NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1938922412|pdb|5FLX|c]
View 

Chain c, 40S RIBOSOMAL PROTEIN S28

Protein Classification

40S ribosomal protein S28( domain architecture ID 10138665)

40S ribosomal protein S28 is a component of the 40S small ribosomal subunit

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
S1_S28E cd04457
S1_S28E: S28E, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide ...
 10-69 6.25e-32

S1_S28E: S28E, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. S28E protein is a component of the 30S ribosomal subunit. S28E is highly conserved among archaea and eukaryotes. S28E may control precursor RNA splicing and turnover in mRNA maturation process but its function in the ribosome is largely unknown. The structure contains an OB-fold found in many oligosaccharide and nucleic acid binding proteins. This implies that S28E might be involved in protein synthesis.


:

Pssm-ID: 239904  Cd Length: 60  Bit Score: 104.64  E-value: 6.25e-32
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|
5FLX_c      10 KLARVTKVLGRTGSQGQCTQVRVEFMDDTSRSIIRNVKGPVREGDVLTLLESEREARRLR 69
Cdd:cd04457  1 KLAEVIKVLGRTGSRGEVTQVRVEFMDDKGRSIIRNVKGPVREGDILMLLETEREARRLR 60
 
Name Accession Description Interval E-value
S1_S28E cd04457
S1_S28E: S28E, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide ...
 10-69 6.25e-32

S1_S28E: S28E, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. S28E protein is a component of the 30S ribosomal subunit. S28E is highly conserved among archaea and eukaryotes. S28E may control precursor RNA splicing and turnover in mRNA maturation process but its function in the ribosome is largely unknown. The structure contains an OB-fold found in many oligosaccharide and nucleic acid binding proteins. This implies that S28E might be involved in protein synthesis.


Pssm-ID: 239904  Cd Length: 60  Bit Score: 104.64  E-value: 6.25e-32
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|
5FLX_c      10 KLARVTKVLGRTGSQGQCTQVRVEFMDDTSRSIIRNVKGPVREGDVLTLLESEREARRLR 69
Cdd:cd04457  1 KLAEVIKVLGRTGSRGEVTQVRVEFMDDKGRSIIRNVKGPVREGDILMLLETEREARRLR 60
Ribosomal_S28e pfam01200
Ribosomal protein S28e;
7-68 5.32e-30

Ribosomal protein S28e;


Pssm-ID: 460109  Cd Length: 64  Bit Score: 100.01  E-value: 5.32e-30
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
5FLX_c         7 QPIKLARVTKVLGRTGSQGQCTQVRVEFMD--DTSRSIIRNVKGPVREGDVLTLLESEREARRL 68
Cdd:pfam01200  1 EKAQPAEVIKVLGRTGSRGEVTQVRVEILEgrDKGRIITRNVKGPVRVGDILMLLETEREARRL 64
PTZ00085 PTZ00085
40S ribosomal protein S28; Provisional
 1-69 3.83e-26

40S ribosomal protein S28; Provisional


Pssm-ID: 240261  Cd Length: 73  Bit Score: 90.58  E-value: 3.83e-26
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
5FLX_c        1 MDTSRVQPIKLARVTKVLGRTGSQGQCTQVRVEFMDDTS---RSIIRNVKGPVREGDVLTLLESEREARRLR 69
Cdd:PTZ00085  2 VVTQDTEQPKLAKVIKVLGRTGSRGGVTQVRVQLMGEEGdagRTLIRNVKGPVREGDILSLMETEREARRLR 73
RPS28A COG2053
Ribosomal protein S28E/S33 [Translation, ribosomal structure and biogenesis]; Ribosomal ...
 12-69 1.34e-16

Ribosomal protein S28E/S33 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S28E/S33 is part of the Pathway/BioSystem: Archaeal ribosomal proteins


