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Conserved domains on  [gi|578800618|ref|XP_006711259|]
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eukaryotic translation initiation factor 2D isoform X3 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 340-424 1.04e-38

C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also known as ligatin) is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.


:

Pssm-ID: 211321  Cd Length: 85  Bit Score: 134.61  E-value: 1.04e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578800618 340 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKDSLQVQIQGNQVHHLGWLLLEEYQLPRK 419
Cdd:cd11608    1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                 ....*
gi 578800618 420 HIQGL 424
Cdd:cd11608   81 YIDGL 85
PUA super family cl41741
PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) ...
 1-23 6.00e-04

PUA RNA binding domain; The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in archaeal and eukaryotic pseudouridine synthases, archaeal archaeosine synthases, a family of predicted ATPases that may be involved in RNA modification, and a family of predicted archaeal and bacterial rRNA methylases. Additionally, the PUA domain was detected in a family of eukaryotic proteins that also contain a domain homologous to the translation initiation factor eIF1/SUI1; these proteins may comprise a novel type of translation factors. Unexpectedly, the PUA domain was also found in bacterial and yeast glutamate kinases; this is compatible with the demonstrated role of these enzymes in regulating the expression of other genes. It has been shown that the PUA domain acts as an RNA binding domain in at least some of the proteins involved in RNA metabolism.


The actual alignment was detected with superfamily member cd21156:

Pssm-ID: 425372 [Multi-domain]  Cd Length: 82  Bit Score: 38.32  E-value: 6.00e-04
                         10        20
                 ....*....|....*....|...
gi 578800618   1 MSTAEMLTSGLKGRGFSVLHTYQ 23
Cdd:cd21156   60 MSSEDMYASGMKGKGVEVLHTYG 82
 
Name Accession Description Interval E-value
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 340-424 1.04e-38

C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also known as ligatin) is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.


Pssm-ID: 211321  Cd Length: 85  Bit Score: 134.61  E-value: 1.04e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578800618 340 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKDSLQVQIQGNQVHHLGWLLLEEYQLPRK 419
Cdd:cd11608    1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                 ....*
gi 578800618 420 HIQGL 424
Cdd:cd11608   81 YIDGL 85
SUI1 pfam01253
Translation initiation factor SUI1;
340-413 3.99e-17

Translation initiation factor SUI1;


Pssm-ID: 460137  Cd Length: 75  Bit Score: 75.55  E-value: 3.99e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 578800618  340 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKdslQVQIQGNQVHHLGWLLLEE 413
Cdd:pfam01253   3 KIHIRVEQRGGRKTVTTVSGLEPFGIDLKKLAKELKKKFACGGTVVKDGGGE---EIQVQGDQRDKVAELLTEK 73
PUA_eIF2d-like cd21156
PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; ...
 1-23 6.00e-04

PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Most members of this eukaryotic translation initiation factor 2D (eIF2d)-like family of eukaryotic proteins also contain a domain homologous to the translation initiation factor eIF1/SUI1, and a short uncharacterized N-terminal domain. eIF2D may function as a cytosolic GTP-independent initiation factor which delivers Met-tRNA (and non-initiating tRNAs) to the 40S ribosomal subunit. The family member from Drosophila melanogaster has been named ligatin, and this alias has been adopted for other family members as well, which are not homologous to the vertebrate ligatin (LGTN) that is a trafficking receptor for phosphoglycoproteins.


Pssm-ID: 409298 [Multi-domain]  Cd Length: 82  Bit Score: 38.32  E-value: 6.00e-04
                         10        20
                 ....*....|....*....|...
gi 578800618   1 MSTAEMLTSGLKGRGFSVLHTYQ 23
Cdd:cd21156   60 MSSEDMYASGMKGKGVEVLHTYG 82
 
Name Accession Description Interval E-value
eIF2D_C cd11608
C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also ...
 340-424 1.04e-38

C-terminal domain of eIF2D and related proteins; eIF2D translation initiation factor (also known as ligatin) is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.


