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Conserved domains on  [gi|46229814|gb|EAK90632|]
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hypothetical protein cgd7_3310 [Cryptosporidium parvum Iowa II]

Protein Classification

ubiquitin-related modifier 1( domain architecture ID 10109922)

ubiquitin-related modifier 1 acts as a sulfur carrier required for 2-thiolation of mcm(5)S(2)U at tRNA wobble positions of cytosolic tRNA(Lys), tRNA(Glu) and tRNA(Gln)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ubl_Urm1 cd01764
ubiquitin-like (Ubl) domain found in ubiquitin-related modifier 1 (Urm1); Urm1 acts as a ...
 4-98 5.36e-40

ubiquitin-like (Ubl) domain found in ubiquitin-related modifier 1 (Urm1); Urm1 acts as a sulfur carrier in the thiolation of eukaryotic tRNA via a mechanism that requires the formation of a thiocarboxylated Urm1, which is similar to that of prokaryotic sulfur carrier proteins such as ThiS and MoaD, containing the beta-grasp ubiquitin-like (Ubl) fold. Urm1 can be covalently conjugated to lysine residues of other proteins through a mechanism involving the E1-like protein Uba4. Urm1 is involved in yeast bioprocesses such as budding, nutrient sensing, high temperature sensitivity, antioxidant stress response and post-translation modification of the elongator subunit.


:

Pssm-ID: 340463  Cd Length: 94  Bit Score: 127.64  E-value: 5.36e-40
                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 46229814  4 IKVEFSGGLEVLAGDRQNVEVNLNNLKSSSMKSLILYVEENIIQYRKDHFIEtGSKIKPGIIVLVNNCDWEILGGENYAL 83
Cdd:cd01764  1 ITVEFSGGLELLFGKQKKHEVELPSQKPWTLRDLLAWIRDNLLKERPELFIQ-GDTVRPGILVLINDADWELLGELDYEL 79

                       90
               ....*....|....*
gi 46229814 84 SDGDLVTFIMTLHGG 98
Cdd:cd01764 80 QDGDRITFISTLHGG 94
 
Name Accession Description Interval E-value
Ubl_Urm1 cd01764
ubiquitin-like (Ubl) domain found in ubiquitin-related modifier 1 (Urm1); Urm1 acts as a ...
 4-98 5.36e-40

ubiquitin-like (Ubl) domain found in ubiquitin-related modifier 1 (Urm1); Urm1 acts as a sulfur carrier in the thiolation of eukaryotic tRNA via a mechanism that requires the formation of a thiocarboxylated Urm1, which is similar to that of prokaryotic sulfur carrier proteins such as ThiS and MoaD, containing the beta-grasp ubiquitin-like (Ubl) fold. Urm1 can be covalently conjugated to lysine residues of other proteins through a mechanism involving the E1-like protein Uba4. Urm1 is involved in yeast bioprocesses such as budding, nutrient sensing, high temperature sensitivity, antioxidant stress response and post-translation modification of the elongator subunit.


Pssm-ID: 340463  Cd Length: 94  Bit Score: 127.64  E-value: 5.36e-40
                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 46229814  4 IKVEFSGGLEVLAGDRQNVEVNLNNLKSSSMKSLILYVEENIIQYRKDHFIEtGSKIKPGIIVLVNNCDWEILGGENYAL 83
Cdd:cd01764  1 ITVEFSGGLELLFGKQKKHEVELPSQKPWTLRDLLAWIRDNLLKERPELFIQ-GDTVRPGILVLINDADWELLGELDYEL 79

                       90
               ....*....|....*
gi 46229814 84 SDGDLVTFIMTLHGG 98
Cdd:cd01764 80 QDGDRITFISTLHGG 94
Urm1 pfam09138
Urm1 (Ubiquitin related modifier); Urm1 is a ubiquitin related protein that modifies proteins ...
 3-98 2.27e-31

Urm1 (Ubiquitin related modifier); Urm1 is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like pathway urmylation. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily.


