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Conserved domains on  [gi|15226743|ref|NP_181610|]
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Nucleic acid-binding, OB-fold-like protein [Arabidopsis thaliana]

Protein Classification

S1 domain-containing protein; eukaryotic translation initiation factor 1A( domain architecture ID 10652751)

S1 domain-containing protein may bind RNA| eukaryotic translation initiation factor 1A (eIF1A) may be required for maximal rate of protein biosynthesis; it enhances ribosome dissociation into subunits and stabilizes the binding of the initiator Met-tRNA(I) to 40 S ribosomal subunits

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
eIF1a smart00652
eukaryotic translation initiation factor 1A;
18-107 8.67e-29

eukaryotic translation initiation factor 1A;


:

Pssm-ID: 128900  Cd Length: 83  Bit Score: 101.56  E-value: 8.67e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226743     18 TLEECQSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVID--HTGKEKAQesgskvtsIVCKVLfFE 95
Cdd:smart00652   1 FKEDGQEIAQVVKMLGNGRLEVMCADGKERLARIPGKMRKKVWIRRGDIVLVDpwDFQDVKAD--------IIYKYT-KD 71

                           90
                   ....*....|..
gi 15226743     96 QVRLLQKSPEWP 107
Cdd:smart00652  72 EVRWLKKEGELP 83
 
Name Accession Description Interval E-value
eIF1a smart00652
eukaryotic translation initiation factor 1A;
18-107 8.67e-29

eukaryotic translation initiation factor 1A;


Pssm-ID: 128900  Cd Length: 83  Bit Score: 101.56  E-value: 8.67e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226743     18 TLEECQSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVID--HTGKEKAQesgskvtsIVCKVLfFE 95
Cdd:smart00652   1 FKEDGQEIAQVVKMLGNGRLEVMCADGKERLARIPGKMRKKVWIRRGDIVLVDpwDFQDVKAD--------IIYKYT-KD 71

                           90
                   ....*....|..
gi 15226743     96 QVRLLQKSPEWP 107
Cdd:smart00652  72 EVRWLKKEGELP 83
S1_eIF1AD_like cd05792
S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD) ...
 23-106 1.42e-16

S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.


Pssm-ID: 240218  Cd Length: 78  Bit Score: 70.15  E-value: 1.42e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226743  23 QSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVIDHTgkekaqESGSKVTSIVCKVLFFEQVRLLQK 102
Cdd:cd05792   1 QQIVRVLGSKGNNLHEVETPNGSRYLVSMPTKFRKNIWIKRGDFVLVEPI------EEGDKVKAEIVKILTRDHVKYIKE 74


                ....
gi 15226743 103 SPEW 106
Cdd:cd05792  75 EGLW 78
eIF-1a pfam01176
Translation initiation factor 1A / IF-1; This family includes both the eukaryotic translation ...
 23-70 9.06e-10

Translation initiation factor 1A / IF-1; This family includes both the eukaryotic translation factor eIF-1A and the bacterial translation initiation factor IF-1.


Pssm-ID: 460099  Cd Length: 62  Bit Score: 52.00  E-value: 9.06e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15226743    23 QSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVID 70
Cdd:pfam01176   1 EVIGKVVEALGNNLFEVELDNGHTRLAHIPGKMRNRIWIKRGDYVLVE 48
PLN00208 PLN00208
translation initiation factor (eIF); Provisional
 1-139 5.15e-04

translation initiation factor (eIF); Provisional


Pssm-ID: 177798  Cd Length: 145  Bit Score: 38.24  E-value: 5.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226743    1 MNRGRRNLKQAASDQDFTL---EECQSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVIdhtGKEKA 77
Cdd:PLN00208   8 GGKNRKRGKNEADDEKRELifkEDGQEYAQVLRMLGNGRCEALCIDGTKRLCHIRGKMRKKVWIAAGDIILV---GLRDY 84

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15226743   78 QESGSKVtsiVCKVLfFEQVRLLQKSPEWPEIFKDTRPIpAEKSSPIEQHEDDGEVDSSDDD 139
Cdd:PLN00208  85 QDDKADV---ILKYM-PDEARLLKAYGELPENTRLNEGI-AGDLDEEEDGEGDDYIEFEDED 141
 
