NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1600726786|ref|YP_009568195|]
View 

translation initiation factor 1 (plastid) [Sesuvium portulacastrum]

Protein Classification

translation initiation factor IF-1( domain architecture ID 10000004)

initiation factor 1 together with initiation factor 2 and 3 play an important role in the correct assembly of the functional initiation complex for protein biosynthesis in prokaryotes

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
infA CHL00010
translation initiation factor 1
 1-77 5.58e-39

translation initiation factor 1


:

Pssm-ID: 214332  Cd Length: 78  Bit Score: 123.56  E-value: 5.58e-39
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1600726786  1 MKEQKWIHEGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYRLCNKDSND 77
Cdd:CHL00010   2 KKENKIEMEGLVTESLPNGMFRVRLDNGCQVLGYISGKIRRNSIRILPGDRVKVELSPYDLTKGRIIYRLRNKDSND 78
 
Name Accession Description Interval E-value
infA CHL00010
translation initiation factor 1
 1-77 5.58e-39

translation initiation factor 1


Pssm-ID: 214332  Cd Length: 78  Bit Score: 123.56  E-value: 5.58e-39
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1600726786  1 MKEQKWIHEGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYRLCNKDSND 77
Cdd:CHL00010   2 KKENKIEMEGLVTESLPNGMFRVRLDNGCQVLGYISGKIRRNSIRILPGDRVKVELSPYDLTKGRIIYRLRNKDSND 78
infA TIGR00008
translation initiation factor IF-1; This family consists of translation initiation factor IF-1 ...
 2-70 3.99e-33

translation initiation factor IF-1; This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575). [Protein synthesis, Translation factors]


Pssm-ID: 188015  Cd Length: 69  Bit Score: 108.58  E-value: 3.99e-33
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1600726786  2 KEQKWIHEGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYRL 70
Cdd:TIGR00008  1 KEDKIEMEGKVTESLPNAMFRVELENGHEVLAHISGKIRMHYIRILPGDRVKVELSPYDLTRGRITYRL 69
S1_IF1 cd04451
S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like ...
 9-69 7.46e-23

S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of the mRNA.


Pssm-ID: 239898  Cd Length: 64  Bit Score: 82.18  E-value: 7.46e-23
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1600726786  9 EGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYR 69
Cdd:cd04451    4 EGVVTEALPNAMFRVELENGHEVLAHISGKMRMNYIRILPGDRVKVELSPYDLTKGRIVYR 64
InfA COG0361
Translation initiation factor IF-1 [Translation, ribosomal structure and biogenesis]; ...
 9-70 9.30e-22

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: 79.77  E-value: 9.30e-22
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1600726786  9 EGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYRL 70
Cdd:COG0361   11 EGVVEEVLPNARFRVRLENGHERLARISGKMRKNRIRILPGDRVLVEPSPYDLTKGRIVYRY 72
eIF-1a pfam01176
Translation initiation factor 1A / IF-1; This family includes both the eukaryotic translation ...
 9-69 1.11e-15

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: 63.94  E-value: 1.11e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1600726786  9 EGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRfIRILPVDRVKIEVSRYDSTRGRIIYR 69
Cdd:pfam01176  3 IGKVVEALGNNLFEVELDNGHTRLAHIPGKMRNR-IWIKRGDYVLVEPSPYDLTKGRIVYR 62
 
Name Accession Description Interval E-value
infA CHL00010
translation initiation factor 1
 1-77 5.58e-39

translation initiation factor 1


Pssm-ID: 214332  Cd Length: 78  Bit Score: 123.56  E-value: 5.58e-39
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1600726786  1 MKEQKWIHEGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYRLCNKDSND 77
Cdd:CHL00010   2 KKENKIEMEGLVTESLPNGMFRVRLDNGCQVLGYISGKIRRNSIRILPGDRVKVELSPYDLTKGRIIYRLRNKDSND 78
infA TIGR00008
translation initiation factor IF-1; This family consists of translation initiation factor IF-1 ...
 2-70 3.99e-33

translation initiation factor IF-1; This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575). [Protein synthesis, Translation factors]


Pssm-ID: 188015  Cd Length: 69  Bit Score: 108.58  E-value: 3.99e-33
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1600726786  2 KEQKWIHEGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYRL 70
Cdd:TIGR00008  1 KEDKIEMEGKVTESLPNAMFRVELENGHEVLAHISGKIRMHYIRILPGDRVKVELSPYDLTRGRITYRL 69
infA PRK00276
translation initiation factor IF-1; Validated
 2-69 1.53e-24

translation initiation factor IF-1; Validated


Pssm-ID: 178954  Cd Length: 72  Bit Score: 86.75  E-value: 1.53e-24
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1600726786  2 KEQKWIHEGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYR 69
Cdd:PRK00276   3 KEDVIEMEGTVVEALPNAMFRVELENGHEVLAHISGKMRKNYIRILPGDKVTVELSPYDLTKGRITYR 70
S1_IF1 cd04451
S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like ...
 9-69 7.46e-23

S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of the mRNA.


Pssm-ID: 239898  Cd Length: 64  Bit Score: 82.18  E-value: 7.46e-23
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1600726786  9 EGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYR 69
Cdd:cd04451    4 EGVVTEALPNAMFRVELENGHEVLAHISGKMRMNYIRILPGDRVKVELSPYDLTKGRIVYR 64
InfA COG0361
Translation initiation factor IF-1 [Translation, ribosomal structure and biogenesis]; ...
 9-70 9.30e-22

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: 79.77  E-value: 9.30e-22
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1600726786  9 EGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRFIRILPVDRVKIEVSRYDSTRGRIIYRL 70
Cdd:COG0361   11 EGVVEEVLPNARFRVRLENGHERLARISGKMRKNRIRILPGDRVLVEPSPYDLTKGRIVYRY 72
eIF-1a pfam01176
Translation initiation factor 1A / IF-1; This family includes both the eukaryotic translation ...
 9-69 1.11e-15

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: 63.94  E-value: 1.11e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1600726786  9 EGLITESLPNGMLGFRLDNKNLILGYVSGKIRRRfIRILPVDRVKIEVSRYDSTRGRIIYR 69
Cdd:pfam01176  3 IGKVVEALGNNLFEVELDNGHTRLAHIPGKMRNR-IWIKRGDYVLVEPSPYDLTKGRIVYR 62
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH