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Conserved domains on  [gi|410248962|gb|JAA12448|]
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small nuclear ribonucleoprotein 25kDa (U11/U12) [Pan troglodytes]

Protein Classification

Ubl_SNRNP25 domain-containing protein( domain architecture ID 13018439)

Ubl_SNRNP25 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ubl_SNRNP25 cd17058
ubiquitin-like (Ubl) domain found in small nuclear ribonucleoprotein U11/U12 subunit 25 ...
 40-128 6.61e-53

ubiquitin-like (Ubl) domain found in small nuclear ribonucleoprotein U11/U12 subunit 25 (SNRNP25) and similar proteins; SNRNP25, also termed U11/U12 small nuclear ribonucleoprotein 25 kDa protein, U11/U12 snRNP 25 kDa protein (U11/U12-25K), or minus-99 protein, is a component of the U11/U12 snRNPs that are part of the U12-type spliceosome. It contains a conserved ubiquitin-like (Ubl) domain with a beta-grasp Ubl fold, a common structure involved in protein-protein interactions.


:

Pssm-ID: 340578  Cd Length: 89  Bit Score: 161.53  E-value: 6.61e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 410248962  40 AMTVRVCKMDGEVMPVVVVQSATVLDLKKAIQRYVQLKQEREGGIQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRN 119
Cdd:cd17058    1 AITLSVLRLDGESLPVVVPQNATVLDLKKAIERYFTLKLKREGGTKKISWKYVWKTYCLCFDGQKLTDDKAKLKDYGIRN 80


                 ....*....
gi 410248962 120 RDEVSFIKK 128
Cdd:cd17058   81 GDELTFVKR 89
 
Name Accession Description Interval E-value
Ubl_SNRNP25 cd17058
ubiquitin-like (Ubl) domain found in small nuclear ribonucleoprotein U11/U12 subunit 25 ...
 40-128 6.61e-53

ubiquitin-like (Ubl) domain found in small nuclear ribonucleoprotein U11/U12 subunit 25 (SNRNP25) and similar proteins; SNRNP25, also termed U11/U12 small nuclear ribonucleoprotein 25 kDa protein, U11/U12 snRNP 25 kDa protein (U11/U12-25K), or minus-99 protein, is a component of the U11/U12 snRNPs that are part of the U12-type spliceosome. It contains a conserved ubiquitin-like (Ubl) domain with a beta-grasp Ubl fold, a common structure involved in protein-protein interactions.


Pssm-ID: 340578  Cd Length: 89  Bit Score: 161.53  E-value: 6.61e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 410248962  40 AMTVRVCKMDGEVMPVVVVQSATVLDLKKAIQRYVQLKQEREGGIQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRN 119
Cdd:cd17058    1 AITLSVLRLDGESLPVVVPQNATVLDLKKAIERYFTLKLKREGGTKKISWKYVWKTYCLCFDGQKLTDDKAKLKDYGIRN 80


                 ....*....
gi 410248962 120 RDEVSFIKK 128
Cdd:cd17058   81 GDELTFVKR 89
Ubiquitin_4 pfam18036
Ubiquitin-like domain; This domain has a ubiquitin-like fold. It is found in a diverse range ...
 41-129 3.92e-46

Ubiquitin-like domain; This domain has a ubiquitin-like fold. It is found in a diverse range of proteins including the 25KDa U11/U12 component.


Pssm-ID: 465624  Cd Length: 89  Bit Score: 144.33  E-value: 3.92e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 410248962   41 MTVRVCKMDGEVMPVVVVQSATVLDLKKAIQRYVQLKQEREGGIQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRNR 120
Cdd:pfam18036   1 MTVTVCKLDGESLPVVVPQNATVLDLKKAIERQFTLKLKREGGQRHISWKYVWKTYCLSFKGQKLLDDDAKLRDYGIRNG 80


                  ....*....
gi 410248962  121 DEVSFIKKL 129
Cdd:pfam18036  81 DELHFVKRL 89
 
Name Accession Description Interval E-value
Ubl_SNRNP25 cd17058
ubiquitin-like (Ubl) domain found in small nuclear ribonucleoprotein U11/U12 subunit 25 ...
 40-128 6.61e-53

ubiquitin-like (Ubl) domain found in small nuclear ribonucleoprotein U11/U12 subunit 25 (SNRNP25) and similar proteins; SNRNP25, also termed U11/U12 small nuclear ribonucleoprotein 25 kDa protein, U11/U12 snRNP 25 kDa protein (U11/U12-25K), or minus-99 protein, is a component of the U11/U12 snRNPs that are part of the U12-type spliceosome. It contains a conserved ubiquitin-like (Ubl) domain with a beta-grasp Ubl fold, a common structure involved in protein-protein interactions.


