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Conserved domains on  [gi|13384840|ref|NP_084526|]
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dehydrodolichyl diphosphate synthase complex subunit Nus1 [Mus musculus]

Protein Classification

undecaprenyl diphosphate synthase family protein( domain architecture ID 1904676)

undecaprenyl diphosphate synthase (UPPS) family protein catalyzes consecutive condensation reactions of farnesyl diphosphate (FPP) with specific numbers of isopentenyl diphosphate (IPP) to form long-chain polyprenyl diphosphates, similar to UPPS that catalyzes chain elongation of FPP by eight IPP to form the carrier lipid UPP in bacterial cell wall peptidoglycan biosynthesis

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
UppS super family cl42290
Undecaprenyl pyrophosphate synthase [Lipid transport and metabolism];
200-297 3.65e-11

Undecaprenyl pyrophosphate synthase [Lipid transport and metabolism];


The actual alignment was detected with superfamily member COG0020:

Pssm-ID: 439791  Cd Length: 248  Bit Score: 62.00  E-value: 3.65e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840 200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKfgpvdsTLG------FLPWQIRLTEIVSLPSH 273
Cdd:COG0020 145 GRWEIVDAVRKIARDVAAGELDPEDIDEETISRYLYTADLPDPDLLIR------TSGeqrisnFLLWQLAYAELYFTDVL 218

                        90       100
                ....*....|....*....|....*
gi 13384840 274 L-NISYEDFFSALRQYAACEQRLGK 297
Cdd:COG0020 219 WpDFDKEDLLRAIRDYQRRERRFGG 243
 
Name Accession Description Interval E-value
UppS COG0020
Undecaprenyl pyrophosphate synthase [Lipid transport and metabolism];
200-297 3.65e-11

Undecaprenyl pyrophosphate synthase [Lipid transport and metabolism];


Pssm-ID: 439791  Cd Length: 248  Bit Score: 62.00  E-value: 3.65e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840 200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKfgpvdsTLG------FLPWQIRLTEIVSLPSH 273
Cdd:COG0020 145 GRWEIVDAVRKIARDVAAGELDPEDIDEETISRYLYTADLPDPDLLIR------TSGeqrisnFLLWQLAYAELYFTDVL 218

                        90       100
                ....*....|....*....|....*
gi 13384840 274 L-NISYEDFFSALRQYAACEQRLGK 297
Cdd:COG0020 219 WpDFDKEDLLRAIRDYQRRERRFGG 243
Cis_IPPS cd00475
Cis (Z)-Isoprenyl Diphosphate Synthases; Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS) ...
 200-289 1.40e-10

Cis (Z)-Isoprenyl Diphosphate Synthases; Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS) catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl diphosphates. A few can also catalyze the condensation of IPP to trans-geranyl diphosphate to form the short-chain cis,trans- FPP. In prokaryotes, the cis-IPPS, undecaprenyl diphosphate synthase (UPP synthase), catalyzes the formation of the carrier lipid UPP in bacterial cell wall peptidoglycan biosynthesis. Similarly, in eukaryotes, the cis-IPPS, dehydrodolichyl diphosphate (dedol-PP) synthase catalyzes the formation of the polyisoprenoid glycosyl carrier lipid dolichyl monophosphate. cis-IPPS form homodimers and are mechanistically and structurally distinct from trans-IPPS, which lack the DDXXD motifs, yet require Mg2+ for activity.


Pssm-ID: 259850  Cd Length: 219  Bit Score: 59.69  E-value: 1.40e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840 200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKfgpvdsTLG------FLPWQIRLTEIVSLPSH 273
Cdd:cd00475 128 GRDEIVRAVRKIARDVKAGELDPEDITEELISKHLYTADLPDPDLLIR------TSGeqrlsnFLLWQSAYAELYFTDVL 201

                        90
                ....*....|....*..
gi 13384840 274 -LNISYEDFFSALRQYA 289
Cdd:cd00475 202 wPDFRKEDLLRAILDYQ 218
Prenyltransf pfam01255
Putative undecaprenyl diphosphate synthase; Previously known as uncharacterized protein family ...
 200-296 4.55e-10

Putative undecaprenyl diphosphate synthase; Previously known as uncharacterized protein family UPF0015, a single member of this family has been identified as an undecaprenyl diphosphate synthase.


