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Conserved domains on  [gi|489185768|ref|WP_003095188|]
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MULTISPECIES: 30S ribosome-binding factor RbfA [Pseudomonas]

Protein Classification

ribosome-binding factor A( domain architecture ID 10011458)

ribosome-binding factor A is a cold-shock adaptation protein essential for efficient processing of pre-16S rRNA

Gene Ontology:  GO:0030490|GO:0006364|GO:0019843
SCOP:  4000634

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
rbfA PRK00521
30S ribosome-binding factor RbfA;
1-119 2.54e-54

30S ribosome-binding factor RbfA;


:

Pssm-ID: 234787  Cd Length: 120  Bit Score: 166.06  E-value: 2.54e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   1 MAKDYSRTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAGKIAlnMEILNDAAGYLRM 80
Cdd:PRK00521   1 MMAESQRALRVAEQIQRELAEILQREIKDPRLGMVTVTDVEVSPDLAHAKVYVTVLGDEEDKEEA--LAALKKAAGFLRS 78
                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 489185768  81 LLGKSMKLRSVPQLHFHYDESIRRGAELSALIERAVAED 119
Cdd:PRK00521  79 ELGKRLRLRYVPELRFVYDESLEYGNRIDELLRKAKKED 117
 
Name Accession Description Interval E-value
rbfA PRK00521
30S ribosome-binding factor RbfA;
1-119 2.54e-54

30S ribosome-binding factor RbfA;


Pssm-ID: 234787  Cd Length: 120  Bit Score: 166.06  E-value: 2.54e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   1 MAKDYSRTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAGKIAlnMEILNDAAGYLRM 80
Cdd:PRK00521   1 MMAESQRALRVAEQIQRELAEILQREIKDPRLGMVTVTDVEVSPDLAHAKVYVTVLGDEEDKEEA--LAALKKAAGFLRS 78
                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 489185768  81 LLGKSMKLRSVPQLHFHYDESIRRGAELSALIERAVAED 119
Cdd:PRK00521  79 ELGKRLRLRYVPELRFVYDESLEYGNRIDELLRKAKKED 117
RbfA COG0858
Ribosome-binding factor RbfA [Translation, ribosomal structure and biogenesis];
3-122 8.17e-52

Ribosome-binding factor RbfA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440619  Cd Length: 118  Bit Score: 159.51  E-value: 8.17e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   3 KDYSRTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAGKIAlnMEILNDAAGYLRMLL 82
Cdd:COG0858    1 AESQRQLRVAELIQRELAEILQRELKDPRLGLVTVTEVEVSPDLSHAKVYVSVLGDEEEREEV--LKALNKAKGFIRSEL 78
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489185768  83 GKSMKLRSVPQLHFHYDESIRRGAELSALIERAVAEDGRR 122
Cdd:COG0858   79 GKRLRLRYTPELRFVYDDSLEYGARIDELLDEARKEDDEE 118
RBFA pfam02033
Ribosome-binding factor A;
7-112 2.44e-43

Ribosome-binding factor A;


Pssm-ID: 460422  Cd Length: 105  Bit Score: 137.61  E-value: 2.44e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768    7 RTQRIGDQMQRELAQLIQREIKDPRLG-LVTITGVEVSRDVAHAKVFITVMGQDDAGKIAlnMEILNDAAGYLRMLLGKS 85
Cdd:pfam02033   1 RQRRVAELIQRELSEILRREIKDPRLGgLVTVTEVEVSPDLSHAKVYVSVLGDDEEKEET--LKGLNSAAGFIRSELGKR 78
                          90       100
                  ....*....|....*....|....*..
gi 489185768   86 MKLRSVPQLHFHYDESIRRGAELSALI 112
Cdd:pfam02033  79 LKLRYTPELRFVLDDSLEYGARIDKLL 105
rbfA TIGR00082
ribosome-binding factor A; Associates with free 30S ribosomal subunits (but not with 30S ...
1-113 5.59e-35

ribosome-binding factor A; Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Essential for efficient processing of 16S rRNA. May interact with the 5'terminal helix region of 16S rRNA. Mutants lacking rbfA have a cold-sensitive phenotype. [Transcription, RNA processing]


