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Conserved domains on  [gi|1215561046|ref|WP_089073353|]
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RodZ domain-containing protein [Paraphotobacterium marinum]

Protein Classification

RodZ family helix-turn-helix domain-containing protein( domain architecture ID 1004255)

RodZ family helix-turn-helix domain-containing protein similar to Thermotoga maritima cell shape protein RodZ, a bitopic membrane protein that colocalises to MreB and is essential for cell shape determination

CATH:  1.10.260.40
Gene Ontology:  GO:0003677|GO:0005886|GO:0008360
PubMed:  19164570

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK10856 super family cl35960
cytoskeleton protein RodZ;
201-274 2.21e-14

cytoskeleton protein RodZ;


The actual alignment was detected with superfamily member PRK10856:

Pssm-ID: 236776 [Multi-domain]  Cd Length: 331  Bit Score: 71.98  E-value: 2.21e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1215561046 201 FSGNCWVEIYDKNLKKLFFGLQKQKQTLIVSGSQPLKFIFGAPGNVkKMFFKGKKVDLNKF-NPNKVAKFSLPNE 274
Cdd:PRK10856  258 FTADCWLEVTDATGKKLFSGMQRKGGNLNLTGQAPYKLKIGAPAAV-QIQYQGKPVDLSRFiRTNQVARLTLNAE 331
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 14-68 1.71e-09

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


:

Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 53.27  E-value: 1.71e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1215561046  14 KILRESKGISQLEIAHKLRINLSVIKTIDDKAFDKSNLDVYLIGYMKAYAGILNI 68
Cdd:COG1426    11 RQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVYVRGFLRSYARALGL 65
 
Name Accession Description Interval E-value
PRK10856 PRK10856
cytoskeleton protein RodZ;
201-274 2.21e-14

cytoskeleton protein RodZ;


Pssm-ID: 236776 [Multi-domain]  Cd Length: 331  Bit Score: 71.98  E-value: 2.21e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1215561046 201 FSGNCWVEIYDKNLKKLFFGLQKQKQTLIVSGSQPLKFIFGAPGNVkKMFFKGKKVDLNKF-NPNKVAKFSLPNE 274
Cdd:PRK10856  258 FTADCWLEVTDATGKKLFSGMQRKGGNLNLTGQAPYKLKIGAPAAV-QIQYQGKPVDLSRFiRTNQVARLTLNAE 331
DUF4115 pfam13464
Domain of unknown function (DUF4115); This short domain is often found at the C-terminus of ...
 198-265 3.43e-12

Domain of unknown function (DUF4115); This short domain is often found at the C-terminus of proteins containing a helix-turn-helix domain. The function of this domain is unknown.


Pssm-ID: 433229 [Multi-domain]  Cd Length: 67  Bit Score: 60.28  E-value: 3.43e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1215561046 198 EILFSGNCWVEIYDKNLKKLFFGLQKQKQTLIVSGSQPLKFIFGAPGNVkKMFFKGKKVDLNKFNPNK 265
Cdd:pfam13464   1 VLTFTGDSWVEVRDADGKVLFEGLLKAGETRTVTGKPPLTLVLGNAGAV-EVSVNGKPVDLLGYARGN 67
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 14-68 1.71e-09

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 53.27  E-value: 1.71e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1215561046  14 KILRESKGISQLEIAHKLRINLSVIKTIDDKAFDKSNLDVYLIGYMKAYAGILNI 68
Cdd:COG1426    11 RQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVYVRGFLRSYARALGL 65
HTH_25 pfam13413
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 17-68 1.32e-07

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433187 [Multi-domain]  Cd Length: 62  Bit Score: 47.49  E-value: 1.32e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1215561046  17 RESKGISQLEIAHKLRINLSVIKTIDDKAFDKSNLDVYLIGYMKAYAGILNI 68
Cdd:pfam13413   6 REARGLSLEDVAERTKIRPRYLEALEEDDFDALPEPVYARGFLRSYARALGL 57
 
Name Accession Description Interval E-value
PRK10856 PRK10856
cytoskeleton protein RodZ;
201-274 2.21e-14

cytoskeleton protein RodZ;


Pssm-ID: 236776 [Multi-domain]  Cd Length: 331  Bit Score: 71.98  E-value: 2.21e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1215561046 201 FSGNCWVEIYDKNLKKLFFGLQKQKQTLIVSGSQPLKFIFGAPGNVkKMFFKGKKVDLNKF-NPNKVAKFSLPNE 274
Cdd:PRK10856  258 FTADCWLEVTDATGKKLFSGMQRKGGNLNLTGQAPYKLKIGAPAAV-QIQYQGKPVDLSRFiRTNQVARLTLNAE 331
DUF4115 pfam13464
Domain of unknown function (DUF4115); This short domain is often found at the C-terminus of ...
 198-265 3.43e-12

Domain of unknown function (DUF4115); This short domain is often found at the C-terminus of proteins containing a helix-turn-helix domain. The function of this domain is unknown.


Pssm-ID: 433229 [Multi-domain]  Cd Length: 67  Bit Score: 60.28  E-value: 3.43e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1215561046 198 EILFSGNCWVEIYDKNLKKLFFGLQKQKQTLIVSGSQPLKFIFGAPGNVkKMFFKGKKVDLNKFNPNK 265
Cdd:pfam13464   1 VLTFTGDSWVEVRDADGKVLFEGLLKAGETRTVTGKPPLTLVLGNAGAV-EVSVNGKPVDLLGYARGN 67
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 14-68 1.71e-09

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 53.27  E-value: 1.71e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1215561046  14 KILRESKGISQLEIAHKLRINLSVIKTIDDKAFDKSNLDVYLIGYMKAYAGILNI 68
Cdd:COG1426    11 RQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVYVRGFLRSYARALGL 65
HTH_25 pfam13413
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 17-68 1.32e-07

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433187 [Multi-domain]  Cd Length: 62  Bit Score: 47.49  E-value: 1.32e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1215561046  17 RESKGISQLEIAHKLRINLSVIKTIDDKAFDKSNLDVYLIGYMKAYAGILNI 68
Cdd:pfam13413   6 REARGLSLEDVAERTKIRPRYLEALEEDDFDALPEPVYARGFLRSYARALGL 57
 
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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