Pssm-ID: 460138  Cd Length: 220  Bit Score: 58.53  E-value: 4.55e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840   200 GKADIVRAAQDFCQlvAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKfgpvdsTLG------FLPWQIRLTEIVSLPSH 273
Cdd:pfam01255 125 GRDEIVDAVRKIVK--EGKKLDPEDIDEELISSHLYTAGLPDPDLLIR------TSGeqrlsnFLLWQSAYSELYFTDVL 196

                          90       100
                  ....*....|....*....|....
gi 13384840   274 L-NISYEDFFSALRQYAACEQRLG 296
Cdd:pfam01255 197 WpDFRKEDLLRAIRDYQRRERRFG 220
PRK14829 PRK14829
undecaprenyl pyrophosphate synthase; Provisional
 200-296 1.41e-07

undecaprenyl pyrophosphate synthase; Provisional


Pssm-ID: 237826  Cd Length: 243  Bit Score: 51.32  E-value: 1.41e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840  200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKFGPVDSTLGFLPWQIRLTEIVSLPSHL-NISY 278
Cdd:PRK14829 144 GRAEIADAAAAIAREVRDGKISGDRVTEKMISDHLYNPDMPDVDLFLRTSGEQRTSNFLLWQSAYAELDFVPKLFpDFGR 223

                         90
                 ....*....|....*...
gi 13384840  279 EDFFSALRQYAACEQRLG 296
Cdd:PRK14829 224 DDLWAAIDEYAHRDRRFG 241
 
Name Accession Description Interval E-value
UppS COG0020
Undecaprenyl pyrophosphate synthase [Lipid transport and metabolism];
200-297 3.65e-11

Undecaprenyl pyrophosphate synthase [Lipid transport and metabolism];


Pssm-ID: 439791  Cd Length: 248  Bit Score: 62.00  E-value: 3.65e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840 200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKfgpvdsTLG------FLPWQIRLTEIVSLPSH 273
Cdd:COG0020 145 GRWEIVDAVRKIARDVAAGELDPEDIDEETISRYLYTADLPDPDLLIR------TSGeqrisnFLLWQLAYAELYFTDVL 218

                        90       100
                ....*....|....*....|....*
gi 13384840 274 L-NISYEDFFSALRQYAACEQRLGK 297
Cdd:COG0020 219 WpDFDKEDLLRAIRDYQRRERRFGG 243
Cis_IPPS cd00475
Cis (Z)-Isoprenyl Diphosphate Synthases; Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS) ...
 200-289 1.40e-10

Cis (Z)-Isoprenyl Diphosphate Synthases; Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS) catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl diphosphates. A few can also catalyze the condensation of IPP to trans-geranyl diphosphate to form the short-chain cis,trans- FPP. In prokaryotes, the cis-IPPS, undecaprenyl diphosphate synthase (UPP synthase), catalyzes the formation of the carrier lipid UPP in bacterial cell wall peptidoglycan biosynthesis. Similarly, in eukaryotes, the cis-IPPS, dehydrodolichyl diphosphate (dedol-PP) synthase catalyzes the formation of the polyisoprenoid glycosyl carrier lipid dolichyl monophosphate. cis-IPPS form homodimers and are mechanistically and structurally distinct from trans-IPPS, which lack the DDXXD motifs, yet require Mg2+ for activity.


Pssm-ID: 259850  Cd Length: 219  Bit Score: 59.69  E-value: 1.40e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840 200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKfgpvdsTLG------FLPWQIRLTEIVSLPSH 273
Cdd:cd00475 128 GRDEIVRAVRKIARDVKAGELDPEDITEELISKHLYTADLPDPDLLIR------TSGeqrlsnFLLWQSAYAELYFTDVL 201

                        90
                ....*....|....*..
gi 13384840 274 -LNISYEDFFSALRQYA 289
Cdd:cd00475 202 wPDFRKEDLLRAILDYQ 218
Prenyltransf pfam01255
Putative undecaprenyl diphosphate synthase; Previously known as uncharacterized protein family ...
 200-296 4.55e-10

Putative undecaprenyl diphosphate synthase; Previously known as uncharacterized protein family UPF0015, a single member of this family has been identified as an undecaprenyl diphosphate synthase.