Pssm-ID: 129191  Cd Length: 114  Bit Score: 116.70  E-value: 5.59e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768    1 MAKdySRTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAgkIALNMEILNDAAGYLRM 80
Cdd:TIGR00082   1 MAS--YRKERVESDIIREINRILIREIKDPRVGMLTVTKVEVSKDLQHAKVFVDCYGDEEA--IDRVVKALNKAKGFIRS 76
                          90       100       110
                  ....*....|....*....|....*....|...
gi 489185768   81 LLGKSMKLRSVPQLHFHYDESIRRGAELSALIE 113
Cdd:TIGR00082  77 LLGQAMRLRKTPELHFVKDNSLDKGMRIENLIN 109
 
Name Accession Description Interval E-value
rbfA PRK00521
30S ribosome-binding factor RbfA;
1-119 2.54e-54

30S ribosome-binding factor RbfA;


Pssm-ID: 234787  Cd Length: 120  Bit Score: 166.06  E-value: 2.54e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   1 MAKDYSRTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAGKIAlnMEILNDAAGYLRM 80
Cdd:PRK00521   1 MMAESQRALRVAEQIQRELAEILQREIKDPRLGMVTVTDVEVSPDLAHAKVYVTVLGDEEDKEEA--LAALKKAAGFLRS 78
                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 489185768  81 LLGKSMKLRSVPQLHFHYDESIRRGAELSALIERAVAED 119
Cdd:PRK00521  79 ELGKRLRLRYVPELRFVYDESLEYGNRIDELLRKAKKED 117
RbfA COG0858
Ribosome-binding factor RbfA [Translation, ribosomal structure and biogenesis];
3-122 8.17e-52

Ribosome-binding factor RbfA [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440619  Cd Length: 118  Bit Score: 159.51  E-value: 8.17e-52
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   3 KDYSRTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAGKIAlnMEILNDAAGYLRMLL 82
Cdd:COG0858    1 AESQRQLRVAELIQRELAEILQRELKDPRLGLVTVTEVEVSPDLSHAKVYVSVLGDEEEREEV--LKALNKAKGFIRSEL 78
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489185768  83 GKSMKLRSVPQLHFHYDESIRRGAELSALIERAVAEDGRR 122
Cdd:COG0858   79 GKRLRLRYTPELRFVYDDSLEYGARIDELLDEARKEDDEE 118
RBFA pfam02033
Ribosome-binding factor A;
7-112 2.44e-43

Ribosome-binding factor A;


Pssm-ID: 460422  Cd Length: 105  Bit Score: 137.61  E-value: 2.44e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768    7 RTQRIGDQMQRELAQLIQREIKDPRLG-LVTITGVEVSRDVAHAKVFITVMGQDDAGKIAlnMEILNDAAGYLRMLLGKS 85
Cdd:pfam02033   1 RQRRVAELIQRELSEILRREIKDPRLGgLVTVTEVEVSPDLSHAKVYVSVLGDDEEKEET--LKGLNSAAGFIRSELGKR 78
                          90       100
                  ....*....|....*....|....*..
gi 489185768   86 MKLRSVPQLHFHYDESIRRGAELSALI 112
Cdd:pfam02033  79 LKLRYTPELRFVLDDSLEYGARIDKLL 105
rbfA TIGR00082
ribosome-binding factor A; Associates with free 30S ribosomal subunits (but not with 30S ...
1-113 5.59e-35

ribosome-binding factor A; Associates with free 30S ribosomal subunits (but not with 30S subunits that are part of 70S ribosomes or polysomes). Essential for efficient processing of 16S rRNA. May interact with the 5'terminal helix region of 16S rRNA. Mutants lacking rbfA have a cold-sensitive phenotype. [Transcription, RNA processing]


