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Conserved domains on  [gi|1012714920|ref|WP_062817387|]
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MULTISPECIES: RodZ domain-containing protein [unclassified Alcanivorax]

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
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 9-74 2.41e-25

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: 96.03  E-value: 2.41e-25
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1012714920   9 PGERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATFVKGYLKNYAKLLGLPADEIA 74
Cdd:COG1426     6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVYVRGFLRSYARALGLDPEELL 71
PRK10856 super family cl35960
cytoskeleton protein RodZ;
4-290 1.18e-19

cytoskeleton protein RodZ;


The actual alignment was detected with superfamily member PRK10856:

Pssm-ID: 236776 [Multi-domain]  Cd Length: 331  Bit Score: 87.39  E-value: 1.18e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920   4 NMVVLPGERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATFVKGYLKNYAKLLGLPADEIANTFQQMVnd 83
Cdd:PRK10856   10 NEALTTGERLRQAREQLGLTQQAVAERLCLKVSTVRDIEEDKAPADLASTFLRGYIRSYARLVHIPEEELLPGLEKQA-- 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920  84 dafdkPLDLPKMAPPPSV-----------WRKPLLAVVALLVVVALLIWLW----------------------PEEEALA 130
Cdd:PRK10856   88 -----PLRAAKVAPMQSFslgkrrkkrdgWLMTFTWLVLFVVIGLTGAWWWqnhkaqqeeittmadqssaelsQNSGQSV 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920 131 PLSNSGMNTP---EERASVPADEEVGGETGPFSSEQEPAPEQGAGDPLAPQSLD-DTANDDQPEETGAAVDGEGVESADS 206
Cdd:PRK10856  163 PLDTSTTTDPattPAPAAPVDTTPTNSQTPAVATAPAPAVDPQQNAVVAPSQANvDTAATPAPAAPATPDGAAPLPTDQA 242

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920 207 ADRVESSDEPApsmlaengldrLLMAFSGNCWISVKDATGRTLRQGEQQGGTSLQLDGKGPFSLTLGDAGAVDeLILNGE 286
Cdd:PRK10856  243 GVSTPAADPNA-----------LVMNFTADCWLEVTDATGKKLFSGMQRKGGNLNLTGQAPYKLKIGAPAAVQ-IQYQGK 310


                  ....
gi 1012714920 287 VVTL 290
Cdd:PRK10856  311 PVDL 314
 
Name Accession Description Interval E-value
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 9-74 2.41e-25

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: 96.03  E-value: 2.41e-25
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1012714920   9 PGERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATFVKGYLKNYAKLLGLPADEIA 74
Cdd:COG1426     6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVYVRGFLRSYARALGLDPEELL 71
HTH_25 pfam13413
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-73 1.19e-23

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: 91.40  E-value: 1.19e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1012714920  12 RCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATFVKGYLKNYAKLLGLPADEI 73
Cdd:pfam13413   1 RLRAAREARGLSLEDVAERTKIRPRYLEALEEDDFDALPEPVYARGFLRSYARALGLDPEEL 62
PRK10856 PRK10856
cytoskeleton protein RodZ;
4-290 1.18e-19

cytoskeleton protein RodZ;


Pssm-ID: 236776 [Multi-domain]  Cd Length: 331  Bit Score: 87.39  E-value: 1.18e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920   4 NMVVLPGERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATFVKGYLKNYAKLLGLPADEIANTFQQMVnd 83
Cdd:PRK10856   10 NEALTTGERLRQAREQLGLTQQAVAERLCLKVSTVRDIEEDKAPADLASTFLRGYIRSYARLVHIPEEELLPGLEKQA-- 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920  84 dafdkPLDLPKMAPPPSV-----------WRKPLLAVVALLVVVALLIWLW----------------------PEEEALA 130
Cdd:PRK10856   88 -----PLRAAKVAPMQSFslgkrrkkrdgWLMTFTWLVLFVVIGLTGAWWWqnhkaqqeeittmadqssaelsQNSGQSV 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920 131 PLSNSGMNTP---EERASVPADEEVGGETGPFSSEQEPAPEQGAGDPLAPQSLD-DTANDDQPEETGAAVDGEGVESADS 206
Cdd:PRK10856  163 PLDTSTTTDPattPAPAAPVDTTPTNSQTPAVATAPAPAVDPQQNAVVAPSQANvDTAATPAPAAPATPDGAAPLPTDQA 242

