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Conserved domains on  [gi|56090339|ref|NP_001007669|]
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UBA-like domain-containing protein 1 [Rattus norvegicus]

Protein Classification

ubiquitin-like domain-containing protein( domain architecture ID 10198660)

ubiquitin-like (UBL) domain-containing protein similar to vertebrate UBA-like domain-containing protein 1/2

PubMed:  22201813

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
UBA_F100B_like cd14343
UBA-like domain found in protein FAM100B; The family corresponds to the uncharacterized ...
 10-48 2.48e-21

UBA-like domain found in protein FAM100B; The family corresponds to the uncharacterized protein FAM100B and its homologs mainly found in Metazoa. Although their biological roles remain unclear, all family members contain a ubiquitin-associated (UBA)-like domain that may be involved in the binding of ubiquitin.


:

Pssm-ID: 270528  Cd Length: 39  Bit Score: 81.76  E-value: 2.48e-21
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 56090339  10 HQVMINQFVLTAGCAADQAKQLLQAAHWQFETALSAFFQ 48
Cdd:cd14343   1 EQVMINQFVLAAGCAADQAKQLLQAAHWQFETALSAFFQ 39
PHA03247 super family cl33720
large tegument protein UL36; Provisional
 63-164 3.18e-03

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 37.61  E-value: 3.18e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56090339    63 TPANTPATPPNFPDALTMFSRLKASESFHSGGSSGSPMATSATS--------PPPHFPHATGSFATPSWPTA------AS 128
Cdd:PHA03247 2835 QPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAParppvrrlARPAVSRSTESFALPPDQPErppqpqAP 2914

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 56090339   129 PPGGPQHLQPQPPLWTPAPPSPTSDWPPLAPQQATS 164
Cdd:PHA03247 2915 PPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPA 2950
 
Name Accession Description Interval E-value
UBA_F100B_like cd14343
UBA-like domain found in protein FAM100B; The family corresponds to the uncharacterized ...
 10-48 2.48e-21

UBA-like domain found in protein FAM100B; The family corresponds to the uncharacterized protein FAM100B and its homologs mainly found in Metazoa. Although their biological roles remain unclear, all family members contain a ubiquitin-associated (UBA)-like domain that may be involved in the binding of ubiquitin.


Pssm-ID: 270528  Cd Length: 39  Bit Score: 81.76  E-value: 2.48e-21
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 56090339  10 HQVMINQFVLTAGCAADQAKQLLQAAHWQFETALSAFFQ 48
Cdd:cd14343   1 EQVMINQFVLAAGCAADQAKQLLQAAHWQFETALSAFFQ 39
UBA_4 pfam14555
UBA-like domain;
11-53 3.31e-07

UBA-like domain;


Pssm-ID: 464207  Cd Length: 43  Bit Score: 44.75  E-value: 3.31e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 56090339    11 QVMINQFVLTAGCAADQAKQLLQAAHWQFETALSAFFQETNIP 53
Cdd:pfam14555   1 DELIAQFQAITGADEEVARQYLEAHNWDLEAAVNAFFDDGEAS 43
PHA03247 PHA03247
large tegument protein UL36; Provisional
 63-164 3.18e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 37.61  E-value: 3.18e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56090339    63 TPANTPATPPNFPDALTMFSRLKASESFHSGGSSGSPMATSATS--------PPPHFPHATGSFATPSWPTA------AS 128
Cdd:PHA03247 2835 QPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAParppvrrlARPAVSRSTESFALPPDQPErppqpqAP 2914

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 56090339   129 PPGGPQHLQPQPPLWTPAPPSPTSDWPPLAPQQATS 164
Cdd:PHA03247 2915 PPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPA 2950
 
Name Accession Description Interval E-value
UBA_F100B_like cd14343
UBA-like domain found in protein FAM100B; The family corresponds to the uncharacterized ...
 10-48 2.48e-21

UBA-like domain found in protein FAM100B; The family corresponds to the uncharacterized protein FAM100B and its homologs mainly found in Metazoa. Although their biological roles remain unclear, all family members contain a ubiquitin-associated (UBA)-like domain that may be involved in the binding of ubiquitin.


Pssm-ID: 270528  Cd Length: 39  Bit Score: 81.76  E-value: 2.48e-21
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 56090339  10 HQVMINQFVLTAGCAADQAKQLLQAAHWQFETALSAFFQ 48
Cdd:cd14343   1 EQVMINQFVLAAGCAADQAKQLLQAAHWQFETALSAFFQ 39
UBA_p47 cd14348
UBA-like domain found in NSFL1 cofactor p47 and similar proteins; p47, also called UBX ...
 13-47 4.16e-09

UBA-like domain found in NSFL1 cofactor p47 and similar proteins; p47, also called UBX domain-containing protein 2C, is a major cofactor of the cytosolic AAA ATPase p97. It is required for the p97-regulated membrane reassembly of the endoplasmic reticulum (ER), the nuclear envelope and the Golgi apparatus. p47, together with p97, forms the p97-p47 complex that plays an important role in regulation of membrane fusion events. p47 contains an N-terminal ubiquitin-associated (UBA)-like domain, a central SEP (named after shp1, eyc and p47) domain, and a ubiquitin-like (UBX) domain. UBA-like domain is responsible for forming a highly stable complex with ubiquitin. SEP domain and UBX domain may involve in p47 trimerization or forms a stable complex with the p97 N-terminal domain.


