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Conserved domains on  [gi|1890653569|ref|WP_183180655|]
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rod shape-determining protein MreD [Azospirillum sp. OGB3]

Protein Classification

rod shape-determining protein MreD( domain architecture ID 10006770)

rod shape-determining protein MreD is involved in formation of the rod shape of the cell; may also contribute to regulation of formation of penicillin-binding proteins

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
MreD COG2891
Cell shape-determining protein MreD [Cell wall/membrane/envelope biogenesis];
14-167 2.33e-11

Cell shape-determining protein MreD [Cell wall/membrane/envelope biogenesis];


:

Pssm-ID: 442136  Cd Length: 165  Bit Score: 58.71  E-value: 2.33e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1890653569  14 RNLAPFAVTVMLALVGMIpVPLPG-YASVAPFLTAIAVYYWAIHRPDLMGPGTAFLIGLLQDLLTGGPLGVNALVLVLVH 92
Cdd:COG2891     7 LNPWLIWLSLLLALLLEI-LPLPGeLLPFRPDWLLLVLVYWSLALPRRVGVGTAFVLGLLLDVLYGSLLGQHALALSLVA 85
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1890653569  93 WAVSSQRRVLVSSTFALMWFGFGLVMMGVACVQWLAFSALQATVLPFRpALFQALLTMAFFPAVAWMLIRVHRAF 167
Cdd:COG2891    86 YLALRLHQRLRNFPLWQQALIVLLLLLLAELLVFWIRLLLGGTLPGWS-YFLSALLSALLWPWLYLLLRKLRRRF 159
 
Name Accession Description Interval E-value
MreD COG2891
Cell shape-determining protein MreD [Cell wall/membrane/envelope biogenesis];
14-167 2.33e-11

Cell shape-determining protein MreD [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442136  Cd Length: 165  Bit Score: 58.71  E-value: 2.33e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1890653569  14 RNLAPFAVTVMLALVGMIpVPLPG-YASVAPFLTAIAVYYWAIHRPDLMGPGTAFLIGLLQDLLTGGPLGVNALVLVLVH 92
Cdd:COG2891     7 LNPWLIWLSLLLALLLEI-LPLPGeLLPFRPDWLLLVLVYWSLALPRRVGVGTAFVLGLLLDVLYGSLLGQHALALSLVA 85
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1890653569  93 WAVSSQRRVLVSSTFALMWFGFGLVMMGVACVQWLAFSALQATVLPFRpALFQALLTMAFFPAVAWMLIRVHRAF 167
Cdd:COG2891    86 YLALRLHQRLRNFPLWQQALIVLLLLLLAELLVFWIRLLLGGTLPGWS-YFLSALLSALLWPWLYLLLRKLRRRF 159
shape_MreD TIGR03426
rod shape-determining protein MreD; Members of this protein family are the MreD protein of ...
16-160 3.75e-11

rod shape-determining protein MreD; Members of this protein family are the MreD protein of bacterial cell shape determination. Most rod-shaped bacteria depend on MreB and RodA to achieve either a rod shape or some other non-spherical morphology such as coil or stalk formation. MreD is encoded in an operon with MreB, and often with RodA and PBP-2 as well. It is highly hydrophobic (therefore somewhat low-complexity) and highly divergent, and therefore sometimes tricky to discover by homology, but this model finds most examples. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan]


Pssm-ID: 274574  Cd Length: 152  Bit Score: 58.00  E-value: 3.75e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1890653569  16 LAPFAVTVMLALVGMIPVPLPGYASVAPFLTAIAVYYWAIHRPDLMGPGTAFLIGLLQDLLTGGPLGVNALVLVLVHWAV 95
Cdd:TIGR03426   4 ILILLSLLLALLLQLIPLPGFFLDGFRPDWVLLVLLYWAIALPHRVGIGTAFVLGLLQDVLSGSPLGVHALALTLVAYLA 83
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1890653569  96 SS-QRRVLVSSTFALMWFGFGLVMMGVACVQWLAFSALQATVLP---FRPALFQALLTMAFFPAVAWML 160
Cdd:TIGR03426  84 ASlFQRFRQFDLWQQALIIFLLLILGELLVFLILTLLGNAFFSLeyfWLFRLLPTLLLNLLWPWVFFLL 152
MreD pfam04093
rod shape-determining protein MreD; MreD (murein formation D) is involved in the rod shape ...
19-163 1.59e-06

rod shape-determining protein MreD; MreD (murein formation D) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped.


