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Conserved domains on  [gi|1857278138|emb|CAC6028483|]
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RNA-binding domain protein YlmH [Staphylococcus aureus]

Protein Classification

RNA-binding protein( domain architecture ID 11455226)

RNA-binding protein contains an S4-like domain

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
YlmH COG2302
RNA-binding protein YlmH, contains S4-like domain [General function prediction only];
14-214 2.90e-95

RNA-binding protein YlmH, contains S4-like domain [General function prediction only];


:

Pssm-ID: 441877  Cd Length: 260  Bit Score: 278.58  E-value: 2.90e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  14 DIYQHFRQEEYELIDQLTDKCDQAEQHYAPVLTHFLDPRGQYILEVICGSYEDLNVSFYGG-PNAERKRAIISPNYYEPK 92
Cdd:COG2302     5 KILQHFRKEEREFIDRVLDWAEQVEKTYEPKLTDFLDPREQKIAESLLGRLTDLKVRFFGGyEGAERKRLLIAPDYYEPE 84
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  93 ESDFELTLMEIEYPEKFVTLKHQHILGTLMSLGIEREQVGDIIVNER-IQFVLTSRLESFIMLELQRIKGASVKLYTIPV 171
Cdd:COG2302    85 EEDFPIALLEIKYNFKFVTLSHRDVLGALLGLGIKREKIGDILVGEDgAQVIVAKEIADFLLLNLTKIGRVPVKVEEIDL 164
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1857278138 172 TDMIQSNENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEK 214
Cdd:COG2302   165 EELIIPEEKWKEITTTVSSLRLDAVASAGFGLSRSKAAELIES 207
 
Name Accession Description Interval E-value
YlmH COG2302
RNA-binding protein YlmH, contains S4-like domain [General function prediction only];
14-214 2.90e-95

RNA-binding protein YlmH, contains S4-like domain [General function prediction only];


Pssm-ID: 441877  Cd Length: 260  Bit Score: 278.58  E-value: 2.90e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  14 DIYQHFRQEEYELIDQLTDKCDQAEQHYAPVLTHFLDPRGQYILEVICGSYEDLNVSFYGG-PNAERKRAIISPNYYEPK 92
Cdd:COG2302     5 KILQHFRKEEREFIDRVLDWAEQVEKTYEPKLTDFLDPREQKIAESLLGRLTDLKVRFFGGyEGAERKRLLIAPDYYEPE 84
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  93 ESDFELTLMEIEYPEKFVTLKHQHILGTLMSLGIEREQVGDIIVNER-IQFVLTSRLESFIMLELQRIKGASVKLYTIPV 171
Cdd:COG2302    85 EEDFPIALLEIKYNFKFVTLSHRDVLGALLGLGIKREKIGDILVGEDgAQVIVAKEIADFLLLNLTKIGRVPVKVEEIDL 164
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1857278138 172 TDMIQSNENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEK 214
Cdd:COG2302   165 EELIIPEEKWKEITTTVSSLRLDAVASAGFGLSRSKAAELIES 207
YlmH_RBD pfam17774
Putative RNA-binding domain in YlmH; This domain adopts an RRM like fold and is found in the B. ...
91-173 9.17e-40

Putative RNA-binding domain in YlmH; This domain adopts an RRM like fold and is found in the B. subtilis YlmH cell division protein.


Pssm-ID: 436033  Cd Length: 84  Bit Score: 131.44  E-value: 9.17e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  91 PKESDFELTLMEIEYPEKFVTLKHQHILGTLMSLGIEREQVGDIIVN-ERIQFVLTSRLESFIMLELQRIKGASVKLYTI 169
Cdd:pfam17774   1 PEEEDFEIALFEIKYPSKFATLSHRQILGTLMSLGIKREKFGDILVDgERWQFFVAKEMADYVQLQLTKIGKIKVRLEEI 80

                  ....
gi 1857278138 170 PVTD 173
Cdd:pfam17774  81 PLTE 84
PLN00051 PLN00051
RNA-binding S4 domain-containing protein; Provisional
21-213 1.34e-09