Pssm-ID: 129191  Cd Length: 114  Bit Score: 116.70  E-value: 5.59e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768    1 MAKdySRTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAgkIALNMEILNDAAGYLRM 80
Cdd:TIGR00082   1 MAS--YRKERVESDIIREINRILIREIKDPRVGMLTVTKVEVSKDLQHAKVFVDCYGDEEA--IDRVVKALNKAKGFIRS 76
                          90       100       110
                  ....*....|....*....|....*....|...
gi 489185768   81 LLGKSMKLRSVPQLHFHYDESIRRGAELSALIE 113
Cdd:TIGR00082  77 LLGQAMRLRKTPELHFVKDNSLDKGMRIENLIN 109
PRK13816 PRK13816
ribosome-binding factor A; Provisional
7-128 1.35e-33

ribosome-binding factor A; Provisional


Pssm-ID: 184344  Cd Length: 131  Bit Score: 113.82  E-value: 1.35e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   7 RTQRIGDQMQRELAQLIQREIKDPRL-GLVTITGVEVSRDVAHAKVFITVMG--QDDAGKIALNME---ILNDAAGYLRM 80
Cdd:PRK13816   4 RLKRMADSVQRELSELIRQELKDPRLgGLVTISSVKVSPDLGYADVYVTVMGreLSDDQNEVAHREtldVLNKASGFLRT 83
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 489185768  81 LLGKSMKLRSVPQLHFHYDESIRRGAELSALIERAVAEDGRRHGDETE 128
Cdd:PRK13816  84 ELSRRIKTRITPRLRFHYDKTNAYGNYMFGLIEKAVQDLPKRESDDEE 131
PRK13815 PRK13815
ribosome-binding factor A; Provisional
5-129 4.90e-28

ribosome-binding factor A; Provisional


Pssm-ID: 172345  Cd Length: 122  Bit Score: 99.52  E-value: 4.90e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   5 YSRTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAGKIALNMeiLNDAAGYLRMLLGK 84
Cdd:PRK13815   2 FKRSEKVAEAIHELISGLLVKGLKDPRIGFVTITGVKVTDDLHLATIYFTVIGDDEAKKSTEAG--LNSARGFIRKELGK 79
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 489185768  85 SMKLRSVPQLHFHYDESIRRGAELSALIERAVAEDGrrhGDETED 129
Cdd:PRK13815  80 VLRMRYAPELIFKYDESQEYGNRIDSLLKEIGTEHD---GDDSED 121
PRK13817 PRK13817
ribosome-binding factor A; Provisional
7-119 2.77e-23

ribosome-binding factor A; Provisional


Pssm-ID: 139879  Cd Length: 119  Bit Score: 87.50  E-value: 2.77e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   7 RTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAGKIalnMEILNDAAGYLRMLLGKSM 86
Cdd:PRK13817   4 RQQRVADLIHQQLAELLKKEVRDSRLSKISLTAVSISPDLKQAKVFYSLLENQNEKEV---QKALNKATGYLRHLLAQAT 80
                         90       100       110
                 ....*....|....*....|....*....|...
gi 489185768  87 KLRSVPQLHFHYDESIRRGAELSALIERAVAED 119
Cdd:PRK13817  81 VLRYVPKLEFVYDESIERAHRISLLIERALKKD 113
PRK13818 PRK13818
ribosome-binding factor A; Provisional
7-122 5.63e-20

ribosome-binding factor A; Provisional


Pssm-ID: 184345  Cd Length: 121  Bit Score: 78.87  E-value: 5.63e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489185768   7 RTQRIGDQMQRELAQLIQREIKDPRLGLVTITGVEVSRDVAHAKVFITVMGQDDAGKIALNmEILNDAAGYLRMLLGKSM 86
Cdd:PRK13818   4 RIGRVEGEILRELTKILRKNIRDPRLSDVTITAVECTNDLSYATVYYSLLTEDEAKEKEVQ-EGLEKAKGMMRHLLGQTL 82
                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 489185768  87 KLRSVPQLHFHYDESIRRGAELSALIERAVAEDGRR 122
Cdd:PRK13818  83 TVYKVPELIFKRDNSVAYGSKIDRLIAEVKKQDQER 118
 
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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