Citrus Sinensis ID: 039384

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100----
Protein Sequence
MHKSDDVQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLEEKKKRQF
Secondary Structure (PSIPRED)
ccccccccccEEcEEEEEHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccccccEEEccccccccHHHHHHHHHHHcEEccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccHHHHHHHHHHHHHHHHHHcccHHHHHccHccccHHHHHHHHcccccccccEEEEEcccHHHHHHHHHHHHHHHHEccccccHHHHHHHcc
Coil and Loop (DISEMBL)
mhksddvqplkinslilpvpdvqeyceDKLDGSQALKEKIDEDTIKKLVDVEKHMFmavapdpditirssgetrpsnfllwqtsncslyspAALWLEEKKKRQF
Flexible Loop (DISEMBL)
mhksddvqplkinslilpvpdVQEYCEDKLDGsqalkekideDTIKKLVDVEKHMFMAvapdpditirSSGETRPSNFLLWQTSNCSLYSPAALWLEEKKKRQF
Low Complexity Region (SEG)
MHKSDDVQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLEEKKKRQF
Disordered region (IsUnstruct)
**********KINSLILPVPDVQEYCEDKL*********IDEDTIKKLVDVEKHMFMAVAPDPDITI********SNFLLWQTSNCSLYSPAALWL********
Disordered Region (DISOPRED)
*****DVQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLEEKKKRQF
Disordered Region (DISEMBL)
********PLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLEEKKKRQF
Disordered Region (DISPRO)
*********LKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLEEKKKRQ*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MHKSDDVQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLEEKKKRQF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	104	2.2.26 [Sep-21-2011]
Q8S2T1	295	Dehydrodolichyl diphospha	yes	no	0.471	0.166	0.734	3e-15
Q8W3U4	284	Rubber cis-polyprenyltran	N/A	no	0.682	0.25	0.493	2e-12
Q8RA26	247	Isoprenyl transferase OS=	yes	no	0.730	0.307	0.409	3e-09
P20182	259	Isoprenyl transferase OS=	N/A	no	0.596	0.239	0.453	4e-09
O87197	263	Isoprenyl transferase OS=	yes	no	0.490	0.193	0.470	1e-08
Q5SH15	263	Isoprenyl transferase OS=	yes	no	0.490	0.193	0.470	1e-08
Q9K1G6	248	Isoprenyl transferase OS=	yes	no	0.490	0.205	0.473	2e-08
Q5F5X2	248	Isoprenyl transferase OS=	yes	no	0.490	0.205	0.473	2e-08
Q9KPV6	250	Ditrans,polycis-undecapre	yes	no	0.615	0.256	0.412	5e-08
Q82TZ9	263	Isoprenyl transferase OS=	yes	no	0.644	0.254	0.394	6e-08

>sp|Q8S2T1|DDPS6_ARATH Dehydrodolichyl diphosphate synthase 6 OS=Arabidopsis thaliana GN=At2g17570 PE=2 SV=2

 Score = 80.5 bits (197), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/49 (73%), Positives = 42/49 (85%)

Query: 47  KLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           +LVD+E++M M+VAP+PDI IRSSGETR SNFLLWQT N  L SPAALW
Sbjct: 218 QLVDIEENMQMSVAPNPDILIRSSGETRLSNFLLWQTGNTQLCSPAALW 266

Catalyzes cis-prenyl chain elongation to produce the polyprenyl backbone of dolichol, a glycosyl carrier-lipid required for the biosynthesis of several classes of glycoprotein.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 5EC: .EC: 1EC: .EC: -

>sp|Q8W3U4|HRT2_HEVBR Rubber cis-polyprenyltransferase HRT2 OS=Hevea brasiliensis GN=HRT2 PE=1 SV=1

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/75 (49%), Positives = 53/75 (70%), Gaps = 4/75 (5%)

Query: 24  EYCEDKLDGSQALK-EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQ 82
           E C D  +G   +K E+++  +  KLV++E++ +  + P PD+ IR+SGETR SN+LLWQ
Sbjct: 185 EICNDG-NGDCVIKIEEMEPYSEIKLVELERNTY--INPYPDVLIRTSGETRLSNYLLWQ 241

Query: 83  TSNCSLYSPAALWLE 97
           T+NC LYSP ALW E
Sbjct: 242 TTNCILYSPHALWPE 256

Proposed to be involved in rubber biosynthesis as a particle-bound rubber transferase responsible for the cis-1,4-polymerization of isoprene subunits. Probably requires additional factors for the production of high molecular mass rubber.

Hevea brasiliensis (taxid: 3981)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 2

EC: 0

>sp|Q8RA26|ISPT_THETN Isoprenyl transferase OS=Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) GN=uppS PE=3 SV=1

 Score = 60.5 bits (145), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 34/83 (40%), Positives = 47/83 (56%), Gaps = 7/83 (8%)

Query: 19  VPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNF 78
           V   Q  C+  L+  +   E I EDTI +      H++ A  PDPD+ IR+SGE R SNF
Sbjct: 153 VKATQNICKKVLN-RELSPEDITEDTITQ------HLYTASQPDPDLIIRTSGEKRLSNF 205

Query: 79  LLWQTSNCSLYSPAALWLEEKKK 101
           LLWQ++   L+    LW + KK+
Sbjct: 206 LLWQSAYSELWFTEVLWPDFKKR 228

Generates ditrans,octacis-undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) and farnesyl diphosphate. UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide.

Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) (taxid: 273068)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

EC: 1

>sp|P20182|ISPT_STRFR Isoprenyl transferase OS=Streptomyces fradiae GN=uppS PE=3 SV=2

 Score = 60.1 bits (144), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 29/64 (45%), Positives = 37/64 (57%), Gaps = 2/64 (3%)

Query: 34  QALKEKIDEDTIKKLV--DVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSP 91
           QA      ED    L   D+ +H++ A  PDPD+ IR+SGE R SNFLLWQ++   LY  
Sbjct: 172 QAAAGTTLEDLAASLTMDDITRHLYTAGQPDPDLVIRTSGEQRMSNFLLWQSAYSELYFC 231

Query: 92  AALW 95
            A W
Sbjct: 232 EAYW 235

Generates ditrans,octacis-undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) and farnesyl diphosphate. UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide.

Streptomyces fradiae (taxid: 1906)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

EC: 1

>sp|O87197|ISPT_THET2 Isoprenyl transferase OS=Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) GN=uppS PE=3 SV=1

 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 24/51 (47%), Positives = 32/51 (62%)

Query: 50  DVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLEEKK 100
           D+ +H++ A  PDPD  IR+SGE R S FLLWQ++    Y    LW E +K
Sbjct: 194 DIARHLYTAGLPDPDFIIRTSGEIRLSGFLLWQSAYSEFYFADVLWPEFRK 244

Generates ditrans,octacis-undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) and farnesyl diphosphate. UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide.

Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (taxid: 262724)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

EC: 1

>sp|Q5SH15|ISPT_THET8 Isoprenyl transferase OS=Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) GN=uppS PE=3 SV=1

 Score = 58.5 bits (140), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 24/51 (47%), Positives = 32/51 (62%)

Query: 50  DVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLEEKK 100
           D+ +H++ A  PDPD  IR+SGE R S FLLWQ++    Y    LW E +K
Sbjct: 194 DIARHLYTAGLPDPDFIIRTSGEIRLSGFLLWQSAYSEFYFADVLWPEFRK 244

Generates ditrans,octacis-undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) and farnesyl diphosphate. UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide.

Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (taxid: 300852)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

EC: 1

>sp|Q9K1G6|ISPT_NEIMB Isoprenyl transferase OS=Neisseria meningitidis serogroup B (strain MC58) GN=uppS PE=3 SV=1

 Score = 57.8 bits (138), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/57 (47%), Positives = 35/57 (61%), Gaps = 6/57 (10%)

Query: 39  KIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           +I EDT+ K      H+ +  AP+PD+ IR+ GETR SNFLLWQ +   LY    LW
Sbjct: 162 EITEDTLAK------HLMLGDAPEPDLFIRTGGETRISNFLLWQMAYAELYFTDILW 212

Generates ditrans,octacis-undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) and farnesyl diphosphate. UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide.

Neisseria meningitidis serogroup B (strain MC58) (taxid: 122586)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

EC: 1

>sp|Q5F5X2|ISPT_NEIG1 Isoprenyl transferase OS=Neisseria gonorrhoeae (strain ATCC 700825 / FA 1090) GN=uppS PE=3 SV=1

 Score = 57.8 bits (138), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 27/57 (47%), Positives = 35/57 (61%), Gaps = 6/57 (10%)

Query: 39  KIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           +I EDT+ K      H+ +  AP+PD+ IR+ GETR SNFLLWQ +   LY    LW
Sbjct: 162 EITEDTLAK------HLMLGDAPEPDLFIRTGGETRISNFLLWQMAYAELYFTDILW 212

Generates ditrans,octacis-undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) and farnesyl diphosphate. UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide.

Neisseria gonorrhoeae (strain ATCC 700825 / FA 1090) (taxid: 242231)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

EC: 1

>sp|Q9KPV6|UPPS_VIBCH Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN=uppS PE=3 SV=2

 Score = 56.2 bits (134), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 33/80 (41%), Positives = 41/80 (51%), Gaps = 16/80 (20%)

Query: 28  DKLDGSQALKEK----------IDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSN 77
           D L  +QAL EK          IDED  K+      H+ MA  PD D+ IR+SGE R SN
Sbjct: 144 DILQATQALAEKVTQGELQPSDIDEDVFKQ------HLTMADLPDVDLLIRTSGECRISN 197

Query: 78  FLLWQTSNCSLYSPAALWLE 97
           F+LWQ +   +Y     W E
Sbjct: 198 FMLWQLAYAEMYFTPVFWPE 217

Generates ditrans,octacis-undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) and farnesyl diphosphate. UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide.

Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) (taxid: 243277)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

EC: 1

>sp|Q82TZ9|ISPT_NITEU Isoprenyl transferase OS=Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298) GN=uppS PE=3 SV=1

 Score = 56.2 bits (134), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 28/71 (39%), Positives = 42/71 (59%), Gaps = 4/71 (5%)

Query: 29  KLDGSQALKEKIDEDTIKKLV----DVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTS 84
           + D  QA+++ I E+    +     D+ +H+ +A AP+PD+ IR+ GE R SNFLLWQ +
Sbjct: 148 RWDIMQAVRKMITENPDSAVTFDEPDIARHLALADAPEPDLFIRTGGECRISNFLLWQLA 207

Query: 85  NCSLYSPAALW 95
              LY    LW
Sbjct: 208 YTELYFTDTLW 218

Generates ditrans,octacis-undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) and farnesyl diphosphate. UPP is the precursor of glycosyl carrier lipid in the biosynthesis of bacterial cell wall polysaccharide components such as peptidoglycan and lipopolysaccharide.

Nitrosomonas europaea (strain ATCC 19718 / NBRC 14298) (taxid: 228410)

EC: 2

EC: .

EC: 5

EC: .

EC: 1

EC: .

EC: 3

EC: 1

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	104
255561403	381	undecaprenyl diphosphate synthase, putat	0.817	0.223	0.5	9e-19
224084084	287	predicted protein [Populus trichocarpa]	0.673	0.243	0.633	6e-18
356529679	308	PREDICTED: dehydrodolichyl diphosphate s	0.759	0.256	0.494	7e-18
356561076	360	PREDICTED: dehydrodolichyl diphosphate s	0.759	0.219	0.474	1e-17
357443329	426	Undecaprenyl pyrophosphate synthetase [M	0.759	0.185	0.484	2e-17
357517675	360	Undecaprenyl pyrophosphate synthetase [M	0.759	0.219	0.484	5e-17
255582903	370	undecaprenyl diphosphate synthase, putat	0.586	0.164	0.639	2e-16
255582899	331	undecaprenyl diphosphate synthase, putat	0.586	0.184	0.688	4e-16
414091091	290	cis-prenyltransferase 3 [Solanum lycoper	0.740	0.265	0.483	9e-16
255582905	363	undecaprenyl diphosphate synthase, putat	0.567	0.162	0.677	1e-15

>gi|255561403|ref|XP_002521712.1| undecaprenyl diphosphate synthase, putative [Ricinus communis] gi|223539103|gb|EEF40699.1| undecaprenyl diphosphate synthase, putative [Ricinus communis]

 Score = 97.4 bits (241), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 50/100 (50%), Positives = 63/100 (63%), Gaps = 15/100 (15%)

Query: 13  NSLILPVPDVQEYCEDKLDGSQALKEKIDED---------------TIKKLVDVEKHMFM 57
           N + + VP  Q  CE+K D  Q L +   E+               ++ KLVD+E++M+M
Sbjct: 231 NKISMAVPAAQGLCENKWDKDQTLTKNKTENGVLPSEESEKMQGACSLIKLVDIERNMYM 290

Query: 58  AVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLE 97
           AVAP+PDI IRSSGETR SNFLLWQ S+C LYSP ALW E
Sbjct: 291 AVAPEPDILIRSSGETRLSNFLLWQASDCMLYSPDALWPE 330