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920 207 ADRVESSDEPApsmlaengldrLLMAFSGNCWISVKDATGRTLRQGEQQGGTSLQLDGKGPFSLTLGDAGAVDeLILNGE 286
Cdd:PRK10856  243 GVSTPAADPNA-----------LVMNFTADCWLEVTDATGKKLFSGMQRKGGNLNLTGQAPYKLKIGAPAAVQ-IQYQGK 310


                  ....
gi 1012714920 287 VVTL 290
Cdd:PRK10856  311 PVDL 314
DUF4115 pfam13464
Domain of unknown function (DUF4115); This short domain is often found at the C-terminus of ...
 231-296 1.02e-16

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: 72.99  E-value: 1.02e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1012714920 231 MAFSGNCWISVKDATGRTLRQGEQQGGTSLQLDGKGPFSLTLGDAGAVdELILNGEVVTLPTNSPG 296
Cdd:pfam13464   2 LTFTGDSWVEVRDADGKVLFEGLLKAGETRTVTGKPPLTLVLGNAGAV-EVSVNGKPVDLLGYARG 66
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
14-73 5.77e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 48.67  E-value: 5.77e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920   14 RKAREALGWTPAEAAKRMHLSQSYLVALEADdyERLPEATFvkgyLKNYAKLLGLPADEI 73
Cdd:smart00530   3 KELREEKGLTQEELAEKLGVSRSTLSRIENG--KRKPSLET----LKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-73 6.20e-08

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 48.70  E-value: 6.20e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1012714920  10 GERCRKAREALGWTPAEAAKRMHLSQSYLVALEADdyERLPEATFvkgyLKNYAKLLGLPADEI 73
Cdd:cd00093     1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENG--KRNPSLET----LEKLAKALGVSLDEL 58
 
Name Accession Description Interval E-value
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 9-74 2.41e-25

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: 96.03  E-value: 2.41e-25
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1012714920   9 PGERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATFVKGYLKNYAKLLGLPADEIA 74
Cdd:COG1426     6 IGELLRQAREAKGLSLEDVAERTKISVSYLEAIEEGDFDALPGPVYVRGFLRSYARALGLDPEELL 71
HTH_25 pfam13413
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-73 1.19e-23

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: 91.40  E-value: 1.19e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1012714920  12 RCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATFVKGYLKNYAKLLGLPADEI 73
Cdd:pfam13413   1 RLRAAREARGLSLEDVAERTKIRPRYLEALEEDDFDALPEPVYARGFLRSYARALGLDPEEL 62
PRK10856 PRK10856
cytoskeleton protein RodZ;
4-290 1.18e-19

cytoskeleton protein RodZ;


Pssm-ID: 236776 [Multi-domain]  Cd Length: 331  Bit Score: 87.39  E-value: 1.18e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920   4 NMVVLPGERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATFVKGYLKNYAKLLGLPADEIANTFQQMVnd 83
Cdd:PRK10856   10 NEALTTGERLRQAREQLGLTQQAVAERLCLKVSTVRDIEEDKAPADLASTFLRGYIRSYARLVHIPEEELLPGLEKQA-- 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920  84 dafdkPLDLPKMAPPPSV-----------WRKPLLAVVALLVVVALLIWLW----------------------PEEEALA 130
Cdd:PRK10856   88 -----PLRAAKVAPMQSFslgkrrkkrdgWLMTFTWLVLFVVIGLTGAWWWqnhkaqqeeittmadqssaelsQNSGQSV 162

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920 131 PLSNSGMNTP---EERASVPADEEVGGETGPFSSEQEPAPEQGAGDPLAPQSLD-DTANDDQPEETGAAVDGEGVESADS 206
Cdd:PRK10856  163 PLDTSTTTDPattPAPAAPVDTTPTNSQTPAVATAPAPAVDPQQNAVVAPSQANvDTAATPAPAAPATPDGAAPLPTDQA 242