Pssm-ID: 460138  Cd Length: 220  Bit Score: 58.53  E-value: 4.55e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840   200 GKADIVRAAQDFCQlvAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKfgpvdsTLG------FLPWQIRLTEIVSLPSH 273
Cdd:pfam01255 125 GRDEIVDAVRKIVK--EGKKLDPEDIDEELISSHLYTAGLPDPDLLIR------TSGeqrlsnFLLWQSAYSELYFTDVL 196

                          90       100
                  ....*....|....*....|....
gi 13384840   274 L-NISYEDFFSALRQYAACEQRLG 296
Cdd:pfam01255 197 WpDFRKEDLLRAIRDYQRRERRFG 220
PRK14829 PRK14829
undecaprenyl pyrophosphate synthase; Provisional
 200-296 1.41e-07

undecaprenyl pyrophosphate synthase; Provisional


Pssm-ID: 237826  Cd Length: 243  Bit Score: 51.32  E-value: 1.41e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840  200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKFGPVDSTLGFLPWQIRLTEIVSLPSHL-NISY 278
Cdd:PRK14829 144 GRAEIADAAAAIAREVRDGKISGDRVTEKMISDHLYNPDMPDVDLFLRTSGEQRTSNFLLWQSAYAELDFVPKLFpDFGR 223

                         90
                 ....*....|....*...
gi 13384840  279 EDFFSALRQYAACEQRLG 296
Cdd:PRK14829 224 DDLWAAIDEYAHRDRRFG 241
PRK14828 PRK14828
undecaprenyl pyrophosphate synthase; Provisional
 200-297 2.41e-06

undecaprenyl pyrophosphate synthase; Provisional


Pssm-ID: 237825  Cd Length: 256  Bit Score: 47.82  E-value: 2.41e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840  200 GKADIVRAAQDFCQLVAQQQRKPTDL----DVDLLGSLLSSHGFPDPDLVLKFGPVDSTLGFLPWQIRLTEI----VSLP 271
Cdd:PRK14828 154 GRQEIVDAVRSLLTEHKDKGTSIDELaesvTVDAISTHLYTGGQPDPDLVIRTSGEQRLSGFMLWQSAHSEYyfceTYWP 233

                         90       100
                 ....*....|....*....|....*.
gi 13384840  272 SHLNIsyeDFFSALRQYAACEQRLGK 297
Cdd:PRK14828 234 AFRKV---DFLRALRDYSQRERRFGK 256
PRK14840 PRK14840
undecaprenyl pyrophosphate synthase; Provisional
 200-297 2.61e-06

undecaprenyl pyrophosphate synthase; Provisional


Pssm-ID: 173301  Cd Length: 250  Bit Score: 47.53  E-value: 2.61e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840  200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKFGPVDSTLGFLPWQIRLTEI----VSLPshlN 275
Cdd:PRK14840 152 GKDELVRAFKKLHQDLANKKISSDDISEELISSYLDTSGLPDPDLLIRTGGEMRVSNFLLWQIAYTELyvtdVLWP---D 228

                         90       100
                 ....*....|....*....|..
gi 13384840  276 ISYEDFFSALRQYAACEQRLGK 297
Cdd:PRK14840 229 FTPNDLLEAIKTYQQRSRRGGK 250
PRK10240 PRK10240
(2E,6E)-farnesyl-diphosphate-specific ditrans,polycis-undecaprenyl-diphosphate synthase;
200-296 1.23e-05

(2E,6E)-farnesyl-diphosphate-specific ditrans,polycis-undecaprenyl-diphosphate synthase;


Pssm-ID: 182326  Cd Length: 229  Bit Score: 45.36  E-value: 1.23e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 13384840  200 GKADIVRAAQDFCQLVAQQQRKPTDLDVDLLGSLLSSHGFPDPDLVLKFGPVDSTLGFLPWQIRLTEI----VSLPshlN 275
Cdd:PRK10240 123 GRWDIVQGVRQLAEQVQQGNLQPDQIDEEMLNQHICMHELAPVDLVIRTGGEHRISNFLLWQIAYAELyftdVLWP---D 199

                         90       100
                 ....*....|....*....|.
gi 13384840  276 ISYEDFFSALRQYAACEQRLG 296
Cdd:PRK10240 200 FDEQDFEGALNAFANRERRFG 220
 
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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