 75
Cdd:COG5201   41 IPAPNVRSSVLMKVQEWMEHhtsSLSEdendlEIRKSKPSDFWDRFFMEVDQEMLLEICLAANYLEIKPLLDLGCKIVAE 120

                         90       100
                 ....*....|....*....|....*.
gi 193209002  76 MMKNNTPSQIRARFGVSNKHSSAEDR 101
Cdd:COG5201  121 MIRGKSPEEIRETFNIENDFTPEEER 146
Skp1 pfam01466
Skp1 family, dimerization domain;
65-93 1.54e-06

Skp1 family, dimerization domain;


Pssm-ID: 460222  Cd Length: 48  Bit Score: 41.72  E-value: 1.54e-06
                          10        20
                  ....*....|....*....|....*....
gi 193209002   65 LFDVTTQFIANMMKNNTPSQIRARFGVSN 93
Cdd:pfam01466   3 LLDLTCKTVADMIKGKTPEEIREIFNIEN 31
Skp1_POZ pfam03931
Skp1 family, tetramerization domain;
1-23 3.29e-05

Skp1 family, tetramerization domain;


Pssm-ID: 397838  Cd Length: 60  Bit Score: 38.44  E-value: 3.29e-05
                          10        20
                  ....*....|....*....|...
gi 193209002    1 MDAIPLTKVDAKIFEKIIEYCEH 23
Cdd:pfam03931  35 DDPIPLPNVTSKILEKVIEYCKH 57
 
Name Accession Description Interval E-value
BTB_POZ_SKP1 cd18322
BTB (Broad-Complex, Tramtrack and Bric a brac) /POZ (poxvirus and zinc finger) domain found in ...
 1-77 2.24e-31

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: 106.91  E-value: 2.24e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193209002   1 MDAIPLTKVDAKIFEKIIEYCE-HQGTP-------RPLLNGEIGEWDSEFLKLDQNTLFDLVLAANYLNIENLFDVTTQF 72
Cdd:cd18322   36 DDPIPLPNVTSKILKKVIEWCEhHKDDPppeidldSEKRTDDIPEWDAEFLKVDQDTLFELILAANYLDIKGLLDLTCKT 115


                 ....*
gi 193209002  73 IANMM 77
Cdd:cd18322  116 VANMI 120
Skp1 smart00512
Found in Skp1 protein family; Family of Skp1 (kinetochore protein required for cell cycle ...
 2-62 2.74e-23

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: 85.81  E-value: 2.74e-23
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 193209002     2 DAIPLTKVDAKIFEKIIEYCEHQGTPRPLLN--GEIGEWDSEFLKLDQNTLFDLVLAANYLNI 62
Cdd:smart00512  42 NPIPLPNVTSKILSKVIEYCEHHVDDPPSVAdkDDIPTWDAEFLKIDQETLFELILAANYLDI 104
SKP1 COG5201
SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, ...
 4-101 2.66e-21

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


Pssm-ID: 227528 [Multi-domain]  Cd Length: 158  Bit Score: 82.30  E-value: 2.66e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 193209002   4 IPLTKVDAKIFEKIIEYCEH---QGTP-----RPLLNGEIGEWDSEFLKLDQNTLFDLVLAANYLNIENLFDVTTQFIAN 75
Cdd:COG5201   41 IPAPNVRSSVLMKVQEWMEHhtsSLSEdendlEIRKSKPSDFWDRFFMEVDQEMLLEICLAANYLEIKPLLDLGCKIVAE 120

                         90       100
                 ....*....|....*....|....*.
gi 193209002  76 MMKNNTPSQIRARFGVSNKHSSAEDR 101
Cdd:COG5201  121 MIRGKSPEEIRETFNIENDFTPEEER 146
Skp1 pfam01466
Skp1 family, dimerization domain;
65-93 1.54e-06

Skp1 family, dimerization domain;


Pssm-ID: 460222  Cd Length: 48  Bit Score: 41.72  E-value: 1.54e-06
                          10        20
                  ....*....|....*....|....*....
gi 193209002   65 LFDVTTQFIANMMKNNTPSQIRARFGVSN 93
Cdd:pfam01466   3 LLDLTCKTVADMIKGKTPEEIREIFNIEN 31
Skp1_POZ pfam03931
Skp1 family, tetramerization domain;
1-23 3.29e-05

Skp1 family, tetramerization domain;


Pssm-ID: 397838  Cd Length: 60  Bit Score: 38.44  E-value: 3.29e-05
                          10        20
                  ....*....|....*....|...
gi 193209002    1 MDAIPLTKVDAKIFEKIIEYCEH 23
Cdd:pfam03931  35 DDPIPLPNVTSKILEKVIEYCKH 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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