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Conserved domains on  [gi|577231882|gb|EUE49052|]
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hypothetical protein O682_01533 [Staphylococcus aureus M0671]

Protein Classification

YlxR family RNase P modulator( domain architecture ID 10084533)

YlxR family RNase P modulator (RnpM) binds to the RNA component of ribonuclease P and fine-tunes its activity to maintain appropriate levels of mature tRNAs for translation

CATH:  3.30.1230.10
Gene Ontology:  GO:0003723
PubMed:  11679764
SCOP:  4003626

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YlxR cd00279
Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; ...
 7-87 1.30e-31

Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation


:

Pssm-ID: 238173  Cd Length: 79  Bit Score: 105.88  E-value: 1.30e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 577231882  7 PMRKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKASKEqlDPVYKEIIRL 86
Cdd:cd00279   1 PLRKCIVTGEMKPKKELIRFVAGPEGEVVPDPTGKLPGRGAYVCADRECIEKAKKKKLFNRAFKAKVS--DSVYDELIEY 78


                .
gi 577231882 87 I 87
Cdd:cd00279  79 V 79
 
Name Accession Description Interval E-value
YlxR cd00279
Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; ...
 7-87 1.30e-31

Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation


Pssm-ID: 238173  Cd Length: 79  Bit Score: 105.88  E-value: 1.30e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 577231882  7 PMRKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKASKEqlDPVYKEIIRL 86
Cdd:cd00279   1 PLRKCIVTGEMKPKKELIRFVAGPEGEVVPDPTGKLPGRGAYVCADRECIEKAKKKKLFNRAFKAKVS--DSVYDELIEY 78


                .
gi 577231882 87 I 87
Cdd:cd00279  79 V 79
YlxR COG2740
Nucleoid-associated protein YlxR, Predicted RNA-binding, DUF448 family [General function ...
 1-94 2.88e-31

Nucleoid-associated protein YlxR, Predicted RNA-binding, DUF448 family [General function prediction only];


Pssm-ID: 442042  Cd Length: 93  Bit Score: 105.36  E-value: 2.88e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 577231882  1 MKKKKIPMRKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKASkeqLDP-V 79
Cdd:COG2740   2 MKAKKIPLRTCIGCRERKPKKELIRIVRSPDGEVVPDPTGKLPGRGAYLCPDRECLEKAVKKRAFARALKAK---VPEdL 78

                        90
                ....*....|....*
gi 577231882 80 YKEIIRLIYREEIPK 94
Cdd:COG2740  79 YDELEELLERRALRR 93
YlxR pfam04296
Protein of unknown function (DUF448); The YlxR family has been demonstrated to regulate ...
 9-85 3.75e-27

Protein of unknown function (DUF448); The YlxR family has been demonstrated to regulate metabolic gene expression.


Pssm-ID: 427847  Cd Length: 75  Bit Score: 94.05  E-value: 3.75e-27
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 577231882   9 RKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKAskEQLDPVYKEIIR 85
Cdd:pfam04296  1 RKCIGCREMKPKKELIRIVRTPDGEVVLDPTGKLPGRGAYICPDRECLEKAKKKKALERALKT--KVPDEVYEELEA 75
PRK09190 PRK09190
RNA-binding protein;
2-71 2.30e-14

RNA-binding protein;


Pssm-ID: 236401 [Multi-domain]  Cd Length: 220  Bit Score: 64.98  E-value: 2.30e-14
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 577231882   2 KKKKIPMRKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKA 71
Cdd:PRK09190  10 RDRRGNERRCIVTREVGPPDELIRFVVGPDGQVVPDLKRKLPGRGCWVSADRAAVEKAVAKKLFARAAKA 79
 
Name Accession Description Interval E-value
YlxR cd00279
Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; ...
 7-87 1.30e-31

Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation


Pssm-ID: 238173  Cd Length: 79  Bit Score: 105.88  E-value: 1.30e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 577231882  7 PMRKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKASKEqlDPVYKEIIRL 86
Cdd:cd00279   1 PLRKCIVTGEMKPKKELIRFVAGPEGEVVPDPTGKLPGRGAYVCADRECIEKAKKKKLFNRAFKAKVS--DSVYDELIEY 78


                .
gi 577231882 87 I 87
Cdd:cd00279  79 V 79
YlxR COG2740
Nucleoid-associated protein YlxR, Predicted RNA-binding, DUF448 family [General function ...
 1-94 2.88e-31

Nucleoid-associated protein YlxR, Predicted RNA-binding, DUF448 family [General function prediction only];


Pssm-ID: 442042  Cd Length: 93  Bit Score: 105.36  E-value: 2.88e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 577231882  1 MKKKKIPMRKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKASkeqLDP-V 79
Cdd:COG2740   2 MKAKKIPLRTCIGCRERKPKKELIRIVRSPDGEVVPDPTGKLPGRGAYLCPDRECLEKAVKKRAFARALKAK---VPEdL 78

                        90
                ....*....|....*
gi 577231882 80 YKEIIRLIYREEIPK 94
Cdd:COG2740  79 YDELEELLERRALRR 93
YlxR pfam04296
Protein of unknown function (DUF448); The YlxR family has been demonstrated to regulate ...
 9-85 3.75e-27

Protein of unknown function (DUF448); The YlxR family has been demonstrated to regulate metabolic gene expression.


Pssm-ID: 427847  Cd Length: 75  Bit Score: 94.05  E-value: 3.75e-27
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 577231882   9 RKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKAskEQLDPVYKEIIR 85
Cdd:pfam04296  1 RKCIGCREMKPKKELIRIVRTPDGEVVLDPTGKLPGRGAYICPDRECLEKAKKKKALERALKT--KVPDEVYEELEA 75
PRK09190 PRK09190
RNA-binding protein;
2-71 2.30e-14

RNA-binding protein;


Pssm-ID: 236401 [Multi-domain]  Cd Length: 220  Bit Score: 64.98  E-value: 2.30e-14
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 577231882   2 KKKKIPMRKCILSNEMHPKKDMIRVVVNKEGEIFADVTGKKQGRGAYVSKDVAMVEKAQQKEILEKYFKA 71
Cdd:PRK09190  10 RDRRGNERRCIVTREVGPPDELIRFVVGPDGQVVPDLKRKLPGRGCWVSADRAAVEKAVAKKLFARAAKA 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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