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Conserved domains on  [gi|159163557|pdb|1X59|A]
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Chain A, Histidyl-tRNA synthetase

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
S15_NS1_EPRS_RNA-bind super family cl00349
S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, ...
 12-56 2.28e-13

S15/NS1/EPRS_RNA-binding domain. This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic aminoacyl tRNA synthetases (aaRSs), where it occurs as a single or a repeated unit. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions in the formation of tRNA-synthetases into multienzyme complexes. While this domain lacks significant sequence similarity between the subgroups in which it is found, they share similar electrostatic surface potentials and thus are likely to bind to RNA via the same mechanism.


The actual alignment was detected with superfamily member cd00938:

Pssm-ID: 469733 [Multi-domain]  Cd Length: 45  Bit Score: 57.86  E-value: 2.28e-13
                       10        20        30        40
               ....*....|....*....|....*....|....*....|....*
1X59_A      12 AALEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLGPDE 56
Cdd:cd00938  1 AKLEEAVKLQGELVRKLKAEKASKEQIAEEVAKLLELKAQLGGDE 45
 
Name Accession Description Interval E-value
HisRS_RNA cd00938
HisRS_RNA binding domain. This short RNA-binding domain is found at the N-terminus of HisRS ...
 12-56 2.28e-13

HisRS_RNA binding domain. This short RNA-binding domain is found at the N-terminus of HisRS in several higher eukaryote aminoacyl-tRNA synthetases (aaRSs). This domain consists of a helix- turn- helix structure, which is similar to other RNA-binding proteins. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions, which are important for the formation of aaRSs into multienzyme complexes.


Pssm-ID: 238474 [Multi-domain]  Cd Length: 45  Bit Score: 57.86  E-value: 2.28e-13
                       10        20        30        40
               ....*....|....*....|....*....|....*....|....*
1X59_A      12 AALEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLGPDE 56
Cdd:cd00938  1 AKLEEAVKLQGELVRKLKAEKASKEQIAEEVAKLLELKAQLGGDE 45
WHEP-TRS pfam00458
WHEP-TRS domain;
14-52 1.81e-07

WHEP-TRS domain;


Pssm-ID: 459819 [Multi-domain]  Cd Length: 53  Bit Score: 42.87  E-value: 1.81e-07
                         10        20        30
                 ....*....|....*....|....*....|....*....
1X59_A        14 LEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQL 52
Cdd:pfam00458  1 LTEKIKAQGDLVRKLKAEKAPKEEIDAAVKKLLALKAQY 39
WHEP-TRS smart00991
A conserved domain of 46 amino acids, called WHEP-TRS has been shown.to exist in a number of ...
 15-70 4.93e-06

A conserved domain of 46 amino acids, called WHEP-TRS has been shown.to exist in a number of higher eukaryote aminoacyl-transfer RNA synthetases; This domain is present one to six times in the several enzymes. There are three copies in mammalian multifunctional aminoacyl-tRNA synthetase in a region that separates the N-terminal glutamyl-tRNA synthetase domain from the C-terminal prolyl-tRNA synthetase domain, and six copies in the intercatalytic region of the Drosophila enzyme. The domain is found at the N-terminal extremity of the mammalian tryptophanyl- tRNA synthetase and histidyl-tRNA synthetase, and the mammalian, insect, nematode and plant glycyl- tRNA synthetases. This domain could contain a central alpha-helical region and may play a role in the association of tRNA-synthetases into multienzyme complexes.


Pssm-ID: 214960 [Multi-domain]  Cd Length: 56  Bit Score: 39.25  E-value: 4.93e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
1X59_A         15 EELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLGPDESKQKFVLKTPKSGP 70
Cdd:smart00991  1 EEAVAAQGELVRKLKAEKASKDEIDAAVAKLLALKAQLKEATGQDYKPGAPPGDTP 56
PLN02734 PLN02734
glycyl-tRNA synthetase
 3-60 1.05e-04

glycyl-tRNA synthetase


Pssm-ID: 178335 [Multi-domain]  Cd Length: 684  Bit Score: 38.19  E-value: 1.05e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
1X59_A         3 SGSSGMAERAALEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLGPDESKQK 60
Cdd:PLN02734   1 SEDSLRDALAEKQAAVTAQGNAVRALKASKADKAEIDAAIEKLKALKLEKSALEKELQ 58
 
Name Accession Description Interval E-value
HisRS_RNA cd00938
HisRS_RNA binding domain. This short RNA-binding domain is found at the N-terminus of HisRS ...
 12-56 2.28e-13

HisRS_RNA binding domain. This short RNA-binding domain is found at the N-terminus of HisRS in several higher eukaryote aminoacyl-tRNA synthetases (aaRSs). This domain consists of a helix- turn- helix structure, which is similar to other RNA-binding proteins. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions, which are important for the formation of aaRSs into multienzyme complexes.


Pssm-ID: 238474 [Multi-domain]  Cd Length: 45  Bit Score: 57.86  E-value: 2.28e-13
                       10        20        30        40
               ....*....|....*....|....*....|....*....|....*
1X59_A      12 AALEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLGPDE 56
Cdd:cd00938  1 AKLEEAVKLQGELVRKLKAEKASKEQIAEEVAKLLELKAQLGGDE 45
WHEPGMRS_RNA cd01200
EPRS-like_RNA binding domain. This short RNA-binding domain is found in several higher ...
 15-56 5.17e-08

EPRS-like_RNA binding domain. This short RNA-binding domain is found in several higher eukaryote aminoacyl-tRNA synthetases (aaRSs). It is found in three copies in the mammalian bifunctional EPRS in a region that separates the N-terminal GluRS from the C-terminal ProRS. In the Drosophila EPRS, this domain is repeated six times. It is found at the N-terminus of TrpRS, HisRS and GlyR and at the C-terminus of MetRS. This domain consists of a helix- turn- helix structure, which is similar to other RNA-binding proteins. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions, which are important for the formation of aaRSs into multienzyme complexes.