Pssm-ID: 370315  Cd Length: 96  Bit Score: 105.79  E-value: 2.27e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 46229814    3 SIKVEFSGGLEVLAGDRQNVEVNLNNLKSS-SMKSLILYVEENIIQYRKDHFIEtGSKIKPGIIVLVNNCDWEILGGENY 81
Cdd:pfam09138  1 KVTVEFLGGLELLFDKQKKHKVDLPIDSGPvNVGDLIDYIRKNLIKERPEVFLE-GDTVRPGILVLINDTDWELEGELDY 79

                         90
                 ....*....|....*..
gi 46229814   82 ALSDGDLVTFIMTLHGG 98
Cdd:pfam09138 80 VLEDGDKIVFISTLHGG 96
URM1 COG5131
Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones];
3-98 1.47e-07

Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 444057  Cd Length: 81  Bit Score: 44.94  E-value: 1.47e-07
                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 46229814  3 SIKVEFSGGLEVLAGdRQNVEVNLNNLKSSSMKSLilyveeniiqyRKDHFIETGSKIKPGIIVLVNNCDWEILGGEnya 82
Cdd:COG5131  1 MVKVILKGPLVSLFG-AREIEVKGSELRDVLKKLD-----------SEKRLLSEDGKIRPGYLILINGVDWRLLDTQ--- 65

                       90
               ....*....|....*.
gi 46229814 83 LSDGDLVTFIMTLHGG 98
Cdd:COG5131 66 LNDNDIVEIIPINHGG 81
 
Name Accession Description Interval E-value
Ubl_Urm1 cd01764
ubiquitin-like (Ubl) domain found in ubiquitin-related modifier 1 (Urm1); Urm1 acts as a ...
 4-98 5.36e-40

ubiquitin-like (Ubl) domain found in ubiquitin-related modifier 1 (Urm1); Urm1 acts as a sulfur carrier in the thiolation of eukaryotic tRNA via a mechanism that requires the formation of a thiocarboxylated Urm1, which is similar to that of prokaryotic sulfur carrier proteins such as ThiS and MoaD, containing the beta-grasp ubiquitin-like (Ubl) fold. Urm1 can be covalently conjugated to lysine residues of other proteins through a mechanism involving the E1-like protein Uba4. Urm1 is involved in yeast bioprocesses such as budding, nutrient sensing, high temperature sensitivity, antioxidant stress response and post-translation modification of the elongator subunit.


Pssm-ID: 340463  Cd Length: 94  Bit Score: 127.64  E-value: 5.36e-40
                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 46229814  4 IKVEFSGGLEVLAGDRQNVEVNLNNLKSSSMKSLILYVEENIIQYRKDHFIEtGSKIKPGIIVLVNNCDWEILGGENYAL 83
Cdd:cd01764  1 ITVEFSGGLELLFGKQKKHEVELPSQKPWTLRDLLAWIRDNLLKERPELFIQ-GDTVRPGILVLINDADWELLGELDYEL 79

                       90
               ....*....|....*
gi 46229814 84 SDGDLVTFIMTLHGG 98
Cdd:cd01764 80 QDGDRITFISTLHGG 94
Urm1 pfam09138
Urm1 (Ubiquitin related modifier); Urm1 is a ubiquitin related protein that modifies proteins ...
 3-98 2.27e-31

Urm1 (Ubiquitin related modifier); Urm1 is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like pathway urmylation. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily.