Name Accession Description Interval E-value
eIF1a smart00652
eukaryotic translation initiation factor 1A;
18-107 8.67e-29

eukaryotic translation initiation factor 1A;


Pssm-ID: 128900  Cd Length: 83  Bit Score: 101.56  E-value: 8.67e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226743     18 TLEECQSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVID--HTGKEKAQesgskvtsIVCKVLfFE 95
Cdd:smart00652   1 FKEDGQEIAQVVKMLGNGRLEVMCADGKERLARIPGKMRKKVWIRRGDIVLVDpwDFQDVKAD--------IIYKYT-KD 71

                           90
                   ....*....|..
gi 15226743     96 QVRLLQKSPEWP 107
Cdd:smart00652  72 EVRWLKKEGELP 83
S1_eIF1AD_like cd05792
S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD) ...
 23-106 1.42e-16

S1_eIF1AD_like: eukaryotic translation initiation factor 1A domain containing protein (eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is also known as MGC11102 protein. Little is known about the function of eIF1AD. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins, including translation initiation factor IF1A (also referred to as eIF1A in eukaryotes). eIF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors.


Pssm-ID: 240218  Cd Length: 78  Bit Score: 70.15  E-value: 1.42e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226743  23 QSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVIDHTgkekaqESGSKVTSIVCKVLFFEQVRLLQK 102
Cdd:cd05792   1 QQIVRVLGSKGNNLHEVETPNGSRYLVSMPTKFRKNIWIKRGDFVLVEPI------EEGDKVKAEIVKILTRDHVKYIKE 74


                ....
gi 15226743 103 SPEW 106
Cdd:cd05792  75 EGLW 78
eIF-1a pfam01176
Translation initiation factor 1A / IF-1; This family includes both the eukaryotic translation ...
 23-70 9.06e-10

Translation initiation factor 1A / IF-1; This family includes both the eukaryotic translation factor eIF-1A and the bacterial translation initiation factor IF-1.


Pssm-ID: 460099  Cd Length: 62  Bit Score: 52.00  E-value: 9.06e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 15226743    23 QSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVID 70
Cdd:pfam01176   1 EVIGKVVEALGNNLFEVELDNGHTRLAHIPGKMRNRIWIKRGDYVLVE 48
S1_IF1A_like cd04456
S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is ...
 23-106 4.61e-09

S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.


Pssm-ID: 239903  Cd Length: 78  Bit Score: 50.63  E-value: 4.61e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226743  23 QSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVIDHtgKEKAQESGSKVTSIVCKvlffEQVRLLQK 102
Cdd:cd04456   1 QQIVRVLRMLGNNRHEVECADGQRRLVSIPGKLRKNIWIKRGDFLIVDP--IEEGEDVKADIIFVYCK----DHVRSLKK 74


                ....
gi 15226743 103 SPEW 106
Cdd:cd04456  75 EGFL 78
PLN00208 PLN00208
translation initiation factor (eIF); Provisional
 1-139 5.15e-04

translation initiation factor (eIF); Provisional


Pssm-ID: 177798  Cd Length: 145  Bit Score: 38.24  E-value: 5.15e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15226743    1 MNRGRRNLKQAASDQDFTL---EECQSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVIdhtGKEKA 77
Cdd:PLN00208   8 GGKNRKRGKNEADDEKRELifkEDGQEYAQVLRMLGNGRCEALCIDGTKRLCHIRGKMRKKVWIAAGDIILV---GLRDY 84

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15226743   78 QESGSKVtsiVCKVLfFEQVRLLQKSPEWPEIFKDTRPIpAEKSSPIEQHEDDGEVDSSDDD 139
Cdd:PLN00208  85 QDDKADV---ILKYM-PDEARLLKAYGELPENTRLNEGI-AGDLDEEEDGEGDDYIEFEDED 141
S1_IF1A cd05793
S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A ...
 23-69 9.43e-03

S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.


Pssm-ID: 240219  Cd Length: 77  Bit Score: 33.65  E-value: 9.43e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*..
gi 15226743  23 QSIAQVVSLRGSNQIEIMDAKGENSLALFPAKFRESMWIRRGSFVVI 69
Cdd:cd05793   1 EEYGQVEKMLGNGRLEVRCFDGKKRLCRIRGKMRKRVWINEGDIVLV 47
 
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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