Pssm-ID: 441656  Cd Length: 73  Bit Score: 66.54  E-value: 1.34e-16
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|
5FLX_c      12 ARVTKVLGRTGSQGQCTQVRVEFMD--DTSRSIIRNVKGPVREGDVLTLLESEREARRLR 69
Cdd:COG2053 12 AEVIEIIGRTGMTGEVTQVRVRILEgrDKGRIITRNVKGPVRVGDILMLRETEREARKLK 71
 
Name Accession Description Interval E-value
S1_S28E cd04457
S1_S28E: S28E, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide ...
 10-69 6.25e-32

S1_S28E: S28E, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. S28E protein is a component of the 30S ribosomal subunit. S28E is highly conserved among archaea and eukaryotes. S28E may control precursor RNA splicing and turnover in mRNA maturation process but its function in the ribosome is largely unknown. The structure contains an OB-fold found in many oligosaccharide and nucleic acid binding proteins. This implies that S28E might be involved in protein synthesis.


Pssm-ID: 239904  Cd Length: 60  Bit Score: 104.64  E-value: 6.25e-32
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|
5FLX_c      10 KLARVTKVLGRTGSQGQCTQVRVEFMDDTSRSIIRNVKGPVREGDVLTLLESEREARRLR 69
Cdd:cd04457  1 KLAEVIKVLGRTGSRGEVTQVRVEFMDDKGRSIIRNVKGPVREGDILMLLETEREARRLR 60
Ribosomal_S28e pfam01200
Ribosomal protein S28e;
7-68 5.32e-30

Ribosomal protein S28e;


Pssm-ID: 460109  Cd Length: 64  Bit Score: 100.01  E-value: 5.32e-30
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
5FLX_c         7 QPIKLARVTKVLGRTGSQGQCTQVRVEFMD--DTSRSIIRNVKGPVREGDVLTLLESEREARRL 68
Cdd:pfam01200  1 EKAQPAEVIKVLGRTGSRGEVTQVRVEILEgrDKGRIITRNVKGPVRVGDILMLLETEREARRL 64
PTZ00085 PTZ00085
40S ribosomal protein S28; Provisional
 1-69 3.83e-26

40S ribosomal protein S28; Provisional


Pssm-ID: 240261  Cd Length: 73  Bit Score: 90.58  E-value: 3.83e-26
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
5FLX_c        1 MDTSRVQPIKLARVTKVLGRTGSQGQCTQVRVEFMDDTS---RSIIRNVKGPVREGDVLTLLESEREARRLR 69
Cdd:PTZ00085  2 VVTQDTEQPKLAKVIKVLGRTGSRGGVTQVRVQLMGEEGdagRTLIRNVKGPVREGDILSLMETEREARRLR 73
RPS28A COG2053
Ribosomal protein S28E/S33 [Translation, ribosomal structure and biogenesis]; Ribosomal ...
 12-69 1.34e-16

Ribosomal protein S28E/S33 [Translation, ribosomal structure and biogenesis]; Ribosomal protein S28E/S33 is part of the Pathway/BioSystem: Archaeal ribosomal proteins


Pssm-ID: 441656  Cd Length: 73  Bit Score: 66.54  E-value: 1.34e-16
                       10        20        30        40        50        60
               ....*....|....*....|....*....|....*....|....*....|....*....|
5FLX_c      12 ARVTKVLGRTGSQGQCTQVRVEFMD--DTSRSIIRNVKGPVREGDVLTLLESEREARRLR 69
Cdd:COG2053 12 AEVIEIIGRTGMTGEVTQVRVRILEgrDKGRIITRNVKGPVRVGDILMLRETEREARKLK 71
rps28e PRK04007
30S ribosomal protein S28e; Validated
 12-69 1.50e-16

30S ribosomal protein S28e; Validated


Pssm-ID: 235197  Cd Length: 70  Bit Score: 66.15  E-value: 1.50e-16
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
5FLX_c       12 ARVTKVLGRTGSQGQCTQVRVEFMD--DTSRSIIRNVKGPVREGDVLTLLESEREARRLR 69
Cdd:PRK04007  9 AEVIEIIGRTGMTGEVTQVKCRILEgrDKGRIITRNVKGPVRVGDILMLRETEREARKLG 68
 
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