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224084084|ref|XP_002307209.1| predicted protein [Populus trichocarpa] gi|222856658|gb|EEE94205.1| predicted protein [Populus trichocarpa]

 Score = 94.7 bits (234), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 45/71 (63%), Positives = 54/71 (76%), Gaps = 1/71 (1%)

Query: 26  CEDKLDGSQALKEKIDED-TIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTS 84
           C      S  ++EK+  D +I K+VD+E HM+M+VAP+PDI IRSSGETR SNFLLWQTS
Sbjct: 188 CNSHKSFSGRVEEKLLVDLSILKVVDIESHMYMSVAPNPDIVIRSSGETRLSNFLLWQTS 247

Query: 85  NCSLYSPAALW 95
           NC LYSP ALW
Sbjct: 248 NCLLYSPNALW 258

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356529679|ref|XP_003533416.1| PREDICTED: dehydrodolichyl diphosphate synthase 6-like [Glycine max]

 Score = 94.4 bits (233), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 49/99 (49%), Positives = 60/99 (60%), Gaps = 20/99 (20%)

Query: 26  CEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSN 85
           C +  + ++  K K  +  + KLVD+EKHM+MAVAPDPDI IR+SGE R SNFLLWQTS 
Sbjct: 210 CNELFEMTEERKYKQGDVPLIKLVDIEKHMYMAVAPDPDILIRTSGEARLSNFLLWQTST 269

Query: 86  CSLYSPAALWLE--------------------EKKKRQF 104
           C LY+P ALW E                    EKKK+QF
Sbjct: 270 CPLYAPTALWPEIGLRHLVWAVLNFQRHHFYLEKKKKQF 308

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356561076|ref|XP_003548811.1| PREDICTED: dehydrodolichyl diphosphate synthase 6-like [Glycine max]

 Score = 94.0 bits (232), Expect = 1e-17,   Method: Composition-based stats.
 Identities = 47/99 (47%), Positives = 60/99 (60%), Gaps = 20/99 (20%)

Query: 26  CEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSN 85
           C + ++ ++  K    +  + KLVD+EKHM+MAVAPDPDI IR+SGE R SNFLLWQTS 
Sbjct: 262 CNELVEMTEERKYNQGDVPLIKLVDIEKHMYMAVAPDPDILIRTSGEARLSNFLLWQTST 321

Query: 86  CSLYSPAALWLE--------------------EKKKRQF 104
           C LY+P ALW E                    EKK++QF
Sbjct: 322 CPLYAPTALWPEIGLRHLVWAVLNFQRHHFYLEKKRKQF 360

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357443329|ref|XP_003591942.1| Undecaprenyl pyrophosphate synthetase [Medicago truncatula] gi|355480990|gb|AES62193.1| Undecaprenyl pyrophosphate synthetase [Medicago truncatula]

 Score = 92.8 bits (229), Expect = 2e-17,   Method: Composition-based stats.
 Identities = 48/99 (48%), Positives = 58/99 (58%), Gaps = 20/99 (20%)

Query: 26  CEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSN 85
           C   ++ ++  K K  +    KLVD+EKHM+MAVAPDPDI IR+SGE R SNFLLWQTS 
Sbjct: 328 CNGTVEITEERKYKQHQIASIKLVDIEKHMYMAVAPDPDILIRTSGEARLSNFLLWQTSA 387

Query: 86  CSLYSPAALWLE--------------------EKKKRQF 104
           C LY+P  LW E                    EKKK+QF
Sbjct: 388 CPLYAPKVLWPEIGLRHLVWAVLNFQRHHFYLEKKKKQF 426

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357517675|ref|XP_003629126.1| Undecaprenyl pyrophosphate synthetase [Medicago truncatula] gi|355523148|gb|AET03602.1| Undecaprenyl pyrophosphate synthetase [Medicago truncatula]

 Score = 91.7 bits (226), Expect = 5e-17,   Method: Composition-based stats.
 Identities = 48/99 (48%), Positives = 57/99 (57%), Gaps = 20/99 (20%)

Query: 26  CEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSN 85
           C   ++ ++  K K  E    KLVD+EKHM+M VAPDPDI IR+SGE R SNFLLWQTS 
Sbjct: 262 CNGIVEITEEQKYKQGEIASIKLVDIEKHMYMTVAPDPDILIRTSGEARLSNFLLWQTSA 321

Query: 86  CSLYSPAALWLE--------------------EKKKRQF 104
           C LY+P  LW E                    EKKK+QF
Sbjct: 322 CPLYAPKVLWPEIGLRHLVWAVLNFQRHHFYLEKKKKQF 360

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255582903|ref|XP_002532223.1| undecaprenyl diphosphate synthase, putative [Ricinus communis] gi|223528080|gb|EEF30154.1| undecaprenyl diphosphate synthase, putative [Ricinus communis]

 Score = 89.7 bits (221), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 39/61 (63%), Positives = 49/61 (80%)

Query: 37  KEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWL 96
           +EK+  ++I K VD++KHM+MAVAPDPDI IR++GETR SNFLLWQ  +C LYSP  LW 
Sbjct: 283 REKMQSNSIIKQVDLQKHMYMAVAPDPDILIRTAGETRLSNFLLWQAGDCPLYSPDVLWP 342

Query: 97  E 97
           E
Sbjct: 343 E 343

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255582899|ref|XP_002532221.1| undecaprenyl diphosphate synthase, putative [Ricinus communis] gi|223528078|gb|EEF30152.1| undecaprenyl diphosphate synthase, putative [Ricinus communis]

 Score = 89.0 bits (219), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 42/61 (68%), Positives = 47/61 (77%)

Query: 37  KEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWL 96
           + K+   +I K VDVEK M+MAVAPDPDI IR+SGETR SNFLLWQ SNC LYSP  LW 
Sbjct: 244 RAKMQSHSIIKQVDVEKPMYMAVAPDPDILIRTSGETRLSNFLLWQASNCPLYSPDVLWP 303

Query: 97  E 97
           E
Sbjct: 304 E 304

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414091091|gb|AFW98427.1| cis-prenyltransferase 3 [Solanum lycopersicum]

 Score = 87.4 bits (215), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 44/91 (48%), Positives = 56/91 (61%), Gaps = 14/91 (15%)

Query: 19  VPDVQEYCEDKLDGSQALKEKIDEDTIKKL--------------VDVEKHMFMAVAPDPD 64
           V  VQE CE+K D  + L    D   + +L               +V++HM+M+V PDPD
Sbjct: 171 VHAVQESCEEKWDEIRKLDVNNDGSNLIRLEENVKDKNEHRIGVTNVDRHMYMSVCPDPD 230

Query: 65  ITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           I IR+SG TR SNFLLWQ+S+C LYSPAALW
Sbjct: 231 IIIRTSGATRLSNFLLWQSSHCLLYSPAALW 261

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255582905|ref|XP_002532224.1| undecaprenyl diphosphate synthase, putative [Ricinus communis] gi|223528081|gb|EEF30155.1| undecaprenyl diphosphate synthase, putative [Ricinus communis]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 40/59 (67%), Positives = 46/59 (77%)

Query: 37  KEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           +EK+   +I K VD+EKHM MAVAPDPDI IR+SGETR SNFLLWQ  +C  YSP ALW
Sbjct: 276 REKMQSHSIIKQVDLEKHMPMAVAPDPDILIRTSGETRLSNFLLWQAGDCQGYSPDALW 334

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	104
TAIR|locus:2053903	295	cPT1 "cis-prenyltransferase 1"	0.490	0.172	0.725	1.1e-14
UNIPROTKB|Q9KPV6	250	uppS "Ditrans,polycis-undecapr	0.673	0.28	0.391	2.1e-08
TIGR_CMR|VC_2256	250	VC_2256 "undecaprenyl diphosph	0.673	0.28	0.391	2.1e-08
TAIR|locus:2175168	271	cPT8 "cis-prenyltransferase 8"	0.548	0.210	0.438	5.9e-08
TAIR|locus:2175183	272	cPT9 "cis-prenyltransferase 9"	0.548	0.209	0.421	9.9e-08
TIGR_CMR|CBU_1382	237	CBU_1382 "undecaprenyl diphosp	0.653	0.286	0.375	1.1e-07
UNIPROTKB|Q47SS3	254	Tfu_0456 "(2Z,6E)-farnesyl dip	0.538	0.220	0.403	1.4e-07
TIGR_CMR|NSE_0944	230	NSE_0944 "undecaprenyl diphosp	0.644	0.291	0.4	1.7e-07
UNIPROTKB|E1C3V5	333	DHDDS "Uncharacterized protein	0.509	0.159	0.472	2e-07
UNIPROTKB|J9P7C8	333	DHDDS "Uncharacterized protein	0.509	0.159	0.490	2e-07

TAIR|locus:2053903 cPT1 "cis-prenyltransferase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 188 (71.2 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 37/51 (72%), Positives = 43/51 (84%)

Query:    47 KLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLE 97
             +LVD+E++M M+VAP+PDI IRSSGETR SNFLLWQT N  L SPAALW E
Sbjct:   218 QLVDIEENMQMSVAPNPDILIRSSGETRLSNFLLWQTGNTQLCSPAALWPE 268

GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=IEA

UNIPROTKB|Q9KPV6 uppS "Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific)" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 131 (51.2 bits), Expect = 2.1e-08, P = 2.1e-08
 Identities = 29/74 (39%), Positives = 43/74 (58%)

Query:    28 DKLDGSQALKEKIDEDTIKKL-VDVE---KHMFMAVAPDPDITIRSSGETRPSNFLLWQT 83
             D L  +QAL EK+ +  ++   +D +   +H+ MA  PD D+ IR+SGE R SNF+LWQ 
Sbjct:   144 DILQATQALAEKVTQGELQPSDIDEDVFKQHLTMADLPDVDLLIRTSGECRISNFMLWQL 203

Query:    84 SNCSLYSPAALWLE 97
             +   +Y     W E
Sbjct:   204 AYAEMYFTPVFWPE 217

GO:0009252 "peptidoglycan biosynthetic process" evidence=ISS

GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=ISS

TIGR_CMR|VC_2256 VC_2256 "undecaprenyl diphosphate synthase" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 131 (51.2 bits), Expect = 2.1e-08, P = 2.1e-08
 Identities = 29/74 (39%), Positives = 43/74 (58%)

Query:    28 DKLDGSQALKEKIDEDTIKKL-VDVE---KHMFMAVAPDPDITIRSSGETRPSNFLLWQT 83
             D L  +QAL EK+ +  ++   +D +   +H+ MA  PD D+ IR+SGE R SNF+LWQ 
Sbjct:   144 DILQATQALAEKVTQGELQPSDIDEDVFKQHLTMADLPDVDLLIRTSGECRISNFMLWQL 203

Query:    84 SNCSLYSPAALWLE 97
             +   +Y     W E
Sbjct:   204 AYAEMYFTPVFWPE 217

GO:0009252 "peptidoglycan biosynthetic process" evidence=ISS

GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=ISS

TAIR|locus:2175168 cPT8 "cis-prenyltransferase 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 5.9e-08, P = 5.9e-08
 Identities = 25/57 (43%), Positives = 36/57 (63%)

Query:    41 DEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLE 97
             D+  + +L DVE+ M+ ++ P PD+ IR+ G  R SNF+ WQTS   L+   ALW E
Sbjct:   188 DDLVLLELSDVEECMYTSIVPVPDLVIRTGGGDRLSNFMTWQTSRSLLHRTEALWPE 244

GO:0009507 "chloroplast" evidence=ISM

GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=IEA

TAIR|locus:2175183 cPT9 "cis-prenyltransferase 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 126 (49.4 bits), Expect = 9.9e-08, P = 9.9e-08
 Identities = 24/57 (42%), Positives = 35/57 (61%)

Query:    41 DEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLE 97
             D  +  +L D+E+ M+ +V P PD+ +R+ G  R SNF+ WQTS   L+   ALW E
Sbjct:   189 DGSSALELSDIEECMYTSVVPVPDLVVRTGGGDRLSNFMTWQTSRALLHRTEALWPE 245

GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=IEA

TIGR_CMR|CBU_1382 CBU_1382 "undecaprenyl diphosphate synthase" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 124 (48.7 bits), Expect = 1.1e-07, P = 1.1e-07
 Identities = 27/72 (37%), Positives = 43/72 (59%)

Query:    28 DKLDGSQALKEKI-DEDTIKKLVDVE---KHMFMAVAPDPDITIRSSGETRPSNFLLWQT 83
             D L   Q + EKI +++   +L+  E    ++ ++  P+PD+ IR+SGE R SNF+LWQ 
Sbjct:   135 DILQAVQRMAEKIKNQELTSELMSAELFQNYLCLSDLPEPDLLIRTSGEQRLSNFMLWQF 194

Query:    84 SNCSLYSPAALW 95
             +   +Y   ALW
Sbjct:   195 AYTEIYFTPALW 206

