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Conserved domains on  [gi|510825549|ref|WP_016198712|]
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HPF/RaiA family ribosome-associated protein [Elizabethkingia meningoseptica]

Protein Classification

HPF/RaiA family ribosome-associated protein( domain architecture ID 10003959)

HPF/RaiA family ribosome-associated protein similar to ribosome-associated translation inhibitor RaiA, a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site, and ribosome hibernation promotion factor (HPF), which is required for dimerization of active 70S ribosomes into 100S ribosomes in stationary phase

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RaiA COG1544
Ribosome-associated translation inhibitor RaiA [Translation, ribosomal structure and ...
 2-83 4.03e-17

Ribosome-associated translation inhibitor RaiA [Translation, ribosomal structure and biogenesis];


:

Pssm-ID: 441153  Cd Length: 101  Bit Score: 69.81  E-value: 4.03e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510825549   2 KITVQSFGLTPHAPLEEHIEKKVGKLETFYDKIQACKVLLKVENTNDkenKTAELLLDIPGDDIVVKKTTLSFEESIDTC 81
Cdd:COG1544    1 KINITGRNVEVTDALREYVEEKLEKLEKYFDRIISADVTLSVEKNRR---FKVEITLHVPGPVLRAEAEAEDMYAAIDLA 77


                 ..
gi 510825549  82 VD 83
Cdd:COG1544   78 VD 79
 
Name Accession Description Interval E-value
RaiA COG1544
Ribosome-associated translation inhibitor RaiA [Translation, ribosomal structure and ...
 2-83 4.03e-17

Ribosome-associated translation inhibitor RaiA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441153  Cd Length: 101  Bit Score: 69.81  E-value: 4.03e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510825549   2 KITVQSFGLTPHAPLEEHIEKKVGKLETFYDKIQACKVLLKVENTNDkenKTAELLLDIPGDDIVVKKTTLSFEESIDTC 81
Cdd:COG1544    1 KINITGRNVEVTDALREYVEEKLEKLEKYFDRIISADVTLSVEKNRR---FKVEITLHVPGPVLRAEAEAEDMYAAIDLA 77


                 ..
gi 510825549  82 VD 83
Cdd:COG1544   78 VD 79
Ribosomal_S30AE pfam02482
Sigma 54 modulation protein / S30EA ribosomal protein; This Pfam family contains the sigma-54 ...
 3-83 1.08e-07

Sigma 54 modulation protein / S30EA ribosomal protein; This Pfam family contains the sigma-54 modulation protein family and the S30AE family of ribosomal proteins which includes the light- repressed protein (lrtA).


Pssm-ID: 460569  Cd Length: 87  Bit Score: 45.19  E-value: 1.08e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510825549   3 ITVQSFGLTPHAPLEEHIEKKVGKLETFydkIQACKVLLKVENTNDKEnktAELLLdIPGDDIVVKKTTLSFEESIDTCV 82
Cdd:pfam02482  1 INITGRNIEVTDALREYVEKKLEKLEKY---FISADVTLSVEKRHKVE---VTIRL-VPGVVLRAEETAEDLYAAIDLAV 73


                 .
gi 510825549  83 D 83
Cdd:pfam02482 74 D 74
PRK10470 PRK10470
ribosome hibernation promoting factor;
1-83 5.09e-03

ribosome hibernation promoting factor;


Pssm-ID: 182484  Cd Length: 95  Bit Score: 33.34  E-value: 5.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510825549  1 MKITVQSFGLTPhaPLEEHIEKKVGKLETFYDKIQACKVLLKVEntndKENKTAELLLDIPGDDIVVKKTTLSFEESIDT 80
Cdd:PRK10470  3 LNITGHNVEITE--ALREFVTAKFAKLEQYFDRINQVYVVLKVE----KVTHISDATLHVNGGEIHASAEGQDMYAAIDG 76


                ...
gi 510825549 81 CVD 83
Cdd:PRK10470 77 LID 79
 
Name Accession Description Interval E-value
RaiA COG1544
Ribosome-associated translation inhibitor RaiA [Translation, ribosomal structure and ...
 2-83 4.03e-17

Ribosome-associated translation inhibitor RaiA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441153  Cd Length: 101  Bit Score: 69.81  E-value: 4.03e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510825549   2 KITVQSFGLTPHAPLEEHIEKKVGKLETFYDKIQACKVLLKVENTNDkenKTAELLLDIPGDDIVVKKTTLSFEESIDTC 81
Cdd:COG1544    1 KINITGRNVEVTDALREYVEEKLEKLEKYFDRIISADVTLSVEKNRR---FKVEITLHVPGPVLRAEAEAEDMYAAIDLA 77


                 ..
gi 510825549  82 VD 83
Cdd:COG1544   78 VD 79
Ribosomal_S30AE pfam02482
Sigma 54 modulation protein / S30EA ribosomal protein; This Pfam family contains the sigma-54 ...
 3-83 1.08e-07

Sigma 54 modulation protein / S30EA ribosomal protein; This Pfam family contains the sigma-54 modulation protein family and the S30AE family of ribosomal proteins which includes the light- repressed protein (lrtA).


Pssm-ID: 460569  Cd Length: 87  Bit Score: 45.19  E-value: 1.08e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510825549   3 ITVQSFGLTPHAPLEEHIEKKVGKLETFydkIQACKVLLKVENTNDKEnktAELLLdIPGDDIVVKKTTLSFEESIDTCV 82
Cdd:pfam02482  1 INITGRNIEVTDALREYVEKKLEKLEKY---FISADVTLSVEKRHKVE---VTIRL-VPGVVLRAEETAEDLYAAIDLAV 73


                 .
gi 510825549  83 D 83
Cdd:pfam02482 74 D 74
PRK10470 PRK10470
ribosome hibernation promoting factor;
1-83 5.09e-03

ribosome hibernation promoting factor;


Pssm-ID: 182484  Cd Length: 95  Bit Score: 33.34  E-value: 5.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 510825549  1 MKITVQSFGLTPhaPLEEHIEKKVGKLETFYDKIQACKVLLKVEntndKENKTAELLLDIPGDDIVVKKTTLSFEESIDT 80
Cdd:PRK10470  3 LNITGHNVEITE--ALREFVTAKFAKLEQYFDRINQVYVVLKVE----KVTHISDATLHVNGGEIHASAEGQDMYAAIDG 76


                ...
gi 510825549 81 CVD 83
Cdd:PRK10470 77 LID 79
 
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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