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Conserved domains on  [gi|505230067|ref|WP_015417169|]
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MULTISPECIES: MepB family protein [Bacillus]

Protein Classification

MepB family protein( domain architecture ID 10008854)

MepB family protein similar to Staphylococcus aureus mep operon protein MepB that binds DNA and RNA, with a higher affinity towards RNA and single stranded DNA than towards double stranded DNA, and may play a role in responding to antimicrobials

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG4815 COG4815
Uncharacterized conserved protein [Function unknown];
10-154 1.47e-76

Uncharacterized conserved protein [Function unknown];


:

Pssm-ID: 443843  Cd Length: 148  Bit Score: 224.77  E-value: 1.47e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505230067  10 HVNKIFYEPNHLTIHDIQEEAQNSEYGAGRFQLHSKSVRFRVAKITPNKIGQFVAFWEKDGDGKNQAFSYEKAADLLVIN 89
Cdd:COG4815    2 LIQKLIYDPCGLTVSDIQLEKESAEYEACTFKLNGKTIRFRLAKITPKKVGQFVTFWKRDENGPIEPFDESDAFDFLIIN 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 505230067  90 TFASNhHFGQFVFPKEVLVKQNILKTAATKGKMAIRVYPEWENPTSKQAIETQKWQLAYFVEAND 154
Cdd:COG4815   82 VRDGN-RFGQFIFPKEILIEKGILSTEGKEGKRAFRVYPPWDTPLNKQAKKTQKWQLPYFLELSK 145
 
Name Accession Description Interval E-value
COG4815 COG4815
Uncharacterized conserved protein [Function unknown];
10-154 1.47e-76

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 443843  Cd Length: 148  Bit Score: 224.77  E-value: 1.47e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505230067  10 HVNKIFYEPNHLTIHDIQEEAQNSEYGAGRFQLHSKSVRFRVAKITPNKIGQFVAFWEKDGDGKNQAFSYEKAADLLVIN 89
Cdd:COG4815    2 LIQKLIYDPCGLTVSDIQLEKESAEYEACTFKLNGKTIRFRLAKITPKKVGQFVTFWKRDENGPIEPFDESDAFDFLIIN 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 505230067  90 TFASNhHFGQFVFPKEVLVKQNILKTAATKGKMAIRVYPEWENPTSKQAIETQKWQLAYFVEAND 154
Cdd:COG4815   82 VRDGN-RFGQFIFPKEILIEKGILSTEGKEGKRAFRVYPPWDTPLNKQAKKTQKWQLPYFLELSK 145
MepB-like pfam08877
MepB-like; In Staphylococcus aureus MepB is encoded by the MepRAB operon. This operon has been ...
 29-151 2.21e-68

MepB-like; In Staphylococcus aureus MepB is encoded by the MepRAB operon. This operon has been shown to play a role in drug resistance and, although the functions of MepR and MapA are known, there is still little information regarding MepB's function. Structural studies have shown that this protein is structural similar to the PD-(D/E)XK family of endonucleases, although PD-(D/E)XK's catalytic active site residues are not conserved in MepB. MepB binds DNA and RNA, with a higher affinity for RNA and single stranded DNA than for double stranded DNA. The association of MepB with this drug resistance operon suggests that this protein is involved in antimicrobial response, role which is believed to be carried out through its interactions with nucleic acids.


Pssm-ID: 430280  Cd Length: 122  Bit Score: 203.19  E-value: 2.21e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505230067   29 EAQNSEYGAGRFQLHSKSVRFRVAKITPNKIGQFVAFWEKDGDGKNQAFSYEKAADLLVINTFASNhHFGQFVFPKEVLV 108
Cdd:pfam08877   1 EKENSDYEACTFKLNGKTIRFRVAKITPTKIGQFVTFWKRNEEGITEPFDESDAFDFLVIFVRDGE-QFGQFVFPKEVLI 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 505230067  109 KQNILKTAATKGKMAIRVYPEWENPTSKQAIETQKWQLAYFVE 151
Cdd:pfam08877  80 EKGILSTNKKEGKRGFRVYPSWDTPLNKQAKKTQKWQLPYFLE 122
 
Name Accession Description Interval E-value
COG4815 COG4815
Uncharacterized conserved protein [Function unknown];
10-154 1.47e-76

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 443843  Cd Length: 148  Bit Score: 224.77  E-value: 1.47e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505230067  10 HVNKIFYEPNHLTIHDIQEEAQNSEYGAGRFQLHSKSVRFRVAKITPNKIGQFVAFWEKDGDGKNQAFSYEKAADLLVIN 89
Cdd:COG4815    2 LIQKLIYDPCGLTVSDIQLEKESAEYEACTFKLNGKTIRFRLAKITPKKVGQFVTFWKRDENGPIEPFDESDAFDFLIIN 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 505230067  90 TFASNhHFGQFVFPKEVLVKQNILKTAATKGKMAIRVYPEWENPTSKQAIETQKWQLAYFVEAND 154
Cdd:COG4815   82 VRDGN-RFGQFIFPKEILIEKGILSTEGKEGKRAFRVYPPWDTPLNKQAKKTQKWQLPYFLELSK 145
MepB-like pfam08877
MepB-like; In Staphylococcus aureus MepB is encoded by the MepRAB operon. This operon has been ...
 29-151 2.21e-68

MepB-like; In Staphylococcus aureus MepB is encoded by the MepRAB operon. This operon has been shown to play a role in drug resistance and, although the functions of MepR and MapA are known, there is still little information regarding MepB's function. Structural studies have shown that this protein is structural similar to the PD-(D/E)XK family of endonucleases, although PD-(D/E)XK's catalytic active site residues are not conserved in MepB. MepB binds DNA and RNA, with a higher affinity for RNA and single stranded DNA than for double stranded DNA. The association of MepB with this drug resistance operon suggests that this protein is involved in antimicrobial response, role which is believed to be carried out through its interactions with nucleic acids.


Pssm-ID: 430280  Cd Length: 122  Bit Score: 203.19  E-value: 2.21e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 505230067   29 EAQNSEYGAGRFQLHSKSVRFRVAKITPNKIGQFVAFWEKDGDGKNQAFSYEKAADLLVINTFASNhHFGQFVFPKEVLV 108
Cdd:pfam08877   1 EKENSDYEACTFKLNGKTIRFRVAKITPTKIGQFVTFWKRNEEGITEPFDESDAFDFLVIFVRDGE-QFGQFVFPKEVLI 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 505230067  109 KQNILKTAATKGKMAIRVYPEWENPTSKQAIETQKWQLAYFVE 151
Cdd:pfam08877  80 EKGILSTNKKEGKRGFRVYPSWDTPLNKQAKKTQKWQLPYFLE 122
 
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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