GO:0008834 "di-trans,poly-cis-decaprenylcistransferase activity" evidence=ISS

GO:0009252 "peptidoglycan biosynthetic process" evidence=ISS

UNIPROTKB|Q47SS3 Tfu_0456 "(2Z,6E)-farnesyl diphosphate synthase" [Thermobifida fusca YX (taxid:269800)]

 Score = 124 (48.7 bits), Expect = 1.4e-07, P = 1.4e-07
 Identities = 25/62 (40%), Positives = 36/62 (58%)

Query:    34 QALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAA 93
             + L E++D D      D+ KH++    PDPD+ IR+SGE R S FLLWQ+++   Y    
Sbjct:   175 EELAERLDLD------DIAKHLYTRGQPDPDLLIRTSGEQRLSGFLLWQSAHSEFYFCEV 228

Query:    94 LW 95
              W
Sbjct:   229 FW 230

GO:0033850 "Z-farnesyl diphosphate synthase activity" evidence=IDA

TIGR_CMR|NSE_0944 NSE_0944 "undecaprenyl diphosphate synthase" [Neorickettsia sennetsu str. Miyayama (taxid:222891)]

 Score = 122 (48.0 bits), Expect = 1.7e-07, P = 1.7e-07
 Identities = 28/70 (40%), Positives = 41/70 (58%)

Query:    35 ALKEKIDEDTIKKLVDVEK---HMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSP 91
             A+   I +    + VDV+K   +++    PDPD+ IR++GE R SNFLLWQ+S   LY  
Sbjct:   143 AVSRMISDGLRAEEVDVQKFASYLYTDGIPDPDLIIRTAGEKRLSNFLLWQSSYSELYFC 202

Query:    92 AALWLEEKKK 101
               LW +  +K
Sbjct:   203 DTLWPDFTEK 212

GO:0008834 "di-trans,poly-cis-decaprenylcistransferase activity" evidence=ISS

GO:0009252 "peptidoglycan biosynthetic process" evidence=ISS

UNIPROTKB|E1C3V5 DHDDS "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 125 (49.1 bits), Expect = 2.0e-07, P = 2.0e-07
 Identities = 26/55 (47%), Positives = 37/55 (67%)

Query:    43 DTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLE 97
             D  + L+D  K ++ + +PDPD+ IR+SGE R S+FLLWQTS+  L   + LW E
Sbjct:   182 DVSESLLD--KCLYTSNSPDPDLLIRTSGEVRLSDFLLWQTSHSCLVFQSVLWPE 234

GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=IEA

UNIPROTKB|J9P7C8 DHDDS "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 125 (49.1 bits), Expect = 2.0e-07, P = 2.0e-07
 Identities = 27/55 (49%), Positives = 35/55 (63%)

Query:    43 DTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLE 97
             D  + L+D  K ++   +P PDI IR+SGE R S+FLLWQTS+C L     LW E
Sbjct:   182 DVSESLLD--KCLYTNHSPHPDILIRTSGEVRLSDFLLWQTSHCCLVFQPVLWPE 234

GO:0016765 "transferase activity, transferring alkyl or aryl (other than methyl) groups" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8S2T1	DDPS6_ARATH	2, ., 5, ., 1, ., -	0.7346	0.4711	0.1661	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.5.1.31	0.737
3rd Layer	2.5.1	0.691

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	gw1.V.3639.1	hypothetical protein (287 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	eugene3.00060040	SubName- Full=Putative uncharacterized protein; (342 aa)						•	•		0.919
	gw1.XV.832.1	hypothetical protein (236 aa)						•			0.899
	gw1.VII.3333.1	annotation not avaliable (311 aa)						•			0.899
	gw1.IV.3487.1	hypothetical protein (293 aa)						•			0.899
	gw1.II.860.1	hypothetical protein (306 aa)						•			0.899
	grail3.0137000601	hypothetical protein (134 aa)						•			0.899
	grail3.0045022601	hypothetical protein (259 aa)						•			0.899
	grail3.0001025501	hypothetical protein (314 aa)						•			0.899
	fgenesh4_pm.C_LG_II001087	hypothetical protein (287 aa)						•			0.899
	estExt_Genewise1_v1.C_570227	hypothetical protein (366 aa)						•			0.899

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	104
pfam01255	222	pfam01255, Prenyltransf, Putative undecaprenyl dip	3e-17
COG0020	245	COG0020, UppS, Undecaprenyl pyrophosphate synthase	8e-15
PRK14830	251	PRK14830, PRK14830, undecaprenyl pyrophosphate syn	7e-14
PRK14836	253	PRK14836, PRK14836, undecaprenyl pyrophosphate syn	2e-13
cd00475	221	cd00475, CIS_IPPS, Cis (Z)-Isoprenyl Diphosphate S	4e-13
TIGR00055	226	TIGR00055, uppS, undecaprenyl diphosphate synthase	1e-12
PRK14828	256	PRK14828, PRK14828, undecaprenyl pyrophosphate syn	3e-11
PRK14831	249	PRK14831, PRK14831, undecaprenyl pyrophosphate syn	6e-11
PRK14832	253	PRK14832, PRK14832, undecaprenyl pyrophosphate syn	8e-11
PRK14835	275	PRK14835, PRK14835, undecaprenyl pyrophosphate syn	4e-10
PRK14841	233	PRK14841, PRK14841, undecaprenyl pyrophosphate syn	5e-10
PRK14834	249	PRK14834, PRK14834, undecaprenyl pyrophosphate syn	3e-09
PRK14842	241	PRK14842, PRK14842, undecaprenyl pyrophosphate syn	7e-09
PRK14840	250	PRK14840, PRK14840, undecaprenyl pyrophosphate syn	2e-08
PRK14838	242	PRK14838, PRK14838, undecaprenyl pyrophosphate syn	2e-08
PRK14829	243	PRK14829, PRK14829, undecaprenyl pyrophosphate syn	5e-08
PRK14827	296	PRK14827, PRK14827, undecaprenyl pyrophosphate syn	8e-07
PRK14833	233	PRK14833, PRK14833, undecaprenyl pyrophosphate syn	9e-07
PRK10240	229	PRK10240, PRK10240, undecaprenyl pyrophosphate syn	2e-06
PRK14837	230	PRK14837, PRK14837, undecaprenyl pyrophosphate syn	4e-06
PRK14839	239	PRK14839, PRK14839, undecaprenyl pyrophosphate syn	2e-05
PTZ00349	322	PTZ00349, PTZ00349, dehydrodolichyl diphosphate sy	5e-05

>gnl|CDD|216392 pfam01255, Prenyltransf, Putative undecaprenyl diphosphate synthase

 Score = 73.0 bits (180), Expect = 3e-17
 Identities = 32/74 (43%), Positives = 43/74 (58%), Gaps = 7/74 (9%)

Query: 22  VQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
           V+    D  DG  +  E IDE+ I      EK+++ +  PDPD+ IR+SGE R SNFLLW
Sbjct: 132 VKRLARDVADGKLS-PEDIDEEVI------EKYLYTSDLPDPDLLIRTSGEKRLSNFLLW 184

Query: 82  QTSNCSLYSPAALW 95
           Q++   LY    LW
Sbjct: 185 QSAYAELYFTDTLW 198

Previously known as uncharacterized protein family UPF0015, a single member of this family has been identified as an undecaprenyl diphosphate synthase. Length = 222

>gnl|CDD|223099 COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid metabolism]

 Score = 66.9 bits (164), Expect = 8e-15
 Identities = 31/74 (41%), Positives = 42/74 (56%), Gaps = 7/74 (9%)

Query: 22  VQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
           V++  ED   G  +  E IDE+ I        H++ +  PDPD+ IR+SGE R SNFLLW
Sbjct: 154 VRKIAEDVAAGKLSP-EDIDEELI------SSHLYTSGLPDPDLLIRTSGEQRLSNFLLW 206

Query: 82  QTSNCSLYSPAALW 95
           Q++   LY    LW
Sbjct: 207 QSAYSELYFTDVLW 220

Length = 245

>gnl|CDD|184840 PRK14830, PRK14830, undecaprenyl pyrophosphate synthase; Provisional

 Score = 64.5 bits (158), Expect = 7e-14
 Identities = 30/74 (40%), Positives = 38/74 (51%), Gaps = 7/74 (9%)

Query: 22  VQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
           V+E  +D LDG     E I E+ I        ++     PDPD+ IR+SGE R SNFLLW
Sbjct: 160 VKEIAKDVLDGKLNP-EDITEELISN------YLMTKGLPDPDLLIRTSGELRLSNFLLW 212

Query: 82  QTSNCSLYSPAALW 95
           Q +    Y    LW
Sbjct: 213 QLAYSEFYFTDVLW 226

Length = 251

>gnl|CDD|237831 PRK14836, PRK14836, undecaprenyl pyrophosphate synthase; Provisional

 Score = 63.6 bits (155), Expect = 2e-13
 Identities = 27/71 (38%), Positives = 39/71 (54%), Gaps = 7/71 (9%)

Query: 27  EDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC 86
            +   G  A  ++IDE        + +H+ +A  P+PD+ IR+SGE R SNFLLWQ +  
Sbjct: 157 REVAAGKLAP-DEIDEAL------LAQHLALADLPEPDLFIRTSGELRISNFLLWQLAYT 209

Query: 87  SLYSPAALWLE 97
            LY    LW +
Sbjct: 210 ELYFTDTLWPD 220

Length = 253

>gnl|CDD|238265 cd00475, CIS_IPPS, Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which 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

 Score = 61.9 bits (151), Expect = 4e-13
 Identities = 32/74 (43%), Positives = 42/74 (56%), Gaps = 7/74 (9%)

Query: 22  VQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
           V+E  E    G +   E IDE T+       KH++   +PDPD+ IR+SGE R SNFLLW
Sbjct: 138 VREIAEKVKAG-KLTPEDIDESTL------NKHLYTHDSPDPDLLIRTSGEQRLSNFLLW 190

Query: 82  QTSNCSLYSPAALW 95
           Q++   LY    LW
Sbjct: 191 QSAYSELYFSDVLW 204

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 peptidooglycan 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 are mechanistically and structurally distinct from trans-IPPS, lacking the DDXXD motifs, yet requiring Mg2+ for activity. Length = 221

>gnl|CDD|129165 TIGR00055, uppS, undecaprenyl diphosphate synthase

 Score = 60.9 bits (148), Expect = 1e-12
 Identities = 26/75 (34%), Positives = 38/75 (50%), Gaps = 6/75 (8%)

Query: 26  CEDKLDGSQAL-----KEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLL 80
             + L   + +       K+  + I +   + KH++ A  P  D+ IR+SGE R SNFLL
Sbjct: 130 RNEILHAVKQIAEKVKSGKLLPEDIDEET-LNKHLYTANLPPVDLLIRTSGEMRISNFLL 188

Query: 81  WQTSNCSLYSPAALW 95
           WQ+S   LY    LW
Sbjct: 189 WQSSYAELYFTDILW 203

This enzyme builds undecaprenyl diphosphate, a molecule that in bacteria is used a carrier in synthesizing cell wall components. Alternate name: undecaprenyl pyrophosphate synthetase. Activity has been demonstrated experimentally for members of this family from Micrococcus luteus, E. coli, Haemophilus influenzae, and Streptococcus pneumoniae [Cell envelope, Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides]. Length = 226

>gnl|CDD|237825 PRK14828, PRK14828, undecaprenyl pyrophosphate synthase; Provisional

 Score = 57.1 bits (138), Expect = 3e-11
 Identities = 22/60 (36%), Positives = 31/60 (51%), Gaps = 6/60 (10%)

Query: 36  LKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           L E +  D I        H++    PDPD+ IR+SGE R S F+LWQ+++   Y     W
Sbjct: 179 LAESVTVDAIST------HLYTGGQPDPDLVIRTSGEQRLSGFMLWQSAHSEYYFCETYW 232

Length = 256

>gnl|CDD|184841 PRK14831, PRK14831, undecaprenyl pyrophosphate synthase; Provisional

 Score = 56.5 bits (137), Expect = 6e-11
 Identities = 24/58 (41%), Positives = 32/58 (55%), Gaps = 6/58 (10%)

Query: 38  EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
            +IDE+        E  ++ A   DPD+ IR+SGE R SNFLLWQ +   +Y    LW
Sbjct: 173 SEIDENLF------ESELYTAGIKDPDLLIRTSGEMRISNFLLWQLAYAEIYVTDVLW 224

Length = 249

>gnl|CDD|237827 PRK14832, PRK14832, undecaprenyl pyrophosphate synthase; Provisional

 Score = 56.2 bits (135), Expect = 8e-11
 Identities = 24/58 (41%), Positives = 34/58 (58%), Gaps = 6/58 (10%)

Query: 38  EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           + ++E        VE+H++ A  P PD+ IR+SGE R SNFLLWQ +   +Y    LW
Sbjct: 171 DAVNEQL------VEQHLYTADTPPPDLLIRTSGEMRLSNFLLWQMAYTEMYFTDILW 222

Length = 253

>gnl|CDD|237830 PRK14835, PRK14835, undecaprenyl pyrophosphate synthase; Provisional

