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Conserved domains on  [gi|15228152|ref|NP_178531|]
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Nucleic acid-binding, OB-fold-like protein [Arabidopsis thaliana]

Protein Classification

PLN00208 family protein( domain architecture ID 10010700)

PLN00208 family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN00208 PLN00208
translation initiation factor (eIF); Provisional
 1-145 1.41e-85

translation initiation factor (eIF); Provisional


:

Pssm-ID: 177798  Cd Length: 145  Bit Score: 246.63  E-value: 1.41e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152    1 MPKNKGKGGKNRKRGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVG 80
Cdd:PLN00208   1 MPKNKGKGGKNRKRGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEALCIDGTKRLCHIRGKMRKKVWIAAGDIILVG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15228152   81 LRDYQDDKADVILKYMSDEARLLKAYGELPENTRLNEGIVGDLEDDDDNNDDDYVEFEDEDIDRI 145
Cdd:PLN00208  81 LRDYQDDKADVILKYMPDEARLLKAYGELPENTRLNEGIAGDLDEEEDGEGDDYIEFEDEDIDKI 145
 
Name Accession Description Interval E-value
PLN00208 PLN00208
translation initiation factor (eIF); Provisional
 1-145 1.41e-85

translation initiation factor (eIF); Provisional


Pssm-ID: 177798  Cd Length: 145  Bit Score: 246.63  E-value: 1.41e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152    1 MPKNKGKGGKNRKRGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVG 80
Cdd:PLN00208   1 MPKNKGKGGKNRKRGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEALCIDGTKRLCHIRGKMRKKVWIAAGDIILVG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15228152   81 LRDYQDDKADVILKYMSDEARLLKAYGELPENTRLNEGIVGDLEDDDDNNDDDYVEFEDEDIDRI 145
Cdd:PLN00208  81 LRDYQDDKADVILKYMPDEARLLKAYGELPENTRLNEGIAGDLDEEEDGEGDDYIEFEDEDIDKI 145
eIF1a smart00652
eukaryotic translation initiation factor 1A;
28-110 6.90e-41

eukaryotic translation initiation factor 1A;


Pssm-ID: 128900  Cd Length: 83  Bit Score: 131.22  E-value: 6.90e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152     28 FKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADVILKYMSDEARLLKAYG 107
Cdd:smart00652   1 FKEDGQEIAQVVKMLGNGRLEVMCADGKERLARIPGKMRKKVWIRRGDIVLVDPWDFQDVKADIIYKYTKDEVRWLKKEG 80


                   ...
gi 15228152    108 ELP 110
Cdd:smart00652  81 ELP 83
S1_IF1A cd05793
S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A ...
 33-109 2.41e-40

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: 129.95  E-value: 2.41e-40
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15228152  33 QEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADVILKYMSDEARLLKAYGEL 109
Cdd:cd05793   1 EEYGQVEKMLGNGRLEVRCFDGKKRLCRIRGKMRKRVWINEGDIVLVAPWDFQDDKADIIYKYTPDEVRWLKRKGEL 77
eIF-1A TIGR00523
eukaryotic/archaeal initiation factor 1A; Recommended nomenclature: eIF-1A for eukaryotes, ...
 14-111 1.51e-35

eukaryotic/archaeal initiation factor 1A; Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C [Protein synthesis, Translation factors]


Pssm-ID: 273118  Cd Length: 98  Bit Score: 118.43  E-value: 1.51e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152    14 RGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADVIL 93
Cdd:TIGR00523   1 RGKQDSDGPRVRLPYKEEGEIYGVITQMLGAGRVKVRCFDGNKRLARIPGKLRKKIWIREGDVVLVKPWEFQDDKCDIVW 80

                          90
                  ....*....|....*...
gi 15228152    94 KYMSDEARLLKAYGELPE 111
Cdd:TIGR00523  81 RYTLTEVEWLKRKGYLKE 98
eIF-1a pfam01176
Translation initiation factor 1A / IF-1; This family includes both the eukaryotic translation ...
 33-94 6.24e-24

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: 87.83  E-value: 6.24e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15228152    33 QEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADVILK 94
Cdd:pfam01176   1 EVIGKVVEALGNNLFEVELDNGHTRLAHIPGKMRNRIWIKRGDYVLVEPSPYDLTKGRIVYR 62
InfA COG0361
Translation initiation factor IF-1 [Translation, ribosomal structure and biogenesis]; ...
 29-96 4.22e-17

Translation initiation factor IF-1 [Translation, ribosomal structure and biogenesis]; Translation initiation factor IF-1 is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 440130  Cd Length: 73  Bit Score: 70.52  E-value: 4.22e-17
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15228152  29 KEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHK-KVWIAAGDIVLVGLRDYQDDKADVILKYM 96
Cdd:COG0361   5 EDLIEVEGVVEEVLPNARFRVRLENGHERLARISGKMRKnRIRILPGDRVLVEPSPYDLTKGRIVYRYK 73
 