Pssm-ID: 282013  Cd Length: 160  Bit Score: 45.72  E-value: 1.59e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1890653569  19 FAVTVMLALVGMIPVPLPGYASVAPFLTAIAVYYWAIHRPDLMGPGTAFLIGLLQDLLTGGPLGVNALVLVLVHWAVSSQ 98
Cdd:pfam04093  10 PISFFLLALVLGLIPMPFGTQVLRPHFLLLVLLYWVIALPGRVGIITAFVLGLLYDVYYGSLLGVYALGFSLIGYLVAKN 89
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1890653569  99 RRVL-VSSTFALMWFGFGLVMMGVACVQWLAFSALQATVLPFRPALFQALLTMAFFPAVAWMLIRV 163
Cdd:pfam04093  90 FKVLrNNRRFLPAWQQVLLLELFVFVIAGLIGLTEFNLIGFVVYRLLPTLLLNFLLAILLWPWVFK 155
 
Name Accession Description Interval E-value
MreD COG2891
Cell shape-determining protein MreD [Cell wall/membrane/envelope biogenesis];
14-167 2.33e-11

Cell shape-determining protein MreD [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442136  Cd Length: 165  Bit Score: 58.71  E-value: 2.33e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1890653569  14 RNLAPFAVTVMLALVGMIpVPLPG-YASVAPFLTAIAVYYWAIHRPDLMGPGTAFLIGLLQDLLTGGPLGVNALVLVLVH 92
Cdd:COG2891     7 LNPWLIWLSLLLALLLEI-LPLPGeLLPFRPDWLLLVLVYWSLALPRRVGVGTAFVLGLLLDVLYGSLLGQHALALSLVA 85
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1890653569  93 WAVSSQRRVLVSSTFALMWFGFGLVMMGVACVQWLAFSALQATVLPFRpALFQALLTMAFFPAVAWMLIRVHRAF 167
Cdd:COG2891    86 YLALRLHQRLRNFPLWQQALIVLLLLLLAELLVFWIRLLLGGTLPGWS-YFLSALLSALLWPWLYLLLRKLRRRF 159
shape_MreD TIGR03426
rod shape-determining protein MreD; Members of this protein family are the MreD protein of ...
16-160 3.75e-11

rod shape-determining protein MreD; Members of this protein family are the MreD protein of bacterial cell shape determination. Most rod-shaped bacteria depend on MreB and RodA to achieve either a rod shape or some other non-spherical morphology such as coil or stalk formation. MreD is encoded in an operon with MreB, and often with RodA and PBP-2 as well. It is highly hydrophobic (therefore somewhat low-complexity) and highly divergent, and therefore sometimes tricky to discover by homology, but this model finds most examples. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan]


Pssm-ID: 274574  Cd Length: 152  Bit Score: 58.00  E-value: 3.75e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1890653569  16 LAPFAVTVMLALVGMIPVPLPGYASVAPFLTAIAVYYWAIHRPDLMGPGTAFLIGLLQDLLTGGPLGVNALVLVLVHWAV 95
Cdd:TIGR03426   4 ILILLSLLLALLLQLIPLPGFFLDGFRPDWVLLVLLYWAIALPHRVGIGTAFVLGLLQDVLSGSPLGVHALALTLVAYLA 83
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1890653569  96 SS-QRRVLVSSTFALMWFGFGLVMMGVACVQWLAFSALQATVLP---FRPALFQALLTMAFFPAVAWML 160
Cdd:TIGR03426  84 ASlFQRFRQFDLWQQALIIFLLLILGELLVFLILTLLGNAFFSLeyfWLFRLLPTLLLNLLWPWVFFLL 152
MreD pfam04093
rod shape-determining protein MreD; MreD (murein formation D) is involved in the rod shape ...
19-163 1.59e-06

rod shape-determining protein MreD; MreD (murein formation D) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped.


Pssm-ID: 282013  Cd Length: 160  Bit Score: 45.72  E-value: 1.59e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1890653569  19 FAVTVMLALVGMIPVPLPGYASVAPFLTAIAVYYWAIHRPDLMGPGTAFLIGLLQDLLTGGPLGVNALVLVLVHWAVSSQ 98
Cdd:pfam04093  10 PISFFLLALVLGLIPMPFGTQVLRPHFLLLVLLYWVIALPGRVGIITAFVLGLLYDVYYGSLLGVYALGFSLIGYLVAKN 89
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1890653569  99 RRVL-VSSTFALMWFGFGLVMMGVACVQWLAFSALQATVLPFRPALFQALLTMAFFPAVAWMLIRV 163
Cdd:pfam04093  90 FKVLrNNRRFLPAWQQVLLLELFVFVIAGLIGLTEFNLIGFVVYRLLPTLLLNFLLAILLWPWVFK 155
 
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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