 Score = 54.5 bits (131), Expect = 4e-10
 Identities = 26/82 (31%), Positives = 39/82 (47%), Gaps = 3/82 (3%)

Query: 19  VPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNF 78
           V  V+    +     ++ +E   E T +    +  H++ A  PDPD  IR+SGE R S F
Sbjct: 178 VDAVKSLLLEAAATGKSPEEVAAELTPE---HISAHLYTAGVPDPDFIIRTSGEIRLSGF 234

Query: 79  LLWQTSNCSLYSPAALWLEEKK 100
           LLWQ++    Y     W   +K
Sbjct: 235 LLWQSAYSEYYFCDVYWPGFRK 256

Length = 275

>gnl|CDD|173302 PRK14841, PRK14841, undecaprenyl pyrophosphate synthase; Provisional

 Score = 53.8 bits (129), Expect = 5e-10
 Identities = 28/71 (39%), Positives = 43/71 (60%), Gaps = 6/71 (8%)

Query: 31  DGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYS 90
           D SQ  K ++ E+T ++      ++++   PDPD+ IR+SGE R SNFLLWQ++   LY 
Sbjct: 147 DVSQGKKIELTEETFRQ------YLYLPDVPDPDLIIRTSGEMRLSNFLLWQSAYSELYF 200

Query: 91  PAALWLEEKKK 101
              LW +  K+
Sbjct: 201 FKKLWPDFTKR 211

Length = 233

>gnl|CDD|237829 PRK14834, PRK14834, undecaprenyl pyrophosphate synthase; Provisional

 Score = 51.7 bits (124), Expect = 3e-09
 Identities = 25/58 (43%), Positives = 30/58 (51%), Gaps = 6/58 (10%)

Query: 38  EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
             ID +TI   +D       A  PDPD+ IR+SGE R SNFLLWQ +   L      W
Sbjct: 167 ASIDAETISANLDT------ADIPDPDLIIRTSGEQRLSNFLLWQAAYSELLFVPIHW 218

Length = 249

>gnl|CDD|173303 PRK14842, PRK14842, undecaprenyl pyrophosphate synthase; Provisional

 Score = 50.8 bits (121), Expect = 7e-09
 Identities = 22/61 (36%), Positives = 35/61 (57%)

Query: 37  KEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWL 96
            +K+  +   K  + EK ++ +  P  D+ IR++GE R SNFLLWQ++   LY    LW 
Sbjct: 155 AKKVTLEKPLKEKEFEKFLYTSPLPPVDLLIRTAGEQRLSNFLLWQSAYAELYFTDTLWP 214

Query: 97  E 97
           +
Sbjct: 215 D 215

Length = 241

>gnl|CDD|173301 PRK14840, PRK14840, undecaprenyl pyrophosphate synthase; Provisional

 Score = 49.8 bits (119), Expect = 2e-08
 Identities = 20/35 (57%), Positives = 23/35 (65%)

Query: 61  PDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           PDPD+ IR+ GE R SNFLLWQ +   LY    LW
Sbjct: 192 PDPDLLIRTGGEMRVSNFLLWQIAYTELYVTDVLW 226

Length = 250

>gnl|CDD|184846 PRK14838, PRK14838, undecaprenyl pyrophosphate synthase; Provisional

 Score = 49.1 bits (117), Expect = 2e-08
 Identities = 24/74 (32%), Positives = 35/74 (47%), Gaps = 11/74 (14%)

Query: 22  VQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
                  +L+      E+I E++I +      H+     PDPD+ IR+ GE R SN+LLW
Sbjct: 150 ATLVQNGELN-----PEEITEESISE------HLTTNFMPDPDLLIRTGGEIRLSNYLLW 198

Query: 82  QTSNCSLYSPAALW 95
           Q +   LY     W
Sbjct: 199 QCAYSELYFCDTFW 212

Length = 242

>gnl|CDD|237826 PRK14829, PRK14829, undecaprenyl pyrophosphate synthase; Provisional

 Score = 48.2 bits (115), Expect = 5e-08
 Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 17/76 (22%)

Query: 38  EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSL--------- 88
           +++ E  I        H++    PD D+ +R+SGE R SNFLLWQ++   L         
Sbjct: 167 DRVTEKMISD------HLYNPDMPDVDLFLRTSGEQRTSNFLLWQSAYAELDFVPKLFPD 220

Query: 89  YSPAALW--LEEKKKR 102
           +    LW  ++E   R
Sbjct: 221 FGRDDLWAAIDEYAHR 236

Length = 243

>gnl|CDD|173288 PRK14827, PRK14827, undecaprenyl pyrophosphate synthase; Provisional

 Score = 45.3 bits (107), Expect = 8e-07
 Identities = 22/58 (37%), Positives = 30/58 (51%), Gaps = 6/58 (10%)

Query: 38  EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           E+I E TI +      H+     PD D+ +R+SGE R SNF+LWQ +         LW
Sbjct: 220 ERITESTIAR------HLQRPDIPDVDLFLRTSGEQRSSNFMLWQAAYAEYIFQDKLW 271

Length = 296

>gnl|CDD|237828 PRK14833, PRK14833, undecaprenyl pyrophosphate synthase; Provisional

 Score = 44.8 bits (106), Expect = 9e-07
 Identities = 19/38 (50%), Positives = 24/38 (63%)

Query: 58  AVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           A  P+ D+ IR+ GE R SNFLLWQ+S   L+    LW
Sbjct: 170 ADLPEVDLLIRTGGEMRLSNFLLWQSSYAELFFTPILW 207

Length = 233

>gnl|CDD|182326 PRK10240, PRK10240, undecaprenyl pyrophosphate synthase; Provisional

 Score = 43.8 bits (103), Expect = 2e-06
 Identities = 25/72 (34%), Positives = 38/72 (52%), Gaps = 4/72 (5%)

Query: 28  DKLDGSQALKEKIDEDTIK-KLVDVE---KHMFMAVAPDPDITIRSSGETRPSNFLLWQT 83
           D + G + L E++ +  ++   +D E   +H+ M      D+ IR+ GE R SNFLLWQ 
Sbjct: 126 DIVQGVRQLAEQVQQGNLQPDQIDEEMLNQHICMHELAPVDLVIRTGGEHRISNFLLWQI 185

Query: 84  SNCSLYSPAALW 95
           +   LY    LW
Sbjct: 186 AYAELYFTDVLW 197

Length = 229

>gnl|CDD|173298 PRK14837, PRK14837, undecaprenyl pyrophosphate synthase; Provisional

 Score = 42.9 bits (101), Expect = 4e-06
 Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 6/60 (10%)

Query: 38  EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLE 97
           E ++E+   K +D  +       PD D+ IR+ G+ R SNFLLW+ + C       LW E
Sbjct: 155 ETLNENVFSKFLDNPE------LPDLDLLIRTGGDMRISNFLLWRIAYCEFIFSNVLWPE 208

Length = 230

>gnl|CDD|237832 PRK14839, PRK14839, undecaprenyl pyrophosphate synthase; Provisional

 Score = 40.9 bits (96), Expect = 2e-05
 Identities = 14/36 (38%), Positives = 22/36 (61%)

Query: 60  APDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
             D D+ IR+ GE R S+FLLW+++   L+    +W
Sbjct: 169 GGDVDLLIRTGGEKRLSDFLLWESAYAELHFTDRMW 204

Length = 239

>gnl|CDD|185571 PTZ00349, PTZ00349, dehydrodolichyl diphosphate synthetase; Provisional

 Score = 40.4 bits (94), Expect = 5e-05
 Identities = 19/48 (39%), Positives = 32/48 (66%), Gaps = 1/48 (2%)

Query: 37  KEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTS 84
           K  ++E+ I+ +V+  K +  +  P P+I IR+SGE R S+F+L+Q S
Sbjct: 231 KSFLNEEQIE-IVNYHKKLLTSDLPPPNILIRTSGEKRLSDFMLYQIS 277

Length = 322

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	104
TIGR00055	226	uppS undecaprenyl diphosphate synthase. Alternate	100.0
COG0020	245	UppS Undecaprenyl pyrophosphate synthase [Lipid me	100.0
PRK14832	253	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14842	241	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14838	242	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14836	253	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14837	230	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14831	249	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14830	251	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK10240	229	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14829	243	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14840	250	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14841	233	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14827	296	undecaprenyl pyrophosphate synthase; Provisional	100.0
cd00475	221	CIS_IPPS Cis (Z)-Isoprenyl Diphosphate Synthases (	100.0
PRK14828	256	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14835	275	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14834	249	undecaprenyl pyrophosphate synthase; Provisional	100.0
PRK14833	233	undecaprenyl pyrophosphate synthase; Provisional	100.0
PF01255	223	Prenyltransf: Putative undecaprenyl diphosphate sy	100.0
PRK14839	239	undecaprenyl pyrophosphate synthase; Provisional	100.0
PTZ00349	322	dehydrodolichyl diphosphate synthetase; Provisiona	100.0
KOG1602	271	consensus Cis-prenyltransferase [Lipid transport a	100.0
KOG2818	263	consensus Predicted undecaprenyl diphosphate synth	98.85

>TIGR00055 uppS undecaprenyl diphosphate synthase

Probab=100.00  E-value=2.7e-43  Score=269.15  Aligned_cols=90  Identities=29%  Similarity=0.390  Sum_probs=87.3

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++       +++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       122 nia~~Yggr~EI~~A~~~~~~~~~~g~~~-------~~~i~e~~~~~~L~t~~~pdpDLlIRTsGE~RLSnFLlWQ~aya  194 (226)
T TIGR00055       122 NIAFNYGGRNEILHAVKQIAEKVKSGKLL-------PEDIDEETLNKHLYTANLPPVDLLIRTSGEMRISNFLLWQSSYA  194 (226)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHhCCCC-------hhhCCHHHHHHhhccCCCCCCCEEEeCCCcccccCcHHHHHhce
Confidence            58999999999999999999999999988       78999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       195 El~F~~~lWPdF~~~~l  211 (226)
T TIGR00055       195 ELYFTDILWPDFDPQDF  211 (226)
T ss_pred             EEEECCCCCCcCCHHHH
Confidence            99999999999999875

Alternate name: undecaprenyl pyrophosphate synthetase. Activity has been demonstrated experimentally for members of this family from Micrococcus luteus, E. coli, Haemophilus influenzae, and Streptococcus pneumoniae.

>COG0020 UppS Undecaprenyl pyrophosphate synthase [Lipid metabolism]

Probab=100.00  E-value=1.4e-42  Score=267.82  Aligned_cols=91  Identities=30%  Similarity=0.464  Sum_probs=88.2

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|||++++++++|.++       +++||++.|+++|+++++||||||||||||+|||||||||++||
T Consensus       139 ~~a~nYGGR~eI~~avr~ia~~v~~g~l~-------~~~I~e~~i~~~L~~~~~pdpDLlIRTsGe~RlSnFllWQ~aYs  211 (245)
T COG0020         139 NIAVNYGGRDEIVDAVRKIAEDVAAGKLS-------PEDIDEELISSHLYTSGLPDPDLLIRTSGEQRLSNFLLWQSAYS  211 (245)
T ss_pred             EEeeCCCCHHHHHHHHHHHHHHHHcCCCC-------hHHcCHHHHHHhhcccCCCCCCEEEeCCCcccccccHHHHHHhC
Confidence            58999999999999999999999999999       79999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCcccccC
Q 039384           87 SLYSPAALWLEEKKKRQF  104 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~~  104 (104)
                      ||||+|++||||++.|++
T Consensus       212 ElyF~d~lWPdf~~~d~~  229 (245)
T COG0020         212 ELYFTDVLWPDFRREDLL  229 (245)
T ss_pred             eEEeccccCCCCCHHHHH
Confidence            999999999999998864

>PRK14832 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=5.9e-42  Score=265.42  Aligned_cols=90  Identities=29%  Similarity=0.417  Sum_probs=87.0

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++++|.++       +++|+++.|+++||++++||||||||||||+||||||||||+||
T Consensus       141 nia~~Yggr~EI~~A~k~~~~~v~~g~~~-------~~~i~e~~i~~~L~~~~~Pd~DLlIRTsGE~RLSnFLlWQ~aya  213 (253)
T PRK14832        141 TVAVNYGSRNEITRACRQVAELVQQGKLS-------ADAVNEQLVEQHLYTADTPPPDLLIRTSGEMRLSNFLLWQMAYT  213 (253)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHhCCCC-------hhhCCHHHHHHhhCcCCCCCCCEEEECCCcccccCcHHHHHhhe
Confidence            58999999999999999999999999988       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||+..|+
T Consensus       214 ElyF~~~lWPdf~~~df  230 (253)
T PRK14832        214 EMYFTDILWPDFDRAAF  230 (253)
T ss_pred             EEEECCCCCCcCCHHHH
Confidence            99999999999999876

>PRK14842 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=1.5e-41  Score=261.59  Aligned_cols=91  Identities=30%  Similarity=0.389  Sum_probs=86.0

