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Conserved domains on  [gi|15229493|ref|NP_188884|]
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Ribosomal L18p/L5e family protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ribosomal_L18_L5e cd00432
Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of ...
 196-290 1.67e-09

Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.


:

Pssm-ID: 238246  Cd Length: 103  Bit Score: 54.47  E-value: 1.67e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15229493 196 YPFCLDIYISKESVRACVIHRVTSKVVTVAHSISKDMKFDLGSRRNVAACAAVGAVLAQRSLEDDIhDVIYTPRKGDKIE 275
Cdd:cd00432  10 ERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGI-KKVVFDRGGYRYH 88

                        90
                ....*....|....*
gi 15229493 276 GKLQVVLQALIDNGV 290
Cdd:cd00432  89 GRVKALAKGAREGGL 103
EssA super family cl11266
WXG100 protein secretion system (Wss), protein EssA; The WXG100 protein secretion system (Wss) ...
 107-186 1.44e-03

WXG100 protein secretion system (Wss), protein EssA; The WXG100 protein secretion system (Wss) is responsible for the secretion of WXG100 proteins (pfam06013) such as ESAT-6 and CFP-10 in Mycobacterium tuberculosis or EsxA and EsxB in Staphylococcus aureus. In S. aureus, the Wss seems to be encoded by a locus of eight CDS, called ess (eSAT-6 secretion system). This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with the polytopic membrane protein EsaA, YukC (pfam10140) and YukAB, which is a membrane-bound ATPase containing Ftsk/SpoIIIE domains (pfam01580) called EssC in S. aureus and Snm1/Snm2 in Mycobacterium tuberculosis. Proteins homologous to EssA, YukC, EsaA and YukD seem absent from mycobacteria.


The actual alignment was detected with superfamily member pfam10661:

Pssm-ID: 299614  Cd Length: 148  Bit Score: 38.33  E-value: 1.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15229493   107 GDLFFKLDRGSKEFEEYNYDFHRKNQ-HKNAKKEQNQEEETKIKKDNKKEvRDEYKKRNDSFTGETDHPNEAVKK-RERT 184
Cdd:pfam10661  13 GKMDFKVDRLIKDKQEKNEKQLRETElDKAFISLFTTETEEEINEKKKAE-KKEMEDIEDSLFSEDKEGNVAVKDtKDSL 91


                  ..
gi 15229493   185 FT 186
Cdd:pfam10661  92 FS 93
 
Name Accession Description Interval E-value
Ribosomal_L18_L5e cd00432
Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of ...
 196-290 1.67e-09

Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.


Pssm-ID: 238246  Cd Length: 103  Bit Score: 54.47  E-value: 1.67e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15229493 196 YPFCLDIYISKESVRACVIHRVTSKVVTVAHSISKDMKFDLGSRRNVAACAAVGAVLAQRSLEDDIhDVIYTPRKGDKIE 275
Cdd:cd00432  10 ERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGI-KKVVFDRGGYRYH 88

                        90
                ....*....|....*
gi 15229493 276 GKLQVVLQALIDNGV 290
Cdd:cd00432  89 GRVKALAKGAREGGL 103
EssA pfam10661
WXG100 protein secretion system (Wss), protein EssA; The WXG100 protein secretion system (Wss) ...
 107-186 1.44e-03

WXG100 protein secretion system (Wss), protein EssA; The WXG100 protein secretion system (Wss) is responsible for the secretion of WXG100 proteins (pfam06013) such as ESAT-6 and CFP-10 in Mycobacterium tuberculosis or EsxA and EsxB in Staphylococcus aureus. In S. aureus, the Wss seems to be encoded by a locus of eight CDS, called ess (eSAT-6 secretion system). This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with the polytopic membrane protein EsaA, YukC (pfam10140) and YukAB, which is a membrane-bound ATPase containing Ftsk/SpoIIIE domains (pfam01580) called EssC in S. aureus and Snm1/Snm2 in Mycobacterium tuberculosis. Proteins homologous to EssA, YukC, EsaA and YukD seem absent from mycobacteria.


Pssm-ID: 287614  Cd Length: 148  Bit Score: 38.33  E-value: 1.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15229493   107 GDLFFKLDRGSKEFEEYNYDFHRKNQ-HKNAKKEQNQEEETKIKKDNKKEvRDEYKKRNDSFTGETDHPNEAVKK-RERT 184
Cdd:pfam10661  13 GKMDFKVDRLIKDKQEKNEKQLRETElDKAFISLFTTETEEEINEKKKAE-KKEMEDIEDSLFSEDKEGNVAVKDtKDSL 91


                  ..
gi 15229493   185 FT 186
Cdd:pfam10661  92 FS 93
 
Name Accession Description Interval E-value
Ribosomal_L18_L5e cd00432
Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of ...
 196-290 1.67e-09

Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.


Pssm-ID: 238246  Cd Length: 103  Bit Score: 54.47  E-value: 1.67e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15229493 196 YPFCLDIYISKESVRACVIHRVTSKVVTVAHSISKDMKFDLGSRRNVAACAAVGAVLAQRSLEDDIhDVIYTPRKGDKIE 275
Cdd:cd00432  10 ERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGI-KKVVFDRGGYRYH 88

                        90
                ....*....|....*
gi 15229493 276 GKLQVVLQALIDNGV 290
Cdd:cd00432  89 GRVKALAKGAREGGL 103
EssA pfam10661
WXG100 protein secretion system (Wss), protein EssA; The WXG100 protein secretion system (Wss) ...
 107-186 1.44e-03

WXG100 protein secretion system (Wss), protein EssA; The WXG100 protein secretion system (Wss) is responsible for the secretion of WXG100 proteins (pfam06013) such as ESAT-6 and CFP-10 in Mycobacterium tuberculosis or EsxA and EsxB in Staphylococcus aureus. In S. aureus, the Wss seems to be encoded by a locus of eight CDS, called ess (eSAT-6 secretion system). This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with the polytopic membrane protein EsaA, YukC (pfam10140) and YukAB, which is a membrane-bound ATPase containing Ftsk/SpoIIIE domains (pfam01580) called EssC in S. aureus and Snm1/Snm2 in Mycobacterium tuberculosis. Proteins homologous to EssA, YukC, EsaA and YukD seem absent from mycobacteria.


Pssm-ID: 287614  Cd Length: 148  Bit Score: 38.33  E-value: 1.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15229493   107 GDLFFKLDRGSKEFEEYNYDFHRKNQ-HKNAKKEQNQEEETKIKKDNKKEvRDEYKKRNDSFTGETDHPNEAVKK-RERT 184
Cdd:pfam10661  13 GKMDFKVDRLIKDKQEKNEKQLRETElDKAFISLFTTETEEEINEKKKAE-KKEMEDIEDSLFSEDKEGNVAVKDtKDSL 91


                  ..
gi 15229493   185 FT 186
Cdd:pfam10661  92 FS 93
 
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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