Name Accession Description Interval E-value
PLN00208 PLN00208
translation initiation factor (eIF); Provisional
 1-145 1.41e-85

translation initiation factor (eIF); Provisional


Pssm-ID: 177798  Cd Length: 145  Bit Score: 246.63  E-value: 1.41e-85
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152    1 MPKNKGKGGKNRKRGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVG 80
Cdd:PLN00208   1 MPKNKGKGGKNRKRGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEALCIDGTKRLCHIRGKMRKKVWIAAGDIILVG 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 15228152   81 LRDYQDDKADVILKYMSDEARLLKAYGELPENTRLNEGIVGDLEDDDDNNDDDYVEFEDEDIDRI 145
Cdd:PLN00208  81 LRDYQDDKADVILKYMPDEARLLKAYGELPENTRLNEGIAGDLDEEEDGEGDDYIEFEDEDIDKI 145
PTZ00329 PTZ00329
eukaryotic translation initiation factor 1A; Provisional
 1-143 5.27e-69

eukaryotic translation initiation factor 1A; Provisional


Pssm-ID: 185558  Cd Length: 155  Bit Score: 205.04  E-value: 5.27e-69
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152    1 MPKNKGKGGKNRKRGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVG 80
Cdd:PTZ00329   1 MPKNKGKGGKNRRRGKNDNEGEKRELVFKEEGQEYAQVLRMLGNGRLEAYCFDGVKRLCHIRGKMRKRVWINIGDIILVS 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15228152   81 LRDYQDDKADVILKYMSDEARLLKAYGELPENTRLNEGIVGDLEDDDDnndddyVEFEDEDID 143
Cdd:PTZ00329  81 LRDFQDSKADVILKYTPDEARALKQHGELPETAKINETDIFDDEGDDG------IEFQDDESD 137
eIF1a smart00652
eukaryotic translation initiation factor 1A;
28-110 6.90e-41

eukaryotic translation initiation factor 1A;


Pssm-ID: 128900  Cd Length: 83  Bit Score: 131.22  E-value: 6.90e-41
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152     28 FKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADVILKYMSDEARLLKAYG 107
Cdd:smart00652   1 FKEDGQEIAQVVKMLGNGRLEVMCADGKERLARIPGKMRKKVWIRRGDIVLVDPWDFQDVKADIIYKYTKDEVRWLKKEG 80


                   ...
gi 15228152    108 ELP 110
Cdd:smart00652  81 ELP 83
S1_IF1A cd05793
S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A ...
 33-109 2.41e-40

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: 129.95  E-value: 2.41e-40
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15228152  33 QEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADVILKYMSDEARLLKAYGEL 109
Cdd:cd05793   1 EEYGQVEKMLGNGRLEVRCFDGKKRLCRIRGKMRKRVWINEGDIVLVAPWDFQDDKADIIYKYTPDEVRWLKRKGEL 77
eIF-1A TIGR00523
eukaryotic/archaeal initiation factor 1A; Recommended nomenclature: eIF-1A for eukaryotes, ...
 14-111 1.51e-35

eukaryotic/archaeal initiation factor 1A; Recommended nomenclature: eIF-1A for eukaryotes, aIF-1A for Archaea. Also called eIF-4C [Protein synthesis, Translation factors]


Pssm-ID: 273118  Cd Length: 98  Bit Score: 118.43  E-value: 1.51e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152    14 RGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADVIL 93
Cdd:TIGR00523   1 RGKQDSDGPRVRLPYKEEGEIYGVITQMLGAGRVKVRCFDGNKRLARIPGKLRKKIWIREGDVVLVKPWEFQDDKCDIVW 80

                          90
                  ....*....|....*...
gi 15228152    94 KYMSDEARLLKAYGELPE 111
Cdd:TIGR00523  81 RYTLTEVEWLKRKGYLKE 98
S1_IF1A_like cd04456
S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is ...
 33-109 5.45e-30

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: 103.79  E-value: 5.45e-30
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15228152  33 QEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDD-KADVILKYMSDEARLLKAYGEL 109
Cdd:cd04456   1 QQIVRVLRMLGNNRHEVECADGQRRLVSIPGKLRKNIWIKRGDFLIVDPIEEGEDvKADIIFVYCKDHVRSLKKEGFL 78
PRK04012 PRK04012
translation initiation factor IF-1A; Provisional
 12-111 2.67e-24

translation initiation factor IF-1A; Provisional


Pssm-ID: 179708  Cd Length: 100  Bit Score: 89.63  E-value: 2.67e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15228152   12 RKRGKNEADDEKRELIFKEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADV 91
Cdd:PRK04012   1 MKKKQDDEEVTRVRLPMPEEGEVFGVVEQMLGANRVRVRCMDGVERMGRIPGKMKKRMWIREGDVVIVAPWDFQDEKADI 80

                         90       100
                 ....*....|....*....|
gi 15228152   92 ILKYMSDEARLLKAYGELPE 111
Cdd:PRK04012  81 IWRYTKPQVDWLRRKGYISE 100
eIF-1a pfam01176
Translation initiation factor 1A / IF-1; This family includes both the eukaryotic translation ...
 33-94 6.24e-24

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: 87.83  E-value: 6.24e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15228152    33 QEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHKKVWIAAGDIVLVGLRDYQDDKADVILK 94
Cdd:pfam01176   1 EVIGKVVEALGNNLFEVELDNGHTRLAHIPGKMRNRIWIKRGDYVLVEPSPYDLTKGRIVYR 62
InfA COG0361
Translation initiation factor IF-1 [Translation, ribosomal structure and biogenesis]; ...
 29-96 4.22e-17

Translation initiation factor IF-1 [Translation, ribosomal structure and biogenesis]; Translation initiation factor IF-1 is part of the Pathway/BioSystem: Translation factors


Pssm-ID: 440130  Cd Length: 73  Bit Score: 70.52  E-value: 4.22e-17
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15228152  29 KEDGQEYAQVLRMLGNGRCEAMCIDGTKRLCHIRGKMHK-KVWIAAGDIVLVGLRDYQDDKADVILKYM 96
Cdd:COG0361   5 EDLIEVEGVVEEVLPNARFRVRLENGHERLARISGKMRKnRIRILPGDRVLVEPSPYDLTKGRIVYRYK 73
 
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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