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.+++      .++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       131 nia~~Yggr~EI~~A~~~~~~~~~~~~~~~------~~~i~e~~~~~~L~t~~~p~pDLlIRTsGE~RLSnFLlWQ~aya  204 (241)
T PRK14842        131 NFCLNYGSHDELLRAAQEVFLARKAKKVTL------EKPLKEKEFEKFLYTSPLPPVDLLIRTAGEQRLSNFLLWQSAYA  204 (241)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCCc------cccCCHHHHHHHhCcCCCCCCCEEEECCCcccccCCHHHHHhce
Confidence            589999999999999999999999998873      24799999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       205 El~F~~~lWPdF~~~dl  221 (241)
T PRK14842        205 ELYFTDTLWPDFDKNSL  221 (241)
T ss_pred             EEEECCCCCccCCHHHH
Confidence            99999999999999875

>PRK14838 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=1.5e-41  Score=261.64  Aligned_cols=90  Identities=26%  Similarity=0.393  Sum_probs=87.1

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++++|.++       +++|+++.|+++||++++||||||||||||+||||||||||+||
T Consensus       131 nia~~Yggr~EI~~A~~~~~~~~~~g~~~-------~~~i~e~~~~~~L~~~~~pd~DLlIRTsGE~RLSnFLlWQ~aya  203 (242)
T PRK14838        131 VLALSYSSRWEITEATRQIATLVQNGELN-------PEEITEESISEHLTTNFMPDPDLLIRTGGEIRLSNYLLWQCAYS  203 (242)
T ss_pred             EEeecCCCHHHHHHHHHHHHHHHHhCCCC-------hhhCCHHHHHHHhccCCCCCCCEEEeCCCCccccCchHHHhcce
Confidence            58999999999999999999999999988       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       204 El~F~~~lWPdf~~~d~  220 (242)
T PRK14838        204 ELYFCDTFWPDFDEEEL  220 (242)
T ss_pred             eEEeCCCCCccCCHHHH
Confidence            99999999999999875

>PRK14836 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=1.2e-41  Score=263.47  Aligned_cols=90  Identities=28%  Similarity=0.402  Sum_probs=87.3

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++       +++||++.|+++||++++||||||||||||+|||||||||++||
T Consensus       137 nla~~YggR~EI~~A~k~l~~~~~~g~l~-------~~~i~e~~i~~~L~~~~~pdpDLlIRTsGE~RLSnFLlWQ~aya  209 (253)
T PRK14836        137 SLAVSYGGRWDIVTAARALAREVAAGKLA-------PDEIDEALLAQHLALADLPEPDLFIRTSGELRISNFLLWQLAYT  209 (253)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHhCCCC-------hHhCCHHHHHHHhccCCCCCCCEEEEcCCcccccCChHHHHhhe
Confidence            58999999999999999999999999998       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       210 ElyF~~~lWPdf~~~d~  226 (253)
T PRK14836        210 ELYFTDTLWPDFDAQEL  226 (253)
T ss_pred             EEEeCCCCCCcCCHHHH
Confidence            99999999999999876

>PRK14837 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=1.7e-41  Score=259.87  Aligned_cols=86  Identities=23%  Similarity=0.312  Sum_probs=81.1

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++    +.++       +++|+++.|+++||++++||||||||||||+||||||||||+||
T Consensus       129 nia~~Yggr~EI~~A~~~~~~----~~~~-------~~~i~e~~~~~~L~~~~~p~~DLlIRTsGE~RLSnFLLWQ~aya  197 (230)
T PRK14837        129 NLAINYGGRNEIVRAVKKFLS----SGLD-------LETLNENVFSKFLDNPELPDLDLLIRTGGDMRISNFLLWRIAYC  197 (230)
T ss_pred             EEEecCCCHHHHHHHHHHHHh----cCCC-------hhhCCHHHHHHhhccCCCCCCCEEEECCCcccccccHHHhhhhe
Confidence            689999999999999999984    4565       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       198 ElyF~d~lWPdF~~~dl  214 (230)
T PRK14837        198 EFIFSNVLWPEYYVNHY  214 (230)
T ss_pred             EEEECCCCCccCCHHHH
Confidence            99999999999999875

>PRK14831 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=2.3e-41  Score=261.37  Aligned_cols=90  Identities=26%  Similarity=0.352  Sum_probs=87.1

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++++|.++       +++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       143 nia~~Yggr~EIv~A~~~l~~~v~~g~l~-------~~~i~e~~~~~~L~t~~~pdpDLlIRTsGE~RLSnFLlWQ~aya  215 (249)
T PRK14831        143 NVCTNYGGRQEIVQAARAIAQQVQQGELD-------PSEIDENLFESELYTAGIKDPDLLIRTSGEMRISNFLLWQLAYA  215 (249)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hHhCCHHHHHHhhccCCCCCCCEEEeCCCCccccCchhhhhhce
Confidence            58999999999999999999999999988       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       216 El~F~~~lWPdf~~~dl  232 (249)
T PRK14831        216 EIYVTDVLWPDFDRDEF  232 (249)
T ss_pred             eEEECCCCCCcCCHHHH
Confidence            99999999999999875

>PRK14830 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=2.9e-41  Score=261.12  Aligned_cols=90  Identities=31%  Similarity=0.433  Sum_probs=87.1

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++       +++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       145 nia~~YggR~EI~~A~~~~~~~v~~g~l~-------~~~I~e~~i~~~L~~~~~pdpDLlIRTsGe~RLSnFLlWQ~aya  217 (251)
T PRK14830        145 NFALNYGGRAEIVSAVKEIAKDVLDGKLN-------PEDITEELISNYLMTKGLPDPDLLIRTSGELRLSNFLLWQLAYS  217 (251)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hHhCCHHHHHHHhCcCCCCCCCEEEeCCCCCcccCChHHHHcce
Confidence            58999999999999999999999999988       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       218 El~F~~~lWPdf~~~d~  234 (251)
T PRK14830        218 EFYFTDVLWPDFDEEEL  234 (251)
T ss_pred             EEEECCCCCCcCCHHHH
Confidence            99999999999999875

>PRK10240 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=5e-41  Score=256.99  Aligned_cols=90  Identities=26%  Similarity=0.347  Sum_probs=87.1

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++       +++|+++.|+++||++++||||||||||||+||||||||||+||
T Consensus       116 nla~~Yggr~EI~~A~~~~~~~v~~g~~~-------~~~i~e~~i~~~L~t~~~pdpDLlIRTsGe~RLSnFLlWQ~aya  188 (229)
T PRK10240        116 NIAANYGGRWDIVQGVRQLAEQVQQGNLQ-------PDQIDEEMLNQHICMHELAPVDLVIRTGGEHRISNFLLWQIAYA  188 (229)
T ss_pred             EEEeccCCHHHHHHHHHHHHHHHHcCCCC-------hhhCCHHHHHHHhccCCCCCCCEEEeCCCcccccCChHHHHhhe
Confidence            58999999999999999999999999988       78999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.++
T Consensus       189 ElyF~~~lWPdf~~~df  205 (229)
T PRK10240        189 ELYFTDVLWPDFDEQDF  205 (229)
T ss_pred             EEEECCCCCCcCCHHHH
Confidence            99999999999998875

>PRK14829 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=4.5e-41  Score=258.92  Aligned_cols=90  Identities=23%  Similarity=0.313  Sum_probs=87.1

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++|+||+||++|++++++++++|.++       +++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       137 nia~~Y~gr~EI~~A~~~~~~~~~~g~~~-------~~~i~e~~i~~~L~~~~~pdpDLlIRTsGe~RLSnFLlWQ~aya  209 (243)
T PRK14829        137 VFCVNYGGRAEIADAAAAIAREVRDGKIS-------GDRVTEKMISDHLYNPDMPDVDLFLRTSGEQRTSNFLLWQSAYA  209 (243)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hHhCCHHHHHHHhccCCCCCCCEEEEcCCcccccCchHHhHhhe
Confidence            58999999999999999999999999988       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       210 El~F~~~lWPdf~~~d~  226 (243)
T PRK14829        210 ELDFVPKLFPDFGRDDL  226 (243)
T ss_pred             EEEeCCCCCCcCCHHHH
Confidence            99999999999999875

>PRK14840 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=7.3e-41  Score=258.94  Aligned_cols=90  Identities=26%  Similarity=0.347  Sum_probs=87.1

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++       +++|+++.|+++|+++++||||||||||||+|||||||||++||
T Consensus       145 nla~~Yggr~EI~~A~~~~~~~v~~~~~~-------~~~i~~~~i~~~L~~~~~pdpDLlIRTsGe~RLSnFLlWQ~aya  217 (250)
T PRK14840        145 VLAINYGGKDELVRAFKKLHQDLANKKIS-------SDDISEELISSYLDTSGLPDPDLLIRTGGEMRVSNFLLWQIAYT  217 (250)
T ss_pred             EEEecCCcHHHHHHHHHHHHHHHHhCCCC-------hhhCCHHHHHHHhccCCCCCCCEEEeCCCCcccccchHHhHhce
Confidence            58999999999999999999999999988       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       218 El~F~~~lWPdf~~~df  234 (250)
T PRK14840        218 ELYVTDVLWPDFTPNDL  234 (250)
T ss_pred             eEEECCCCCCcCCHHHH
Confidence            99999999999999876

>PRK14841 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=9.5e-41  Score=255.99  Aligned_cols=88  Identities=30%  Similarity=0.458  Sum_probs=83.3

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|..         .+|+++.|+++||++++||||||||||||+||||||||||+||
T Consensus       126 nia~~Yggr~EI~~A~~~~~~~~~~~~~---------~~i~~~~~~~~L~~~~~pdpDLlIRTsGE~RLSnFLlWQ~aya  196 (233)
T PRK14841        126 VIAFNYGGRREILDAVESILKDVSQGKK---------IELTEETFRQYLYLPDVPDPDLIIRTSGEMRLSNFLLWQSAYS  196 (233)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCc---------CCCCHHHHHHHhccCCCCCCCEEEeCCCCccccCcHHHHhhce
Confidence            4899999999999999999999988762         4789999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       197 ElyF~~~lWPdf~~~dl  213 (233)
T PRK14841        197 ELYFFKKLWPDFTKRDF  213 (233)
T ss_pred             eEEECCCCCCcCCHHHH
Confidence            99999999999999875

>PRK14827 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=1.1e-40  Score=263.15  Aligned_cols=90  Identities=21%  Similarity=0.337  Sum_probs=87.3

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++       +++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       190 nia~~YgGR~EI~~A~~~i~~~v~~g~l~-------~~~I~e~~i~~~L~t~~~PdpDLlIRTsGE~RLSnFLLWQ~aya  262 (296)
T PRK14827        190 NYCVNYGGRTEITEATREIAREAAAGRLN-------PERITESTIARHLQRPDIPDVDLFLRTSGEQRSSNFMLWQAAYA  262 (296)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hhhccHHHHHHHhccCCCCCCCEEEecCCcccccCchHhhhhhe
Confidence            58999999999999999999999999988       78999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       263 El~F~d~lWPdF~~~dl  279 (296)
T PRK14827        263 EYIFQDKLWPDYDRRDL  279 (296)
T ss_pred             EEEecCCCCccCCHHHH
Confidence            99999999999999875

>cd00475 CIS_IPPS Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which 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

Probab=100.00  E-value=2e-40  Score=252.43  Aligned_cols=90  Identities=30%  Similarity=0.435  Sum_probs=87.0

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++|+||+||++|++++++++.+|.++       +++|+++.|+++|+++++||||||||||||+|||||||||++||
T Consensus       123 ni~~~Y~gr~eI~~a~~~~~~~~~~~~~~-------~~~i~~~~~~~~L~~~~~p~pDLlIRTsGe~RLSnFLlWQ~~ya  195 (221)
T cd00475         123 NVAFNYGGRQEIIHAVREIAEKVKAGKLT-------PEDIDESTLNKHLYTHDSPDPDLLIRTSGEQRLSNFLLWQSAYS  195 (221)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hHhCCHHHHHHhhCcCCCCCCCEEEecCCccccccchHhhHhhe
Confidence            58999999999999999999999999988       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       196 El~F~~~lWPdf~~~~~  212 (221)
T cd00475         196 ELYFSDVLWPDFTFWDF  212 (221)
T ss_pred             eEEECCCCCCcCCHHHH
Confidence            99999999999999875

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 peptidooglycan 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 are mechanistically and structurally distinct from trans-IPPS, lacking the DDXXD motifs, yet requiring Mg2+ for activity.