Pssm-ID: 370315  Cd Length: 96  Bit Score: 105.79  E-value: 2.27e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 46229814    3 SIKVEFSGGLEVLAGDRQNVEVNLNNLKSS-SMKSLILYVEENIIQYRKDHFIEtGSKIKPGIIVLVNNCDWEILGGENY 81
Cdd:pfam09138  1 KVTVEFLGGLELLFDKQKKHKVDLPIDSGPvNVGDLIDYIRKNLIKERPEVFLE-GDTVRPGILVLINDTDWELEGELDY 79

                         90
                 ....*....|....*..
gi 46229814   82 ALSDGDLVTFIMTLHGG 98
Cdd:pfam09138 80 VLEDGDKIVFISTLHGG 96
URM1 COG5131
Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones];
3-98 1.47e-07

Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 444057  Cd Length: 81  Bit Score: 44.94  E-value: 1.47e-07
                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 46229814  3 SIKVEFSGGLEVLAGdRQNVEVNLNNLKSSSMKSLilyveeniiqyRKDHFIETGSKIKPGIIVLVNNCDWEILGGEnya 82
Cdd:COG5131  1 MVKVILKGPLVSLFG-AREIEVKGSELRDVLKKLD-----------SEKRLLSEDGKIRPGYLILINGVDWRLLDTQ--- 65

                       90
               ....*....|....*.
gi 46229814 83 LSDGDLVTFIMTLHGG 98
Cdd:COG5131 66 LNDNDIVEIIPINHGG 81
Ubl_MoaD_like cd17040
ubiquitin-like (Ubl) domain found in a group of small sulfide carrier proteins; Ubiquitin-like ...
 4-98 1.77e-07

ubiquitin-like (Ubl) domain found in a group of small sulfide carrier proteins; Ubiquitin-like (Ubl) domain found in a group of small sulfide carrier proteins This family includes ThiS, MoaD, CysO, QbsE, and their homologs, which are structurally homologous to ubiquitin (Ub) and may function as the sulfide donor for the biosynthesis of thiamin, molybdopterin, cysteine, thioquinolobactin, and other sulfur-containing natural products. Ub is a protein modifier in eukaryotes that is involved in various cellular processes, including transcriptional regulation, cell cycle control, and DNA repair. Ubiquitination is comprised of a cascade of E1, E2 and E3 enzymes that results in a covalent bond between the C-terminus of Ub and the epsilon-amino group of a substrate lysine. Like Ub, small sulfide carrier proteins in this family are adenylated at a diglycyl C-terminus by specific activating proteins. The adenylated C-terminus is subsequently converted to a thiocarboxylate, serving as the sulfide source. Those activating proteins are diverse and show little sequence similarity. This family also includes the small archaeal modifier protein (SAMP), including SAMP1, SAMP2 and SAMP3, which are Ub-like proteins that function as protein modifiers and are required for the production of sulfur-containing biomolecules in the archaeon Haloferax volcanii. SAMP1 and SAMP2 are involved in sulfur transfer during molybdenum cofactor biosynthesis and tRNA thiolation much like MoaD and Urm1, respectively. They can form covalent conjugates with their protein targets through an isopeptide linkage via their C-terminal diglycine motif in a streamlined archaeal E1-dependent pathway. SAMP2 also forms homo-conjugates through the intermolecular isopeptide bond between the C-terminal Gly and the Lys58 side chain, a feature that likely resembles polyubiquitination. SAMP3 conjugates are dependent on the Ub-activating E1 enzyme homolog of archaea (UbaA) for synthesis and are cleaved by the JAMM/MPN+ domain metalloprotease HvJAMM1.


Pssm-ID: 340560 [Multi-domain]  Cd Length: 88  Bit Score: 44.68  E-value: 1.77e-07
                       10        20        30        40        50        60        70        80
               ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 46229814  4 IKVEFSGGLEVLAGDRQNVEVNlnnlKSSSMKSLILYVEEniiQYRK--DHFIETGsKIKPGIIVLVNNCDWEILGGEnY 81
Cdd:cd17040  1 VKVRLFGALREAGAGEEEIEVE----GGTTVRDLLDALSE---RYPGlfEALDEDG-ELRPFILVFVNGRDVRLDDGL-T 71

                       90
               ....*....|....*..
gi 46229814 82 ALSDGDLVTFIMTLHGG 98
Cdd:cd17040 72 PLKDGDEVDILPPVAGG 88
 
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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