Pssm-ID: 238605 [Multi-domain]  Cd Length: 42  Bit Score: 44.07  E-value: 5.17e-08
                       10        20        30        40
               ....*....|....*....|....*....|....*....|..
1X59_A      15 EELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLGPDE 56
Cdd:cd01200  1 YEKIAEQGDLVRKLKAEKAPKEEIDAAVKKLLALKAQYKEAT 42
WHEP-TRS pfam00458
WHEP-TRS domain;
14-52 1.81e-07

WHEP-TRS domain;


Pssm-ID: 459819 [Multi-domain]  Cd Length: 53  Bit Score: 42.87  E-value: 1.81e-07
                         10        20        30
                 ....*....|....*....|....*....|....*....
1X59_A        14 LEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQL 52
Cdd:pfam00458  1 LTEKIKAQGDLVRKLKAEKAPKEEIDAAVKKLLALKAQY 39
WHEP-TRS smart00991
A conserved domain of 46 amino acids, called WHEP-TRS has been shown.to exist in a number of ...
 15-70 4.93e-06

A conserved domain of 46 amino acids, called WHEP-TRS has been shown.to exist in a number of higher eukaryote aminoacyl-transfer RNA synthetases; This domain is present one to six times in the several enzymes. There are three copies in mammalian multifunctional aminoacyl-tRNA synthetase in a region that separates the N-terminal glutamyl-tRNA synthetase domain from the C-terminal prolyl-tRNA synthetase domain, and six copies in the intercatalytic region of the Drosophila enzyme. The domain is found at the N-terminal extremity of the mammalian tryptophanyl- tRNA synthetase and histidyl-tRNA synthetase, and the mammalian, insect, nematode and plant glycyl- tRNA synthetases. This domain could contain a central alpha-helical region and may play a role in the association of tRNA-synthetases into multienzyme complexes.


Pssm-ID: 214960 [Multi-domain]  Cd Length: 56  Bit Score: 39.25  E-value: 4.93e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
1X59_A         15 EELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLGPDESKQKFVLKTPKSGP 70
Cdd:smart00991  1 EEAVAAQGELVRKLKAEKASKDEIDAAVAKLLALKAQLKEATGQDYKPGAPPGDTP 56
PLN02734 PLN02734
glycyl-tRNA synthetase
 3-60 1.05e-04

glycyl-tRNA synthetase


Pssm-ID: 178335 [Multi-domain]  Cd Length: 684  Bit Score: 38.19  E-value: 1.05e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
1X59_A         3 SGSSGMAERAALEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQLGPDESKQK 60
Cdd:PLN02734   1 SEDSLRDALAEKQAAVTAQGNAVRALKASKADKAEIDAAIEKLKALKLEKSALEKELQ 58
valS PRK05729
valyl-tRNA synthetase; Reviewed
 9-52 1.88e-04

valyl-tRNA synthetase; Reviewed


Pssm-ID: 235582 [Multi-domain]  Cd Length: 874  Bit Score: 37.39  E-value: 1.88e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
1X59_A         9 AERAALE-ELVKLQGERVRGLKQ-------QKASAELIEEEVAKLLKLKAQL 52
Cdd:PRK05729 811 AELARLEkELAKLEKEIERVEKKlsnegfvAKAPEEVVEKEREKLAEYEEKL 862
MetRS_RNA cd00939
MetRS_RNA binding domain. This short RNA-binding domain is found at the C-terminus of MetRS in ...
 14-52 2.80e-04

MetRS_RNA binding domain. This short RNA-binding domain is found at the C-terminus of MetRS in several higher eukaryote aminoacyl-tRNA synthetases (aaRSs). It is repeated in Drosophila MetRS. This domain consists of a helix-turn-helix structure, which is similar to other RNA-binding proteins. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions, which are important for the formation of aaRSs into multienzyme complexes.


Pssm-ID: 238475 [Multi-domain]  Cd Length: 45  Bit Score: 34.76  E-value: 2.80e-04
                       10        20        30
               ....*....|....*....|....*....|....*....
1X59_A      14 LEELVKLQGERVRGLKQQKASAELIEEEVAKLLKLKAQL 52
Cdd:cd00939  1 LEKEVAEQGNKVRKLKASKADKSVWQPEVNKLLDLKKQL 39
WEPRS_RNA cd00936
WEPRS_RNA binding domain. This short RNA-binding domain is found in several higher eukaryote ...
 21-51 3.77e-04

WEPRS_RNA binding domain. This short RNA-binding domain is found in several higher eukaryote aminoacyl-tRNA synthetases (aaRSs). It is found in multiple copies in eukaryotic bifunctional glutamyl-prolyl-tRNA synthetases (EPRS) in a region that separates the N-terminal glutamyl-tRNA synthetase (GluRS) from the C-terminal prolyl-tRNA synthetase (ProRS). It is also found at the N-terminus of vertebrate tryptophanyl-tRNA synthetases (TrpRS). This domain consists of a helix-turn-helix structure, which is similar to other RNA-binding proteins. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions, which are important for the formation of aaRSs into multienzyme complexes.


Pssm-ID: 238473 [Multi-domain]  Cd Length: 50  Bit Score: 34.52  E-value: 3.77e-04
                       10        20        30
               ....*....|....*....|....*....|.
1X59_A      21 QGERVRGLKQQKASAELIEEEVAKLLKLKAQ 51
Cdd:cd00936  8 QGDLVRELKAKKAPKEEIDAAVKKLLALKAD 38
 
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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