>PRK14828 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=3.7e-40  Score=255.55  Aligned_cols=94  Identities=23%  Similarity=0.403  Sum_probs=86.5

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++++   +..++|+++.|+++|+++++||||||||||||+|||||||||++||
T Consensus       147 nia~~Yggr~EI~~A~~~~~~~~~~~~~~~~---~~~~~i~e~~i~~~L~~~~~P~pDLlIRTsGE~RLSnFLlWQ~aya  223 (256)
T PRK14828        147 NVAVGYGGRQEIVDAVRSLLTEHKDKGTSID---ELAESVTVDAISTHLYTGGQPDPDLVIRTSGEQRLSGFMLWQSAHS  223 (256)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHhCCCChh---hccccCCHHHHHHHhccCCCCCCCEEEeCCCCCcccCChHHHhhhe
Confidence            4899999999999999999999999988731   2244789999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       224 ElyF~~~lWPdf~~~dl  240 (256)
T PRK14828        224 EYYFCETYWPAFRKVDF  240 (256)
T ss_pred             EEEeCCCCCccCCHHHH
Confidence            99999999999999875

>PRK14835 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=2.5e-40  Score=258.76  Aligned_cols=94  Identities=24%  Similarity=0.339  Sum_probs=85.5

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++++   +..++++++.|+++||++++|+||||||||||+||||||||||+||
T Consensus       166 nia~~Yggr~EI~~A~k~i~~~~~~g~~~~~---~i~~~~~e~~i~~~L~~~~~p~pDLLIRTsGE~RLSnFLLWQsaya  242 (275)
T PRK14835        166 NIAVGYGGREEIVDAVKSLLLEAAATGKSPE---EVAAELTPEHISAHLYTAGVPDPDFIIRTSGEIRLSGFLLWQSAYS  242 (275)
T ss_pred             EEEeccCCHHHHHHHHHHHHHHHHcCCCChH---HhcccCCHHHHHHHhccCCCCCCCEEEecCCCccccCCHHHhhhhe
Confidence            5899999999999999999999999988831   1123458999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       243 ElyF~d~lWPdF~~~d~  259 (275)
T PRK14835        243 EYYFCDVYWPGFRKVDF  259 (275)
T ss_pred             EEEeCCCCCCcCCHHHH
Confidence            99999999999999875

>PRK14834 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=6.1e-40  Score=253.60  Aligned_cols=90  Identities=28%  Similarity=0.372  Sum_probs=87.0

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++       +++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       137 nla~~Yggr~EI~~A~k~~~~~~~~g~~~-------~~dI~e~~i~~~L~~~~~pdpDLLIRTsGe~RLSnFLlWQ~~ya  209 (249)
T PRK14834        137 VIAFNYGSRDEIARAVRRLAREVAEGRLD-------PASIDAETISANLDTADIPDPDLIIRTSGEQRLSNFLLWQAAYS  209 (249)
T ss_pred             EEEeccCCHHHHHHHHHHHHHHHHcCCCC-------hhhCCHHHHHHHhccCCCCCCCEEEEcCCcccccCChHHhHhhe
Confidence            38999999999999999999999999988       78999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       210 ElyF~~~lWPdf~~~d~  226 (249)
T PRK14834        210 ELLFVPIHWPDFDKAAL  226 (249)
T ss_pred             EEEeCCCCCCcCCHHHH
Confidence            99999999999999875

>PRK14833 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=7.8e-40  Score=250.95  Aligned_cols=89  Identities=27%  Similarity=0.333  Sum_probs=80.9

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++... ..       ..+|+++.|+++||++++|+||||||||||+|||||||||++||
T Consensus       127 nia~~Y~gr~EI~~A~~~~~~~~~~~-~~-------~~~i~e~~l~~~L~~~~~p~pDLlIRTsGE~RLSnFLlWQ~aya  198 (233)
T PRK14833        127 VLALNYGSKDEISRAFKKLLESPPSH-IG-------ELESLEEEISNCLDTADLPEVDLLIRTGGEMRLSNFLLWQSSYA  198 (233)
T ss_pred             EEEecCCCHHHHHHHHHHHHHHhhcc-cC-------cccCCHHHHHHHhccCCCCCCCEEEECCCCccccccHHHHHhce
Confidence            58999999999999999999886311 11       24799999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       199 ElyF~~~lWPdf~~~dl  215 (233)
T PRK14833        199 ELFFTPILWPDFTPKDL  215 (233)
T ss_pred             eEEECCCCCCcCCHHHH
Confidence            99999999999999886

>PF01255 Prenyltransf: Putative undecaprenyl diphosphate synthase; InterPro: IPR001441 Synonym(s): Di-trans-poly-cis-undecaprenyl-diphosphate synthase, Undecaprenyl pyrophosphate synthetase, Undecaprenyl pyrophosphate synthase, UPP synthetase Di-trans-poly-cis-decaprenylcistransferase (2

Probab=100.00  E-value=7.8e-40  Score=247.98  Aligned_cols=89  Identities=27%  Similarity=0.386  Sum_probs=76.2

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++.+++|.++       +++||++.|+++|+++++| ||||||||||+||||||||||+||
T Consensus       119 nia~~Yggr~eI~~a~~~~~~~~~~~~~~-------~~~i~~~~i~~~L~~~~~P-pDLlIRtsGe~RLS~FllWq~~y~  190 (223)
T PF01255_consen  119 NIAINYGGRDEIVDAARKLAEEVQSGKLS-------PEDIDEELISSHLYTPDLP-PDLLIRTSGEQRLSNFLLWQSAYA  190 (223)
T ss_dssp             EEEECE-HHHHHHHHHHHHHHHHHTTSSG-------GGG-SHHHHHHTSTTTTS---SEEEEETT--C-TTSSTTTTTT-
T ss_pred             EEEecCCcHHHHHHHHHHhhhhhccCccc-------cccCCHHHHHhhccccCCC-CCEEEEeCCCcccCCCeEEeecCc
Confidence            58999999999999999999999999998       6899999999999999997 999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       191 El~f~~~~WPdf~~~d~  207 (223)
T PF01255_consen  191 ELYFTDTLWPDFSFWDF  207 (223)
T ss_dssp             EEEEESSSGGG--HHHH
T ss_pred             EEEECCCCCccCCHHHH
Confidence            99999999999998875

5.1.31 from EC) (UPP synthetase) generates undecaprenyl pyrophosphate (UPP) from isopentenyl pyrophosphate (IPP) []. This bacterial enzyme is also found in archaebacteria and in a number of uncharacterised proteins including some from yeasts. This entry also matches related enzymes that transfer alkyl groups, such as dehydrodolichyl diphosphate synthase.; GO: 0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups; PDB: 2D2R_B 2DTN_B 1F75_B 1X07_A 2E9D_A 1JP3_A 3QAS_A 1X09_A 1V7U_B 2E9A_A ....

>PRK14839 undecaprenyl pyrophosphate synthase; Provisional

Probab=100.00  E-value=6.6e-39  Score=246.81  Aligned_cols=81  Identities=17%  Similarity=0.218  Sum_probs=76.0

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|+++++        .       +++||++.|+++|+ +++|+||||||||||+||||||||||+||
T Consensus       132 nia~~Yggr~EI~~A~k~~~--------~-------~~~i~e~~~~~~l~-~~~p~~DLlIRTsGE~RLSnFLlWQ~aya  195 (239)
T PRK14839        132 RIAVDYSARDAILAAAAKAL--------G-------PEGLSREAFSDLLT-GDGGDVDLLIRTGGEKRLSDFLLWESAYA  195 (239)
T ss_pred             EEEecCCCHHHHHHHHHHhc--------C-------cccCCHHHHHHHhc-cCCCCCCEEEeCCCccccccchhhhhhhe
Confidence            58999999999999999874        2       57899999999998 78999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       196 el~F~d~lWPdF~~~d~  212 (239)
T PRK14839        196 ELHFTDRMWPDFGADDL  212 (239)
T ss_pred             EEEEccCCCccCCHHHH
Confidence            99999999999999875

>PTZ00349 dehydrodolichyl diphosphate synthetase; Provisional

Probab=100.00  E-value=1.2e-38  Score=253.58  Aligned_cols=97  Identities=23%  Similarity=0.296  Sum_probs=81.2

Q ss_pred             eEEecCCchhHHH----------HHHHHHHHH-------------HhcCCCccccc---------------c--------
Q 039384            7 VQPLKINSLILPV----------PDVQEYCED-------------KLDGSQALKEK---------------I--------   40 (104)
Q Consensus         7 ~~a~~Y~gR~EIv----------~Av~~~~~~-------------v~~g~l~~~~~---------------~--------   40 (104)
                      .+|++||||+||+          +|+++++++             +.+|.+.+.+.               .        
T Consensus       145 nia~~YggR~EI~~~v~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  224 (322)
T PTZ00349        145 NIFFSYTSRNEMSLCKFNPNLYFDTYKNLLEEKKILCGSNILTDPIKEGTFAIPDDEDECDYLDHELENERIDLDLKFDG  224 (322)
T ss_pred             EEEecCCCHHHHHHhhcccchHHHHHHHHHHHhccccccccccccccccccccchhcccccccccccccccccccccccc
Confidence            5899999999999          799999988             45665542100               0        


Q ss_pred             ---------CCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhh-cceeEEeccCCCcCCccccc
Q 039384           41 ---------DEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQT-SNCSLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        41 ---------~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~-~yael~f~~~lWPdf~~~~~  103 (104)
                               -.++.|+++.|.++||++++||||||||||||+|||||||||+ +||||||+++|||||++.++
T Consensus       225 ~~~~~~~~~i~e~~i~~~~~~~~Lyt~~~PdpDLlIRTSGE~RLSNFLLWQ~aaysElyF~d~lWPdF~~~d~  297 (322)
T PTZ00349        225 DCICGEKSFLNEEQIEIVNYHKKLLTSDLPPPNILIRTSGEKRLSDFMLYQISEFTEIYFINEYWPIFNFLQF  297 (322)
T ss_pred             cccccccccCChhhccHHHHHHhccCCCCCCCCEEEECCCcccccccHHhhcccceEEEECCCCCCCCCHHHH
Confidence                     0234566667999999999999999999999999999999999 59999999999999998875

>KOG1602 consensus Cis-prenyltransferase [Lipid transport and metabolism]

Probab=100.00  E-value=3.8e-37  Score=239.01  Aligned_cols=90  Identities=34%  Similarity=0.461  Sum_probs=86.5

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++|+||+||++|||.++..+++|.++        .+|++..++++||+++.|.||||||||||.|||||||||+++|
T Consensus       162 ~vcf~Ytsr~EI~~a~r~~~~~~~~g~~~--------~~i~~~~~e~~l~~~~~p~pDLlIRTSGe~RLSnFllWQ~s~t  233 (271)
T KOG1602|consen  162 NVCFAYTSRDEILHAVRGIVKRVKDGDID--------VDINLSDIEECLYTSDVPHPDLLIRTSGEDRLSNFLLWQTSET  233 (271)
T ss_pred             EEEeccCcHHHHHHHHHHHHHhhhcCCCc--------cchhhHHHHHhhccCCCCCCCEEEEcCCcchHHHHHHHHhccc
Confidence            68999999999999999999999999886        3899999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCcccccC
Q 039384           87 SLYSPAALWLEEKKKRQF  104 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~~  104 (104)
                      +++|.++|||||+..|+|
T Consensus       234 ~l~f~~~LWPefg~~~l~  251 (271)
T KOG1602|consen  234 ELFFADALWPEFGLWHLF  251 (271)
T ss_pred             EEeeccccCccccHHHHH
Confidence            999999999999998865

>KOG2818 consensus Predicted undecaprenyl diphosphate synthase [Lipid transport and metabolism]

Probab=98.85  E-value=6.3e-09  Score=81.56  Aligned_cols=76  Identities=12%  Similarity=0.072  Sum_probs=63.0

Q ss_pred             CCchhHHHHHHHHHHHHHhcCC--CccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcceeEE
Q 039384           12 INSLILPVPDVQEYCEDKLDGS--QALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLY   89 (104)
Q Consensus        12 Y~gR~EIv~Av~~~~~~v~~g~--l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~yael~   89 (104)
                      -+||.-|++.++.+...+....  .+       +.+||.+++++.|-....|+|||+|+.|...-|+||++||++.|||+
T Consensus       162 ~DGr~~i~Dl~r~i~~~~~~~~~~~~-------~~~itve~vds~l~e~~~PePdLll~fg~~~~l~GfpPWhiRltEf~  234 (263)
T KOG2818|consen  162 EDGRMIIIDLTRLIQELCYLYELYRS-------ETDITVETVDSELKEFVEPEPDLLLFFGPVLVLQGFPPWHIRLTEFT  234 (263)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhCC-------CccccHHHHHHHHHhcCCCCcceeeeeccchhhcCCCCceeEEEEeE
Confidence            4799777777777766544332  22       67999999999998888999999999999999999999999999998


Q ss_pred             eccCC
Q 039384           90 SPAAL   94 (104)
Q Consensus        90 f~~~l   94 (104)
                      -.+..
T Consensus       235 ~~p~~  239 (263)
T KOG2818|consen  235 RKPSH  239 (263)
T ss_pred             ecccc
Confidence            77643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	104
2vfw_A	227	Rv1086 Native Length = 227		2e-07
2vg1_A	228	Rv1086 E,E-Farnesyl Diphosphate Complex Length = 22		3e-07
4h8e_A	256	Structure Of S. Aureus Undecaprenyl Diphosphate Syn		3e-06
1f75_A	249	Crystal Structure Of Undecaprenyl Diphosphate Synth		7e-06
1ueh_A	253	E. Coli Undecaprenyl Pyrophosphate Synthase In Comp		9e-06
1x08_A	253	Crystal Structure Of D26a Mutant Upps In Complex Wi		9e-06
2d2r_A	245	Crystal Structure Of Helicobacter Pylori Undecapren		5e-05
1jp3_A	253	Structure Of E.Coli Undecaprenyl Pyrophosphate Synt		6e-05
2vg2_A	284	Rv2361 With Ipp Length = 284		3e-04

