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Conserved domains on  [gi|332660628|gb|AEE86028|]
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Ubiquitin-like superfamily protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ubiquitin_4 pfam18036
Ubiquitin-like domain; This domain has a ubiquitin-like fold. It is found in a diverse range ...
 38-124 1.22e-31

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: 111.20  E-value: 1.22e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332660628   38 IKLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHL--PISGPGKISWPHVWGQFCLSYEDKRLINESEYLTEFGIKDG 115
Cdd:pfam18036   1 MTVTVCKLDGESLPVVVPQNATVLDLKKAIERQFTLKlkREGGQRHISWKYVWKTYCLSFKGQKLLDDDAKLRDYGIRNG 80


                  ....*....
gi 332660628  116 DQLRFIRHI 124
Cdd:pfam18036  81 DELHFVKRL 89
 
Name Accession Description Interval E-value
Ubiquitin_4 pfam18036
Ubiquitin-like domain; This domain has a ubiquitin-like fold. It is found in a diverse range ...
 38-124 1.22e-31

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: 111.20  E-value: 1.22e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332660628   38 IKLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHL--PISGPGKISWPHVWGQFCLSYEDKRLINESEYLTEFGIKDG 115
Cdd:pfam18036   1 MTVTVCKLDGESLPVVVPQNATVLDLKKAIERQFTLKlkREGGQRHISWKYVWKTYCLSFKGQKLLDDDAKLRDYGIRNG 80


                  ....*....
gi 332660628  116 DQLRFIRHI 124
Cdd:pfam18036  81 DELHFVKRL 89
Ubl_SNRNP25 cd17058
ubiquitin-like (Ubl) domain found in small nuclear ribonucleoprotein U11/U12 subunit 25 ...
 38-123 4.47e-31

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: 109.92  E-value: 4.47e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332660628  38 IKLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHLPI--SGPGKISWPHVWGQFCLSYEDKRLINESEYLTEFGIKDG 115
Cdd:cd17058    2 ITLSVLRLDGESLPVVVPQNATVLDLKKAIERYFTLKLKreGGTKKISWKYVWKTYCLCFDGQKLTDDKAKLKDYGIRNG 81


                 ....*...
gi 332660628 116 DQLRFIRH 123
Cdd:cd17058   82 DELTFVKR 89
UBQ smart00213
Ubiquitin homologues; Ubiquitin-mediated proteolysis is involved in the regulated turnover of ...
 38-118 4.46e-04

Ubiquitin homologues; Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression


Pssm-ID: 214563 [Multi-domain]  Cd Length: 72  Bit Score: 37.62  E-value: 4.46e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332660628    38 IKLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHLPisgpgkiswphvwGQFCLSYEDKRLiNESEYLTEFGIKDGDQ 117
Cdd:smart00213   1 IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPP-------------EQQRLIYKGKVL-EDDRTLADYGIQDGST 66


                   .
gi 332660628   118 L 118
Cdd:smart00213  67 I 67
 
Name Accession Description Interval E-value
Ubiquitin_4 pfam18036
Ubiquitin-like domain; This domain has a ubiquitin-like fold. It is found in a diverse range ...
 38-124 1.22e-31

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: 111.20  E-value: 1.22e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332660628   38 IKLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHL--PISGPGKISWPHVWGQFCLSYEDKRLINESEYLTEFGIKDG 115
Cdd:pfam18036   1 MTVTVCKLDGESLPVVVPQNATVLDLKKAIERQFTLKlkREGGQRHISWKYVWKTYCLSFKGQKLLDDDAKLRDYGIRNG 80


                  ....*....
gi 332660628  116 DQLRFIRHI 124
Cdd:pfam18036  81 DELHFVKRL 89
Ubl_SNRNP25 cd17058
ubiquitin-like (Ubl) domain found in small nuclear ribonucleoprotein U11/U12 subunit 25 ...
 38-123 4.47e-31

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: 109.92  E-value: 4.47e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332660628  38 IKLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHLPI--SGPGKISWPHVWGQFCLSYEDKRLINESEYLTEFGIKDG 115
Cdd:cd17058    2 ITLSVLRLDGESLPVVVPQNATVLDLKKAIERYFTLKLKreGGTKKISWKYVWKTYCLCFDGQKLTDDKAKLKDYGIRNG 81


                 ....*...
gi 332660628 116 DQLRFIRH 123
Cdd:cd17058   82 DELTFVKR 89
ubiquitin pfam00240
Ubiquitin family; This family contains a number of ubiquitin-like proteins: SUMO (smt3 homolog) ...
 40-118 2.66e-05

Ubiquitin family; This family contains a number of ubiquitin-like proteins: SUMO (smt3 homolog), Nedd8, Elongin B, Rub1, and Parkin. A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites.