Pssm-ID: 340578  Cd Length: 89  Bit Score: 161.53  E-value: 6.61e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 410248962  40 AMTVRVCKMDGEVMPVVVVQSATVLDLKKAIQRYVQLKQEREGGIQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRN 119
Cdd:cd17058    1 AITLSVLRLDGESLPVVVPQNATVLDLKKAIERYFTLKLKREGGTKKISWKYVWKTYCLCFDGQKLTDDKAKLKDYGIRN 80


                 ....*....
gi 410248962 120 RDEVSFIKK 128
Cdd:cd17058   81 GDELTFVKR 89
Ubiquitin_4 pfam18036
Ubiquitin-like domain; This domain has a ubiquitin-like fold. It is found in a diverse range ...
 41-129 3.92e-46

Ubiquitin-like domain; This domain has a ubiquitin-like fold. It is found in a diverse range of proteins including the 25KDa U11/U12 component.


Pssm-ID: 465624  Cd Length: 89  Bit Score: 144.33  E-value: 3.92e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 410248962   41 MTVRVCKMDGEVMPVVVVQSATVLDLKKAIQRYVQLKQEREGGIQHISWSYVWRTYHLTSAGEKLTEDRKKLRDYGIRNR 120
Cdd:pfam18036   1 MTVTVCKLDGESLPVVVPQNATVLDLKKAIERQFTLKLKREGGQRHISWKYVWKTYCLSFKGQKLLDDDAKLRDYGIRNG 80


                  ....*....
gi 410248962  121 DEVSFIKKL 129
Cdd:pfam18036  81 DELHFVKRL 89
Ubl_ubiquitin_like cd17039
ubiquitin-like (Ubl) domain found in ubiquitin and ubiquitin-like Ubl proteins; Ubiquitin-like ...
 43-123 1.93e-06

ubiquitin-like (Ubl) domain found in ubiquitin and ubiquitin-like Ubl proteins; Ubiquitin-like (Ubl) proteins have a similar ubiquitin (Ub) beta-grasp fold and attach to other proteins in a Ubl manner but with biochemically distinct roles. Ub and Ubl proteins conjugate and deconjugate via ligases and peptidases to covalently modify target polypeptides. Some Ubl domains have adaptor roles in Ub-signaling by mediating protein-protein interaction. Prokaryotic sulfur carrier proteins are Ub-related proteins that can be activated in an ATP-dependent manner. Polyubiquitination signals for a diverse set of cellular events via different isopeptide linkages formed between the C terminus of one ubiquitin (Ub) and the epsilon-amine of K6, K11, K27, K29, K33, K48, or K63 of a second Ub. One of these seven lysine residues (K27, Ub numbering) is conserved in this Ubl_ubiquitin_like family. K27-linked Ub chains are versatile and can be recognized by several downstream receptor proteins. K27 has roles beyond chain linkage, such as in Ubl NEDD8 (which contains many of the same lysines (K6, K11, K27, K33, K48) as Ub) where K27 has a role (other than conjugation) in the mechanism of protein neddylation.


Pssm-ID: 340559 [Multi-domain]  Cd Length: 68  Bit Score: 42.58  E-value: 1.93e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 410248962  43 VRVCKMDGEVMPVVVVQSATVLDLKKAIQRYVQLKQEReggiqhiswsyvwrtYHLTSAGEKLtEDRKKLRDYGIRNRDE 122
Cdd:cd17039    1 ITVKTLDGKTYTVEVDPDDTVADLKEKIEEKTGIPVEQ---------------QRLIYNGKEL-KDDKTLSDYGIKDGST 64


                 .
gi 410248962 123 V 123
Cdd:cd17039   65 I 65
Ubl2_FAT10 cd17053
ubiquitin-like (Ubl) domain 2 found in leukocyte antigen F (HLA-F) adjacent transcript 10 ...
 41-126 1.80e-03

ubiquitin-like (Ubl) domain 2 found in leukocyte antigen F (HLA-F) adjacent transcript 10 (FAT10) and similar proteins; FAT10, also termed ubiquitin D (UBD), or diubiquitin, is a cytokine-inducible ubiquitin-like (Ubl) modifer that is highly expressed in the thymus, and targets substrates covalently for 26S proteasomal degradation. It is also associated with cancer development, antigen processing and antimicrobial defense, chromosomal stability and cell cycle regulation. FAT10 is presented on immune cells and under the inflammatory conditions, is synergistically induced by interferon gamma (IFNgamma) and tumor necrosis factor (TNFalpha) in the non-immune (liver parenchymal) cells. FAT10 contains two Ubl domains. The family corresponds to the second Ubl domain of FAT10. Some family members contain only one Ubl domain.


Pssm-ID: 340573  Cd Length: 71  Bit Score: 34.63  E-value: 1.80e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 410248962  41 MTVRVCKMDGEVMPVVVVQSATVLDLKKAIQRYvqlkqerEGGIQHISWsyvwrtyhLTSAGEKLTEDRKKLRDYGIRNR 120
Cdd:cd17053    1 LTVNSKLLTGTVHTLQVSRSTTVAQVKAMIEDQ-------SGVPPNEQI--------LVYNGKRLEDGDKTLGEYGIKTG 65


                 ....*.
gi 410248962 121 DEVSFI 126
Cdd:cd17053   66 DTLYLL 71
 
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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