Pssm-ID: 270533  Cd Length: 40  Bit Score: 49.84  E-value: 4.16e-09
                        10        20        30
                ....*....|....*....|....*....|....*
gi 56090339  13 MINQFVLTAGCAADQAKQLLQAAHWQFETALSAFF 47
Cdd:cd14348   3 LIAQFVSVTGADEDRAKFFLESAGWDLEAALSSFF 37
UBA_4 pfam14555
UBA-like domain;
11-53 3.31e-07

UBA-like domain;


Pssm-ID: 464207  Cd Length: 43  Bit Score: 44.75  E-value: 3.31e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 56090339    11 QVMINQFVLTAGCAADQAKQLLQAAHWQFETALSAFFQETNIP 53
Cdd:pfam14555   1 DELIAQFQAITGADEEVARQYLEAHNWDLEAAVNAFFDDGEAS 43
UBA_TAP-C_like cd14273
UBA-like domain found in the NXF family of mRNA nuclear export factors and similar proteins; ...
 22-47 1.07e-03

UBA-like domain found in the NXF family of mRNA nuclear export factors and similar proteins; This family includes nuclear RNA export factors (NXF1/NXF2), FAS-associated factors (FAF1/2), tyrosyl-DNA phosphodiesterase 2 (TDP2), OTU domain-containing proteins (OTU7A/OTU7B), NSFL1 cofactor p47, defective in cullin neddylation protein 1 (DCN1)-like protein (DCNL1/DCNL2), yeast defective in cullin neddylation protein 1 (DCN1) and similar proteins. NXF proteins can stimulate nuclear export of mRNAs and facilitate the export of unspliced viral mRNA containing the constitutive transport element. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. FAF2 is the translation product of a highly expressed gene in the T-cells and eosinophils of atopic dermatitis patients compared with those of normal individuals. Its biological function remains unclear. TDP2 is a 5'-Tyr-DNA phosphodiesterase required for the efficient repair of topoisomerase II-induced DNA double strand breaks. OTU7A and OTU7B are zinc finger proteins that function as deubiquitinating enzymes. p47 is a major cofactor of the cytosolic AAA ATPase p97. It is required for the p97-regulated membrane reassembly of the endoplasmic reticulum (ER), the nuclear envelope and the Golgi apparatus. DCNL1 plays an essential role in the neddylation E3 complex and participates in the release of inhibitory effects of CAND1 on cullin-RING ligase E3 complex assembly and activity. The biological function of DCNL2 remains unclear. Yeast DCN1 is a scaffold-type E3 ligase for cullin neddylation. It can bind directly to cullins and the ubiquitin-like protein Nedd8-specific E2 (Ubc12), and regulate cullin neddylation and thus display ubiquitin ligase activity.


Pssm-ID: 270459  Cd Length: 31  Bit Score: 35.07  E-value: 1.07e-03
                        10        20
                ....*....|....*....|....*.
gi 56090339  22 GCAADQAKQLLQAAHWQFETALSAFF 47
Cdd:cd14273   6 GADPETARQYLESNNWDLEAAINLYF 31
UBA_Ubx1_like cd14351
UBA-like domain found in yeast UBX domain-containing protein 1 (Ubx1) and similar proteins; ...
 14-47 2.70e-03

UBA-like domain found in yeast UBX domain-containing protein 1 (Ubx1) and similar proteins; Ubx1, also called suppressor of high-copy PP1 protein (Shp1), is the substrate-recruiting cofactor of AAA-adenosine triphosphatase Cdc48 in Saccharomyces cerevisiae. In concert with ubiquitin-like Atg8, Cdc48 and Ubx1 are involved in the regulation of autophagosome biogenesis. Ubx1 also functions as a regulator of phosphoprotein phosphatase 1 (PP1) with differential effects on glycogen metabolism, meiotic differentiation, and mitotic cell cycle progression. All family members contain an N-terminal ubiquitin-associated (UBA)-like domain.


Pssm-ID: 270536  Cd Length: 37  Bit Score: 33.99  E-value: 2.70e-03
                        10        20        30
                ....*....|....*....|....*....|....
gi 56090339  14 INQFVLTAGCAADQAKQLLQAAHWQFETALSAFF 47
Cdd:cd14351   4 IQQFMELTGASPEVAQQYLEEYGGDLNDAINAYF 37
PHA03247 PHA03247
large tegument protein UL36; Provisional
 63-164 3.18e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 37.61  E-value: 3.18e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56090339    63 TPANTPATPPNFPDALTMFSRLKASESFHSGGSSGSPMATSATS--------PPPHFPHATGSFATPSWPTA------AS 128
Cdd:PHA03247 2835 QPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAParppvrrlARPAVSRSTESFALPPDQPErppqpqAP 2914

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 56090339   129 PPGGPQHLQPQPPLWTPAPPSPTSDWPPLAPQQATS 164
Cdd:PHA03247 2915 PPPQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPA 2950
PRK14951 PRK14951
DNA polymerase III subunits gamma and tau; Provisional
 64-171 5.34e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 237865 [Multi-domain]  Cd Length: 618  Bit Score: 36.62  E-value: 5.34e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 56090339   64 PANTPATPPNFPDALTMFSRLKASESFHSGGSSGSPMATSATSPPPHFPHATGSFATPSWPTAASPPGGPQHLQPQPPLW 143
Cdd:PRK14951 373 AAPAEKKTPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAPAAAAPAAAPAAAPAAVALAPAPP 452

                         90       100
                 ....*....|....*....|....*...
gi 56090339  144 TPAPPSPTSDWPPLAPQQATSEPRAHPA 171
Cdd:PRK14951 453 AQAAPETVAIPVRVAPEPAVASAAPAPA 480
 
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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