>pdb|2VFW|A Chain A, Rv1086 Native Length = 227

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 8/74 (10%)
Query: 30  LDGSQAL--KEKIDEDTIKKLVD------VEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
           +D  +AL  KE  +  T ++LVD      + ++++ +  PDPD+ IR+SGE R S FLLW
Sbjct: 136 VDAVRALLSKELANGATAEELVDAVTVEGISENLYTSGQPDPDLVIRTSGEQRLSGFLLW 195
Query: 82  QTSNCSLYSPAALW 95
           Q++   ++   A W
Sbjct: 196 QSAYSEMWFTEAHW 209

>pdb|2VG1|A Chain A, Rv1086 E,E-Farnesyl Diphosphate Complex Length = 228

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/74 (36%), Positives = 44/74 (59%), Gaps = 8/74 (10%)
Query: 30  LDGSQAL--KEKIDEDTIKKLVD------VEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
           +D  +AL  KE  +  T ++LVD      + ++++ +  PDPD+ IR+SGE R S FLLW
Sbjct: 137 VDAVRALLSKELANGATAEELVDAVTVEGISENLYTSGQPDPDLVIRTSGEQRLSGFLLW 196
Query: 82  QTSNCSLYSPAALW 95
           Q++   ++   A W
Sbjct: 197 QSAYSEMWFTEAHW 210

>pdb|4H8E|A Chain A, Structure Of S. Aureus Undecaprenyl Diphosphate Synthase In Complex With Fpp And Sulfate Length = 256

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 51  VEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           +  H+     PDP++ IR+SGE R SNFL+WQ S         LW
Sbjct: 184 INNHLMTKDYPDPELLIRTSGEQRISNFLIWQVSYSEFIFNQKLW 228

>pdb|1F75|A Chain A, Crystal Structure Of Undecaprenyl Diphosphate Synthase From Micrococcus Luteus B-P 26 Length = 249

Iteration: 1
 Score = 45.4 bits (106), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 19/43 (44%), Positives = 26/43 (60%)
Query: 53  KHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           +++F A  PDP++ IR+SGE R SNFL+WQ S          W
Sbjct: 182 EYLFTANMPDPELLIRTSGEERLSNFLIWQCSYSEFVFIDEFW 224

>pdb|1UEH|A Chain A, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex With Triton X- 100, Magnesium And Sulfate Length = 253

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 38/72 (52%), Gaps = 4/72 (5%)
Query: 28  DKLDGSQALKEKIDEDTIK-KLVDVE---KHMFMAVAPDPDITIRSSGETRPSNFLLWQT 83
           D + G + L EK+ +  ++   +D E   +H+ M      D+ IR+ GE R SNFLLWQ 
Sbjct: 150 DIVQGVRQLAEKVQQGNLQPDQIDEEMLNQHVCMHELAPVDLVIRTGGEHRISNFLLWQI 209
Query: 84  SNCSLYSPAALW 95
           +   LY    LW
Sbjct: 210 AYAELYFTDVLW 221

>pdb|1X08|A Chain A, Crystal Structure Of D26a Mutant Upps In Complex With Mg, Ipp And Fspp Length = 253

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 38/72 (52%), Gaps = 4/72 (5%)
Query: 28  DKLDGSQALKEKIDEDTIK-KLVDVE---KHMFMAVAPDPDITIRSSGETRPSNFLLWQT 83
           D + G + L EK+ +  ++   +D E   +H+ M      D+ IR+ GE R SNFLLWQ 
Sbjct: 150 DIVQGVRQLAEKVQQGNLQPDQIDEEMLNQHVCMHELAPVDLVIRTGGEHRISNFLLWQI 209
Query: 84  SNCSLYSPAALW 95
           +   LY    LW
Sbjct: 210 AYAELYFTDVLW 221

>pdb|2D2R|A Chain A, Crystal Structure Of Helicobacter Pylori Undecaprenyl Pyrophosphate Synthase Length = 245

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 17/35 (48%), Positives = 23/35 (65%)
Query: 61  PDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           P+ D+ +R+ GE R SNFLLWQ+S   L+    LW
Sbjct: 184 PEVDLLLRTGGEMRLSNFLLWQSSYAELFFTPILW 218

>pdb|1JP3|A Chain A, Structure Of E.Coli Undecaprenyl Pyrophosphate Synthase Length = 253

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 28  DKLDGSQALKEKIDEDTIK-KLVDVE---KHMFMAVAPDPDITIRSSGETRPSNFLLWQT 83
           D + G + L EK+ +  ++   +D E   +H+        D+ IR+ GE R SNFLLWQ 
Sbjct: 150 DIVQGVRQLAEKVQQGNLQPDQIDEEXLNQHVCXHELAPVDLVIRTGGEHRISNFLLWQI 209
Query: 84  SNCSLYSPAALW 95
           +   LY    LW
Sbjct: 210 AYAELYFTDVLW 221

>pdb|2VG2|A Chain A, Rv2361 With Ipp Length = 284

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 22/58 (37%), Positives = 30/58 (51%), Gaps = 6/58 (10%)
Query: 38  EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALW 95
           E+I E TI +      H+     PD D+ +R+SGE R SNF+LWQ +         LW
Sbjct: 208 ERITESTIAR------HLQRPDIPDVDLFLRTSGEQRSSNFMLWQAAYAEYIFQDKLW 259

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	104
1f75_A	249	Undecaprenyl pyrophosphate synthetase; parallel be	2e-15
2d2r_A	245	Undecaprenyl pyrophosphate synthase; prenyltransfe	4e-15
3qas_B	253	Undecaprenyl pyrophosphate synthase; alpha-helix,	5e-15
2vg0_A	227	Short-chain Z-isoprenyl diphosphate synthetase; pe	8e-15
2vg3_A	284	Undecaprenyl pyrophosphate synthetase; transferase	9e-15
3ugs_B	225	Undecaprenyl pyrophosphate synthase; niaid, csgid,	3e-13

>1f75_A Undecaprenyl pyrophosphate synthetase; parallel beta sheet, NEW fold for isoprenoid synthase, peptidoglycan synthesis, transferase; 2.20A {Micrococcus luteus} SCOP: c.101.1.1 Length = 249

 Score = 68.3 bits (168), Expect = 2e-15
 Identities = 24/61 (39%), Positives = 34/61 (55%), Gaps = 7/61 (11%)

Query: 22  VQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
           VQ   E    G  +L ++I E          +++F A  PDP++ IR+SGE R SNFL+W
Sbjct: 158 VQLIAERYKSGEISL-DEISETHF------NEYLFTANMPDPELLIRTSGEERLSNFLIW 210

Query: 82  Q 82
           Q
Sbjct: 211 Q 211

>2d2r_A Undecaprenyl pyrophosphate synthase; prenyltransferase, transferase; 1.88A {Helicobacter pylori} PDB: 2dtn_A Length = 245

 Score = 67.1 bits (165), Expect = 4e-15
 Identities = 16/61 (26%), Positives = 24/61 (39%), Gaps = 8/61 (13%)

Query: 22  VQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
            +   E           +  E+ I         +     P+ D+ +R+ GE R SNFLLW
Sbjct: 153 FKSLLESPPSN--ISLLESLENEI------SNRLDTRNLPEVDLLLRTGGEMRLSNFLLW 204

Query: 82  Q 82
           Q
Sbjct: 205 Q 205

>3qas_B Undecaprenyl pyrophosphate synthase; alpha-helix, isoprenoid biosynthesis, transferase; 1.70A {Escherichia coli} PDB: 1jp3_A* 1v7u_A* 1x06_A* 1x07_A* 2e98_A* 2e99_A* 2e9a_A* 2e9c_A* 2e9d_A* 1ueh_A 1x09_A* 1x08_A* Length = 253

 Score = 67.2 bits (165), Expect = 5e-15
 Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 7/61 (11%)

Query: 22  VQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLW 81
           V++  E    G+    ++IDE+ +       +H+ M      D+ IR+ GE R SNFLLW
Sbjct: 155 VRQLAEKVQQGNLQP-DQIDEEML------NQHVCMHELAPVDLVIRTGGEHRISNFLLW 207

Query: 82  Q 82
           Q
Sbjct: 208 Q 208

>2vg0_A Short-chain Z-isoprenyl diphosphate synthetase; peptidoglycan synthesis, cell WALL biogenesis/degradation, secreted, cell shape; HET: GPP; 1.7A {Mycobacterium tuberculosis} PDB: 2vfw_A* 2vg1_A* Length = 227

 Score = 66.0 bits (162), Expect = 8e-15
 Identities = 22/77 (28%), Positives = 40/77 (51%), Gaps = 9/77 (11%)

Query: 22  VQEYCEDKLDG---SQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNF 78
           V+     +L     ++ L + +  + I       ++++ +  PDPD+ IR+SGE R S F
Sbjct: 139 VRALLSKELANGATAEELVDAVTVEGI------SENLYTSGQPDPDLVIRTSGEQRLSGF 192

Query: 79  LLWQTSNCSLYSPAALW 95
           LLWQ++   ++   A W
Sbjct: 193 LLWQSAYSEMWFTEAHW 209

>2vg3_A Undecaprenyl pyrophosphate synthetase; transferase, cell WALL biogenesis/degradation, cell cycle, P transferase; HET: GPP; 1.8A {Mycobacterium tuberculosis} PDB: 2vg2_A* 2vg4_A Length = 284

 Score = 66.5 bits (163), Expect = 9e-15
 Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 6/45 (13%)

Query: 38  EKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQ 82
           E+I E TI       +H+     PD D+ +R+SGE R SNF+LWQ
Sbjct: 208 ERITESTI------ARHLQRPDIPDVDLFLRTSGEQRSSNFMLWQ 246

>3ugs_B Undecaprenyl pyrophosphate synthase; niaid, csgid, structural genomics, center for structural GEN infectious diseases; HET: FFT; 2.46A {Campylobacter jejuni} Length = 225

 Score = 61.7 bits (151), Expect = 3e-13
 Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 8/46 (17%)

Query: 37  KEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQ 82
           K +++E+ +       +++ +    D D+ +R     R SNFLLWQ
Sbjct: 151 KLELNEENL------TQNLDLP--LDVDLMLRVGNAKRLSNFLLWQ 188

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	104
3sgv_B	253	Undecaprenyl pyrophosphate synthase; alpha/beta, t	100.0
4h8e_A	256	Undecaprenyl pyrophosphate synthase; alpha-helix,	100.0
3qas_B	253	Undecaprenyl pyrophosphate synthase; alpha-helix,	100.0
1f75_A	249	Undecaprenyl pyrophosphate synthetase; parallel be	100.0
2vg0_A	227	Short-chain Z-isoprenyl diphosphate synthetase; pe	100.0
2d2r_A	245	Undecaprenyl pyrophosphate synthase; prenyltransfe	100.0
2vg3_A	284	Undecaprenyl pyrophosphate synthetase; transferase	100.0
3ugs_B	225	Undecaprenyl pyrophosphate synthase; niaid, csgid,	100.0

>3sgv_B Undecaprenyl pyrophosphate synthase; alpha/beta, transferase; HET: 2BJ; 1.61A {Escherichia coli} PDB: 1jp3_A* 1v7u_A* 1x06_A* 1x07_A* 2e98_A* 2e99_A* 2e9a_A* 2e9c_A* 2e9d_A* 1ueh_A 3sgt_B* 3qas_B* 3sgx_A* 3sh0_B* 3th8_A* 4h2j_A* 4h2m_A* 4h2o_B* 4h38_A* 4h3a_A* ...

