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Conserved domains on  [gi|1276995477|gb|PIQ07315|]
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hypothetical protein COW73_00090 [Nitrospirae bacterium CG18_big_fil_WC_8_21_14_2_50_70_55]

Protein Classification

inner membrane-spanning protein YciB; polyprenyl synthetase family protein( domain architecture ID 1903478)

inner membrane-spanning protein YciB plays a role in cell envelope biogenesis, maintenance of cell envelope integrity and membrane homeostasis| polyprenyl synthetase family protein such as farnesyl/geranylgeranyl diphosphate synthase, which is a key enzyme in isoprenoid biosynthesis, catalyzing the formation of farnesyl diphosphate (FPP) and geranylgeranyl diphosphate (GGPP), respectively

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IspA super family cl43038
Geranylgeranyl pyrophosphate synthase [Coenzyme transport and metabolism]; Geranylgeranyl ...
 12-213 1.69e-10

Geranylgeranyl pyrophosphate synthase [Coenzyme transport and metabolism]; Geranylgeranyl pyrophosphate synthase is part of the Pathway/BioSystem: Isoprenoid biosynthesis


The actual alignment was detected with superfamily member COG0142:

Pssm-ID: 439912 [Multi-domain]  Cd Length: 329  Bit Score: 60.24  E-value: 1.69e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276995477  12 YLDTRQAWVEEALVGWLPHGHPRPLFEAMERLFAASRPRLYPLAVIAAAEAVGGDGRACLGPAIAVEIAH---------- 81
Cdd:COG0142     9 LLAEDLARVEAALEELLARSEPPLLAEAMRYLLLAGGKRLRPLLVLLAARALGGDPEAALRAAAAVELIHtaslvhddvm 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276995477  82 -RACYRHHALCT-----------GGDAALQLLAGDALLALAFDLLADPAGPPAAAARLMA---LHDLARCAGGggaaage 146
Cdd:COG0142    89 dDDDLRRGKPTVharfgeatailAGDALLALAFELLAELGDPERRLRALRILARAARGMCegqALDLEAEGRL------- 161

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1276995477 147 avvrlarpgeTLTLPELEFIDTHTTGAWFTTAVRIGALLGGGSAAALEALTRYAHHAGLAVAIRADL 213
Cdd:COG0142   162 ----------DVTLEEYLRVIRLKTAALFAAALRLGAILAGADEEQVEALRRYGRNLGLAFQIRDDI 218
 
Name Accession Description Interval E-value
IspA COG0142
Geranylgeranyl pyrophosphate synthase [Coenzyme transport and metabolism]; Geranylgeranyl ...
 12-213 1.69e-10

Geranylgeranyl pyrophosphate synthase [Coenzyme transport and metabolism]; Geranylgeranyl pyrophosphate synthase is part of the Pathway/BioSystem: Isoprenoid biosynthesis


Pssm-ID: 439912 [Multi-domain]  Cd Length: 329  Bit Score: 60.24  E-value: 1.69e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276995477  12 YLDTRQAWVEEALVGWLPHGHPRPLFEAMERLFAASRPRLYPLAVIAAAEAVGGDGRACLGPAIAVEIAH---------- 81
Cdd:COG0142     9 LLAEDLARVEAALEELLARSEPPLLAEAMRYLLLAGGKRLRPLLVLLAARALGGDPEAALRAAAAVELIHtaslvhddvm 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276995477  82 -RACYRHHALCT-----------GGDAALQLLAGDALLALAFDLLADPAGPPAAAARLMA---LHDLARCAGGggaaage 146
Cdd:COG0142    89 dDDDLRRGKPTVharfgeatailAGDALLALAFELLAELGDPERRLRALRILARAARGMCegqALDLEAEGRL------- 161

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1276995477 147 avvrlarpgeTLTLPELEFIDTHTTGAWFTTAVRIGALLGGGSAAALEALTRYAHHAGLAVAIRADL 213
Cdd:COG0142   162 ----------DVTLEEYLRVIRLKTAALFAAALRLGAILAGADEEQVEALRRYGRNLGLAFQIRDDI 218
PRK10581 PRK10581
(2E,6E)-farnesyl diphosphate synthase;
151-270 5.47e-05

(2E,6E)-farnesyl diphosphate synthase;


Pssm-ID: 182567  Cd Length: 299  Bit Score: 43.61  E-value: 5.47e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276995477 151 LARPGETLTLPELEFIDTHTTGAWFTTAVRIGALLGGGSA-AALEALTRYAHHAGLAVAIRADL-----------QGEAT 218
Cdd:PRK10581  162 LEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGrRALPVLDRYAESIGLAFQVQDDIldvvgdtatlgKRQGA 241

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1276995477 219 VEPPPRPSYARAVGPVAARALGLELVERAVADLAPLGSAA---APLGLLGGAVVE 270
Cdd:PRK10581  242 DQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQSldtSALEALANYIIQ 296
 
Name Accession Description Interval E-value
IspA COG0142
Geranylgeranyl pyrophosphate synthase [Coenzyme transport and metabolism]; Geranylgeranyl ...
 12-213 1.69e-10

Geranylgeranyl pyrophosphate synthase [Coenzyme transport and metabolism]; Geranylgeranyl pyrophosphate synthase is part of the Pathway/BioSystem: Isoprenoid biosynthesis


Pssm-ID: 439912 [Multi-domain]  Cd Length: 329  Bit Score: 60.24  E-value: 1.69e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276995477  12 YLDTRQAWVEEALVGWLPHGHPRPLFEAMERLFAASRPRLYPLAVIAAAEAVGGDGRACLGPAIAVEIAH---------- 81
Cdd:COG0142     9 LLAEDLARVEAALEELLARSEPPLLAEAMRYLLLAGGKRLRPLLVLLAARALGGDPEAALRAAAAVELIHtaslvhddvm 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276995477  82 -RACYRHHALCT-----------GGDAALQLLAGDALLALAFDLLADPAGPPAAAARLMA---LHDLARCAGGggaaage 146
Cdd:COG0142    89 dDDDLRRGKPTVharfgeatailAGDALLALAFELLAELGDPERRLRALRILARAARGMCegqALDLEAEGRL------- 161

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1276995477 147 avvrlarpgeTLTLPELEFIDTHTTGAWFTTAVRIGALLGGGSAAALEALTRYAHHAGLAVAIRADL 213
Cdd:COG0142   162 ----------DVTLEEYLRVIRLKTAALFAAALRLGAILAGADEEQVEALRRYGRNLGLAFQIRDDI 218
PRK10581 PRK10581
(2E,6E)-farnesyl diphosphate synthase;
151-270 5.47e-05

(2E,6E)-farnesyl diphosphate synthase;


Pssm-ID: 182567  Cd Length: 299  Bit Score: 43.61  E-value: 5.47e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1276995477 151 LARPGETLTLPELEFIDTHTTGAWFTTAVRIGALLGGGSA-AALEALTRYAHHAGLAVAIRADL-----------QGEAT 218
Cdd:PRK10581  162 LEAEGKQVPLDALERIHRHKTGALIRAAVRLGALSAGDKGrRALPVLDRYAESIGLAFQVQDDIldvvgdtatlgKRQGA 241

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1276995477 219 VEPPPRPSYARAVGPVAARALGLELVERAVADLAPLGSAA---APLGLLGGAVVE 270
Cdd:PRK10581  242 DQQLGKSTYPALLGLEQARKKARDLIDDARQSLDQLAAQSldtSALEALANYIIQ 296
 
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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