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920 207 ADRVESSDEPApsmlaengldrLLMAFSGNCWISVKDATGRTLRQGEQQGGTSLQLDGKGPFSLTLGDAGAVDeLILNGE 286
Cdd:PRK10856  243 GVSTPAADPNA-----------LVMNFTADCWLEVTDATGKKLFSGMQRKGGNLNLTGQAPYKLKIGAPAAVQ-IQYQGK 310


                  ....
gi 1012714920 287 VVTL 290
Cdd:PRK10856  311 PVDL 314
DUF4115 pfam13464
Domain of unknown function (DUF4115); This short domain is often found at the C-terminus of ...
 231-296 1.02e-16

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: 72.99  E-value: 1.02e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1012714920 231 MAFSGNCWISVKDATGRTLRQGEQQGGTSLQLDGKGPFSLTLGDAGAVdELILNGEVVTLPTNSPG 296
Cdd:pfam13464   2 LTFTGDSWVEVRDADGKVLFEGLLKAGETRTVTGKPPLTLVLGNAGAV-EVSVNGKPVDLLGYARG 66
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 10-72 1.62e-08

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 50.71  E-value: 1.62e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1012714920  10 GERCRKAREALGWTPAEAAKRMHLSQSYLVALEADdyERLPEATFvkgyLKNYAKLLGLPADE 72
Cdd:COG1813    14 GERIREAREARGLSQEELAEKLGVSESTIRRIERG--EATPSLDT----LRKLEKALGISLAE 70
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-73 1.74e-08

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 50.77  E-value: 1.74e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1012714920   1 MSDNMVVLpGERCRKAREALGWTPAEAAKRMHLSQSYLVALEADdyERLPEATFvkgyLKNYAKLLGLPADEI 73
Cdd:COG1396     1 MSTLKKAL-GERLRELRKARGLTQEELAERLGVSRSTISRIERG--RRNPSLET----LLKLAKALGVSLDEL 66
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
5-73 3.95e-08

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 49.46  E-value: 3.95e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1012714920   5 MVVLPGERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYErlPEATFvkgyLKNYAKLLGLPADEI 73
Cdd:COG1476     1 MKKKLGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYN--PSLEL----ALKIARALGVSLEEL 63
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
14-73 5.77e-08

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 48.67  E-value: 5.77e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920   14 RKAREALGWTPAEAAKRMHLSQSYLVALEADdyERLPEATFvkgyLKNYAKLLGLPADEI 73
Cdd:smart00530   3 KELREEKGLTQEELAEKLGVSRSTLSRIENG--KRKPSLET----LKKLAKALGVSLDEL 56
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 10-73 6.20e-08

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 48.70  E-value: 6.20e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1012714920  10 GERCRKAREALGWTPAEAAKRMHLSQSYLVALEADdyERLPEATFvkgyLKNYAKLLGLPADEI 73
Cdd:cd00093     1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENG--KRNPSLET----LEKLAKALGVSLDEL 58
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 10-75 7.57e-08

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. This family contains many example antitoxins from bacterial toxin-antitoxin systems. These antitoxins are likely to be DNA-binding domains.


Pssm-ID: 463728 [Multi-domain]  Cd Length: 64  Bit Score: 48.44  E-value: 7.57e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1012714920  10 GERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYeRLPEATFVKgylknYAKLLGLPADEIAN 75
Cdd:pfam12844   1 GERLRKAREERGLTQEELAERLGISRSQLSAIENGKS-VPPAETLYK-----IAELLGVPANWLLQ 60
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 10-74 1.07e-06

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


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 45.21  E-value: 1.07e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1012714920  10 GERCRKAREALGWTPAEAAKRMHLSQSYLVALEADDYERLPEATfvkgyLKNYAKLLGLPADEIA 74
Cdd:pfam13560   3 GARLRRLRERAGLSQEALARRLGVSRSTLSRLETGRRGRPSPAV-----VERLARALGVDGAERA 62
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 14-73 1.46e-06

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 44.45  E-value: 1.46e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1012714920  14 RKAREALGWTPAEAAKRMHLSQSYLVALEADdyERLPEATfvkgYLKNYAKLLGLPADEI 73
Cdd:pfam01381   2 KELREELGLSQEELAEKLGVSRSTISKIENG--KREPSLE----TLKKLAEALGVSLDEL 55
 
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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