Pssm-ID: 459726 [Multi-domain]  Cd Length: 72  Bit Score: 41.00  E-value: 2.66e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332660628   40 LTVLKLDGSSFGIQVLKTATVGELKMAVEAAFsHLPISgpgkiswphvwgQFCLSYEDKRLINESEyLTEFGIKDGDQL 118
Cdd:pfam00240   1 ITVKTLDGKKITLEVDPTDTVLELKEKIAEKE-GVPPE------------QQRLIYSGKVLEDDQT-LGEYGIEDGSTI 65
Ubl_ubiquitin_like cd17039
ubiquitin-like (Ubl) domain found in ubiquitin and ubiquitin-like Ubl proteins; Ubiquitin-like ...
 40-118 1.75e-04

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: 38.73  E-value: 1.75e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332660628  40 LTVLKLDGSSFGIQVLKTATVGELKMAVEAafshlpisgpgKISWPhvWGQFCLSYEDKRLINEsEYLTEFGIKDGDQL 118
Cdd:cd17039    1 ITVKTLDGKTYTVEVDPDDTVADLKEKIEE-----------KTGIP--VEQQRLIYNGKELKDD-KTLSDYGIKDGSTI 65
UBQ smart00213
Ubiquitin homologues; Ubiquitin-mediated proteolysis is involved in the regulated turnover of ...
 38-118 4.46e-04

Ubiquitin homologues; Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression


Pssm-ID: 214563 [Multi-domain]  Cd Length: 72  Bit Score: 37.62  E-value: 4.46e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332660628    38 IKLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHLPisgpgkiswphvwGQFCLSYEDKRLiNESEYLTEFGIKDGDQ 117
Cdd:smart00213   1 IELTVKTLDGKTITLEVKPSDTVSELKEKIAELTGIPP-------------EQQRLIYKGKVL-EDDRTLADYGIQDGST 66


                   .
gi 332660628   118 L 118
Cdd:smart00213  67 I 67
Ubl_Rad23 cd01805
ubiquitin-like (Ubl) domain found in the Rad23 protein family; The Rad23 family includes the ...
 39-82 8.97e-03

ubiquitin-like (Ubl) domain found in the Rad23 protein family; The Rad23 family includes the yeast nucleotide excision repair (NER) proteins, Rad23p (in Saccharomyces cerevisiae) and Rhp23p (in Schizosaccharomyces pombe), their mammalian orthologs HR23A and HR23B, and putative DNA repair proteins from plants. Rad23 proteins play dual roles in DNA repair as well as in proteosomal degradation. They have affinity for both the proteasome and ubiquitinylated proteins and participate in translocating polyubiquitinated proteins to the proteasome. Rad23 proteins carry an ubiquitin-like (Ubl) domain with a beta-grasp Ubl fold, and two ubiquitin-associated (UBA) domains, as well as a xeroderma pigmentosum group C (XPC) protein-binding domain. The Ubl domain is responsible for the binding to proteasome. The UBA domains are important for binding of ubiquitin (Ub) or multi-ubiquitinated substrates, which suggests Rad23 proteins might be involved in certain pathways of Ub metabolism. Both the Ubl domain and the XPC-binding domain are necessary for efficient NER function of Rad23 proteins.


Pssm-ID: 340503 [Multi-domain]  Cd Length: 72  Bit Score: 34.07  E-value: 8.97e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 332660628  39 KLTVLKLDGSSFGIQVLKTATVGELKMAVEAAFSHLPISG-----PGKI 82
Cdd:cd01805    2 KITFKTLQQQTFEIEVEPSDTVLELKEKIEQEQGDFPASGqkliySGKV 50
 
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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