Pssm-ID: 211321  Cd Length: 85  Bit Score: 134.61  E-value: 1.04e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578800618 340 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKDSLQVQIQGNQVHHLGWLLLEEYQLPRK 419
Cdd:cd11608    1 PIDITTERRQGNKKVTLISGLESFGIDPEEFAKELQKKCAASTSVSPLPGKKKGVEVQVQGNQVKFVAKLLTEKYGVPKK 80


                 ....*
gi 578800618 420 HIQGL 424
Cdd:cd11608   81 YIDGL 85
SUI1 pfam01253
Translation initiation factor SUI1;
340-413 3.99e-17

Translation initiation factor SUI1;


Pssm-ID: 460137  Cd Length: 75  Bit Score: 75.55  E-value: 3.99e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 578800618  340 PIDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKdslQVQIQGNQVHHLGWLLLEE 413
Cdd:pfam01253   3 KIHIRVEQRGGRKTVTTVSGLEPFGIDLKKLAKELKKKFACGGTVVKDGGGE---EIQVQGDQRDKVAELLTEK 73
DENR_C cd11607
C-terminal domain of DENR and related proteins; DENR (density regulated protein), together ...
 341-421 1.93e-05

C-terminal domain of DENR and related proteins; DENR (density regulated protein), together with MCT-1 (multiple copies T cell malignancies), has been shown to have similar function as eIF2D translation initiation factor (also known as ligatin), which is involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner.


Pssm-ID: 211320  Cd Length: 86  Bit Score: 42.93  E-value: 1.93e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 578800618 341 IDITLAQRASNKKVTVVRNLEAYGLDPYSVAAILQQRCQASTTVNPAPGAKDslQVQIQGNQVHHLGWLLLEEY-QLPRK 419
Cdd:cd11607    3 VTIKRISRNKRKFVTTVTGLETFGIDLKKAAKLFAKKFACGASVTKGAEGKD--EIVIQGDVTDDIVDLILEKWpEIDED 80


                 ..
gi 578800618 420 HI 421
Cdd:cd11607   81 NI 82
eIF1_SUI1_like cd00474
Eukaryotic initiation factor 1 and related proteins; Members of the eIF1/SUI1 (eukaryotic ...
 341-414 5.28e-05

Eukaryotic initiation factor 1 and related proteins; Members of the eIF1/SUI1 (eukaryotic initiation factor 1) family are found in eukaryotes, archaea, and some bacteria; eukaryotic members are understood to play an important role in accurate initiator codon recognition during translation initiation. eIF1 interacts with 18S rRNA in the 40S ribosomal subunit during eukaryotic translation initiation. Point mutations in the yeast eIF1 implicate the protein in maintaining accurate start-site selection but its mechanism of action is unknown. The function of non-eukaryotic family members is also unclear.


Pssm-ID: 211317  Cd Length: 78  Bit Score: 41.26  E-value: 5.28e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 578800618 341 IDITLAQRASNKKVTVVRNLEAYgLDPYSVAAILQQRCQASTTVNPapgakDSLQVQIQGNQVHHLGWLLLEEY 414
Cdd:cd00474    2 IHIKVEQRSGGKKVTKVEGLPAY-IDLRKLADELKKKLGCGGSVEG-----EKMEIEIQGDHTDQIIVALEEKG 69
PUA_eIF2d-like cd21156
PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; ...
 1-23 6.00e-04

PUA RNA-binding domain of eukaryotic translation initiation factor 2D and similar proteins; The RNA-binding PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was detected in a number of proteins involved in RNA metabolism. Most members of this eukaryotic translation initiation factor 2D (eIF2d)-like family of eukaryotic proteins also contain a domain homologous to the translation initiation factor eIF1/SUI1, and a short uncharacterized N-terminal domain. eIF2D may function as a cytosolic GTP-independent initiation factor which delivers Met-tRNA (and non-initiating tRNAs) to the 40S ribosomal subunit. The family member from Drosophila melanogaster has been named ligatin, and this alias has been adopted for other family members as well, which are not homologous to the vertebrate ligatin (LGTN) that is a trafficking receptor for phosphoglycoproteins.


Pssm-ID: 409298 [Multi-domain]  Cd Length: 82  Bit Score: 38.32  E-value: 6.00e-04
                         10        20
                 ....*....|....*....|...
gi 578800618   1 MSTAEMLTSGLKGRGFSVLHTYQ 23
Cdd:cd21156   60 MSSEDMYASGMKGKGVEVLHTYG 82
 
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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