RNA-binding S4 domain-containing protein; Provisional


Pssm-ID: 177682 [Multi-domain]  Cd Length: 267  Bit Score: 56.31  E-value: 1.34e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  21 QEEYELIDQLTDKCDQAEQHYAPVLTHFLDPRGQYILEVICGSYEDLNVSFYGG-PNAERKRAIISpnYYEPKESDFE-L 98
Cdd:PLN00051   20 PAHREEVKRILEMAERASDRWEVEHTDFLTPPIVKDSMAALEKLADVKAVAWGGyAQAERCRLSIG--RPEVLTSQPDiV 97
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  99 TLMEIEYPEKFVTLKHQHILGTLMSLGIEREQVGDIIVN-ER-IQFVLTSRLESFIMLELQRIKGASVKLYTIPVTDmIQ 176
Cdd:PLN00051   98 AALSVSGNFMFDPASHGDFLGAILGTGITRDKVGDILVQgERgAQVLVVPELVEFLSSSLTKVRTVPVECRAIPLSA-LE 176
                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1857278138 177 SNENWKNESATV-SSLRLDVVIKEMIRKSRTIAKQLIE 213
Cdd:PLN00051  177 VEPPRVESFKSVeASLRLDALASAGFRMSRSKLVDLIS 214
 
Name Accession Description Interval E-value
YlmH COG2302
RNA-binding protein YlmH, contains S4-like domain [General function prediction only];
14-214 2.90e-95

RNA-binding protein YlmH, contains S4-like domain [General function prediction only];


Pssm-ID: 441877  Cd Length: 260  Bit Score: 278.58  E-value: 2.90e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  14 DIYQHFRQEEYELIDQLTDKCDQAEQHYAPVLTHFLDPRGQYILEVICGSYEDLNVSFYGG-PNAERKRAIISPNYYEPK 92
Cdd:COG2302     5 KILQHFRKEEREFIDRVLDWAEQVEKTYEPKLTDFLDPREQKIAESLLGRLTDLKVRFFGGyEGAERKRLLIAPDYYEPE 84
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  93 ESDFELTLMEIEYPEKFVTLKHQHILGTLMSLGIEREQVGDIIVNER-IQFVLTSRLESFIMLELQRIKGASVKLYTIPV 171
Cdd:COG2302    85 EEDFPIALLEIKYNFKFVTLSHRDVLGALLGLGIKREKIGDILVGEDgAQVIVAKEIADFLLLNLTKIGRVPVKVEEIDL 164
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 1857278138 172 TDMIQSNENWKNESATVSSLRLDVVIKEMIRKSRTIAKQLIEK 214
Cdd:COG2302   165 EELIIPEEKWKEITTTVSSLRLDAVASAGFGLSRSKAAELIES 207
YlmH_RBD pfam17774
Putative RNA-binding domain in YlmH; This domain adopts an RRM like fold and is found in the B. ...
91-173 9.17e-40

Putative RNA-binding domain in YlmH; This domain adopts an RRM like fold and is found in the B. subtilis YlmH cell division protein.


Pssm-ID: 436033  Cd Length: 84  Bit Score: 131.44  E-value: 9.17e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  91 PKESDFELTLMEIEYPEKFVTLKHQHILGTLMSLGIEREQVGDIIVN-ERIQFVLTSRLESFIMLELQRIKGASVKLYTI 169
Cdd:pfam17774   1 PEEEDFEIALFEIKYPSKFATLSHRQILGTLMSLGIKREKFGDILVDgERWQFFVAKEMADYVQLQLTKIGKIKVRLEEI 80

                  ....
gi 1857278138 170 PVTD 173
Cdd:pfam17774  81 PLTE 84
PLN00051 PLN00051
RNA-binding S4 domain-containing protein; Provisional
21-213 1.34e-09

RNA-binding S4 domain-containing protein; Provisional


Pssm-ID: 177682 [Multi-domain]  Cd Length: 267  Bit Score: 56.31  E-value: 1.34e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  21 QEEYELIDQLTDKCDQAEQHYAPVLTHFLDPRGQYILEVICGSYEDLNVSFYGG-PNAERKRAIISpnYYEPKESDFE-L 98
Cdd:PLN00051   20 PAHREEVKRILEMAERASDRWEVEHTDFLTPPIVKDSMAALEKLADVKAVAWGGyAQAERCRLSIG--RPEVLTSQPDiV 97
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1857278138  99 TLMEIEYPEKFVTLKHQHILGTLMSLGIEREQVGDIIVN-ER-IQFVLTSRLESFIMLELQRIKGASVKLYTIPVTDmIQ 176
Cdd:PLN00051   98 AALSVSGNFMFDPASHGDFLGAILGTGITRDKVGDILVQgERgAQVLVVPELVEFLSSSLTKVRTVPVECRAIPLSA-LE 176
                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1857278138 177 SNENWKNESATV-SSLRLDVVIKEMIRKSRTIAKQLIE 213
Cdd:PLN00051  177 VEPPRVESFKSVeASLRLDALASAGFRMSRSKLVDLIS 214
 
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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