Probab=100.00  E-value=5.1e-44  Score=275.85  Aligned_cols=90  Identities=26%  Similarity=0.343  Sum_probs=87.4

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|+|++++++++|.++       +++||++.|+++||++++||||||||||||+|||||||||++||
T Consensus       140 nia~~YggR~EI~~Avr~ia~~v~~g~l~-------~~~I~e~~i~~~L~t~~~PdpDLlIRTsGE~RLSnFLLWQ~aYs  212 (253)
T 3sgv_B          140 NIAANYGGRWDIVQGVRQLAEKVQQGNLQ-------PDQIDEEMLNQHVCMHELAPVDLVIRTGGEHRISNFLLWQIAYA  212 (253)
T ss_dssp             EEESSCCHHHHHHHHHHHHHHHHHHTSSC-------GGGCCHHHHHTTSTTTTSCCCCEEEEESSCCCCTTSCSGGGTTC
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hhhCCHHHHHHhhcccCCCCCcEEEEecCCCcccCchHHHHcCE
Confidence            68999999999999999999999999998       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       213 ElyFtd~lWPdF~~~dl  229 (253)
T 3sgv_B          213 ELYFTDVLWPDFDEQDF  229 (253)
T ss_dssp             EEEECCSCGGGCCHHHH
T ss_pred             EEEECCCCCccCCHHHH
Confidence            99999999999999875

>4h8e_A Undecaprenyl pyrophosphate synthase; alpha-helix, prenyl transferase, cell WALL biosynthesis, FAR diphosphate binding; HET: FPP; 1.30A {Staphylococcus aureus subsp}

Probab=100.00  E-value=4.3e-44  Score=276.66  Aligned_cols=90  Identities=23%  Similarity=0.406  Sum_probs=87.4

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++++|.++       +++||++.|+++||++++||||||||||||+|||||||||++||
T Consensus       147 nia~~YggR~EI~~Avr~i~~~v~~g~l~-------~~~I~e~~i~~~L~t~~~PdpDLlIRTsGE~RLSnFLLWQ~aYs  219 (256)
T 4h8e_A          147 IFAINYGGRAELVHSIKNMFDELHQQGLN-------SDIIDETYINNHLMTKDYPDPELLIRTSGEQRISNFLIWQVSYS  219 (256)
T ss_dssp             EEEEEECHHHHHHHHHHHHHHHHHHTTCC-------GGGCCHHHHHTTSTTTTSCCCSEEEECSSCCCCTTSSTTTTTTC
T ss_pred             EEEeCCCCHHHHHHHHHHHHHHHHcCCCC-------hhhCCHHHHHHhCCCCCCCCCcEEEEcCCCCcccCchHHHHcCe
Confidence            68999999999999999999999999998       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       220 ElyF~d~lWPdF~~~dl  236 (256)
T 4h8e_A          220 EFIFNQKLWPDFDEDEL  236 (256)
T ss_dssp             EEEECCSCGGGCCHHHH
T ss_pred             EEEECCCCCccCCHHHH
Confidence            99999999999998875

>3qas_B Undecaprenyl pyrophosphate synthase; alpha-helix, isoprenoid biosynthesis, transferase; 1.70A {Escherichia coli} PDB: 1jp3_A* 1v7u_A* 1x06_A* 1x07_A* 2e98_A* 2e99_A* 2e9a_A* 2e9c_A* 2e9d_A* 1ueh_A 1x09_A* 1x08_A*

Probab=100.00  E-value=1e-42  Score=268.45  Aligned_cols=90  Identities=26%  Similarity=0.343  Sum_probs=87.3

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|+|++++++++|.++       +++||++.|+++||++++||||||||||||+|||||||||++||
T Consensus       140 nia~~YgGR~EIv~A~r~l~~~v~~g~l~-------~~~I~e~~i~~~L~t~~~PdpDLlIRTsGe~RLSnFLlWQ~ays  212 (253)
T 3qas_B          140 NIAANYGGRWDIVQGVRQLAEKVQQGNLQ-------PDQIDEEMLNQHVCMHELAPVDLVIRTGGEHRISNFLLWQIAYA  212 (253)
T ss_dssp             EEESSCCHHHHHHHHHHHHHHHHHTTSCC-------GGGCCHHHHHTTSTTTTSCCCCEEEECSSCCCCTTSCSGGGTTC
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hHHCCHHHHHHhhccCCCCCCcEEEEcCCCccccCCchhhhcCE
Confidence            58999999999999999999999999998       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       213 ElyF~~~lWPdF~~~~~  229 (253)
T 3qas_B          213 ELYFTDVLWPDFDEQDF  229 (253)
T ss_dssp             EEEECCSCGGGCCHHHH
T ss_pred             EEEECCCCCCcCCHHHH
Confidence            99999999999998875

>1f75_A Undecaprenyl pyrophosphate synthetase; parallel beta sheet, NEW fold for isoprenoid synthase, peptidoglycan synthesis, transferase; 2.20A {Micrococcus luteus} SCOP: c.101.1.1

Probab=100.00  E-value=1.1e-42  Score=267.54  Aligned_cols=90  Identities=28%  Similarity=0.377  Sum_probs=87.3

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|+|++++++++|.++       +++||++.|+++||++++||||||||||||+|||||||||++||
T Consensus       143 nia~~YggR~eIv~A~r~l~~~v~~g~l~-------~~~I~e~~i~~~L~t~~~PdpDLlIRTsGe~RLSnFLlWQ~ays  215 (249)
T 1f75_A          143 VFALNYGGRKEIISAVQLIAERYKSGEIS-------LDEISETHFNEYLFTANMPDPELLIRTSGEERLSNFLIWQCSYS  215 (249)
T ss_dssp             EEECSCCHHHHHHHHHHHHHHHHHTTSSC-------GGGCSHHHHGGGSTTTTSCCCSEEEECTTCCBCCSCSTTTTTTC
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hHhCCHHHHHHhhccCCCCCCcEEEEcCCCccccCCchhhhhce
Confidence            58999999999999999999999999998       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       216 ElyF~~~lWPdF~~~~~  232 (249)
T 1f75_A          216 EFVFIDEFWPDFNEESL  232 (249)
T ss_dssp             EEEECCSCGGGCCHHHH
T ss_pred             EEEECCCCCCcCCHHHH
Confidence            99999999999999875

>2vg0_A Short-chain Z-isoprenyl diphosphate synthetase; peptidoglycan synthesis, cell WALL biogenesis/degradation, secreted, cell shape; HET: GPP; 1.7A {Mycobacterium tuberculosis} PDB: 2vfw_A* 2vg1_A*

Probab=100.00  E-value=8.1e-43  Score=264.98  Aligned_cols=90  Identities=23%  Similarity=0.393  Sum_probs=87.0

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCC----CCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhh
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTI----KKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQ   82 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~----It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ   82 (104)
                      .+|++||||+||++|+|++++++++|.++       +++    ||++.|+++||++++||||||||||||+|||||||||
T Consensus       124 nia~~YggR~eI~~A~r~l~~~v~~g~l~-------~~~~~~~I~e~~i~~~L~t~~~pdpDLlIRTsGe~RLSnFLlWQ  196 (227)
T 2vg0_A          124 NVAVGYGGRREIVDAVRALLSKELANGAT-------AEELVDAVTVEGISENLYTSGQPDPDLVIRTSGEQRLSGFLLWQ  196 (227)
T ss_dssp             EEEEEECHHHHHHHHHHHHHHHHHHTTCC-------HHHHHHHCCHHHHHHHSTTTTSCCCSEEEECTTCCCCTTTTTTT
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hhHhhccCCHHHHHHhhccCCCCCCcEEEEcCCCccccCcchHH
Confidence            58999999999999999999999999998       678    9999999999999999999999999999999999999


Q ss_pred             hcceeEEeccCCCcCCccccc
Q 039384           83 TSNCSLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        83 ~~yael~f~~~lWPdf~~~~~  103 (104)
                      ++||||||++++||||++.++
T Consensus       197 ~aysElyf~~~lWPdF~~~~~  217 (227)
T 2vg0_A          197 SAYSEMWFTEAHWPAFRHVDF  217 (227)
T ss_dssp             TTTCEEEECSSCGGGCCHHHH
T ss_pred             HcCeEEEECCCCCCCCCHHHH
Confidence            999999999999999999875

>2d2r_A Undecaprenyl pyrophosphate synthase; prenyltransferase, transferase; 1.88A {Helicobacter pylori} PDB: 2dtn_A

Probab=100.00  E-value=2.9e-42  Score=264.78  Aligned_cols=89  Identities=25%  Similarity=0.313  Sum_probs=85.5

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|+|++++++++ .++       +++||++.|+++||++++||||||||||||+|||||||||++||
T Consensus       138 nia~~YggR~EIv~A~r~i~~~v~~-~l~-------~~~I~e~~i~~~L~t~~~PdpDLlIRTsGe~RLSnFLlWQ~ays  209 (245)
T 2d2r_A          138 VLALNYGSKNELSRAFKSLLESPPS-NIS-------LLESLENEISNRLDTRNLPEVDLLLRTGGEMRLSNFLLWQSSYA  209 (245)
T ss_dssp             EEECSCCHHHHHHHHHHHHHHSCCT-TGG-------GCSCCHHHHHTTSTTTTSCCCSEEEECSSCCCCTTSSTTTTTTC
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHh-cCC-------hhhCCHHHHHHHhccCCCCCCcEEEEcCCCccccCCcchhhcce
Confidence            5899999999999999999999888 777       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       210 ElyF~~~lWPdF~~~~~  226 (245)
T 2d2r_A          210 ELFFTPILWPDFTPKDL  226 (245)
T ss_dssp             EEEECCSCGGGCCHHHH
T ss_pred             EEEECCCCCCcCCHHHH
Confidence            99999999999999875

>2vg3_A Undecaprenyl pyrophosphate synthetase; transferase, cell WALL biogenesis/degradation, cell cycle, P transferase; HET: GPP; 1.8A {Mycobacterium tuberculosis} PDB: 2vg2_A* 2vg4_A

Probab=100.00  E-value=5.7e-42  Score=267.91  Aligned_cols=90  Identities=21%  Similarity=0.333  Sum_probs=87.3

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|+|++++++++|.++       +++||++.|+++||++++||||||||||||+|||||||||++||
T Consensus       178 nia~~YgGR~EIv~A~r~la~~v~~g~l~-------~~dI~e~~i~~~L~t~~~PdPDLlIRTsGE~RLSnFLlWQ~aYs  250 (284)
T 2vg3_A          178 NYCVNYGGRTEITEATREIAREVAAGRLN-------PERITESTIARHLQRPDIPDVDLFLRTSGEQRSSNFMLWQAAYA  250 (284)
T ss_dssp             EEEEEECHHHHHHHHHHHHHHHHHTTSSC-------GGGCCHHHHHHHSSSTTCCCCSEEEECTTCCCCTTTTTTTTTTC
T ss_pred             EEEecCCCHHHHHHHHHHHHHHHHcCCCC-------hHHCCHHHHHHHhccCCCCCCcEEEeCCCCccccCCCchhhcce
Confidence            58999999999999999999999999998       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       251 ElyF~d~lWPdF~~~df  267 (284)
T 2vg3_A          251 EYIFQDKLWPDYDRRDL  267 (284)
T ss_dssp             EEEECCSCGGGCCHHHH
T ss_pred             EEEECCCCCCcCCHHHH
Confidence            99999999999999875

>3ugs_B Undecaprenyl pyrophosphate synthase; niaid, csgid, structural genomics, center for structural GEN infectious diseases; HET: FFT; 2.46A {Campylobacter jejuni} SCOP: c.101.1.0

Probab=100.00  E-value=1.4e-40  Score=253.12  Aligned_cols=81  Identities=19%  Similarity=0.231  Sum_probs=76.0

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|+|++   +++|           ++||++.|+++||++  ||||||||||||+|||||||||++||
T Consensus       129 nia~~YggR~EI~~A~~~i---v~~g-----------~~I~e~~i~~~L~t~--PdpDLlIRTsGE~RLSnFLLWQ~aYs  192 (225)
T 3ugs_B          129 NLAISYGARDEIIRAAKRV---IEKK-----------LELNEENLTQNLDLP--LDVDLMLRVGNAKRLSNFLLWQCSYA  192 (225)
T ss_dssp             EEEEEECHHHHHHHHHHHH---HHTT-----------CCCSHHHHHHTSSSC--SCCSEEEEESSCCSCTTSSTTTTTTC
T ss_pred             EEeeCCCCHHHHHHHHHHH---HHhc-----------CcCCHHHHHHhcCCC--CCCCEEEEeCCcccccCcchhhhhce
Confidence            6899999999999999999   4444           479999999999998  99999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       193 ElyF~d~lWPdF~~~~l  209 (225)
T 3ugs_B          193 EIYFSETLFPSLTKREF  209 (225)
T ss_dssp             EEEEECSCSTTCCHHHH
T ss_pred             EEEECCCCCccCCHHHH
Confidence            99999999999998875

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	104
d1f75a_	229	c.101.1.1 (A:) Undecaprenyl diphosphate synthase {	7e-13
d1ueha_	228	c.101.1.1 (A:) Undecaprenyl diphosphate synthase {	1e-11

>d1f75a_ c.101.1.1 (A:) Undecaprenyl diphosphate synthase {Micrococcus luteus [TaxId: 1270]} Length = 229

class: Alpha and beta proteins (a/b)
fold: Undecaprenyl diphosphate synthase
superfamily: Undecaprenyl diphosphate synthase
family: Undecaprenyl diphosphate synthase
domain: Undecaprenyl diphosphate synthase
species: Micrococcus luteus [TaxId: 1270]

 Score = 59.8 bits (144), Expect = 7e-13
 Identities = 19/48 (39%), Positives = 27/48 (56%)

Query: 50  DVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNCSLYSPAALWLE 97
              +++F A  PDP++ IR+SGE R SNFL+WQ S          W +
Sbjct: 166 HFNEYLFTANMPDPELLIRTSGEERLSNFLIWQCSYSEFVFIDEFWPD 213

>d1ueha_ c.101.1.1 (A:) Undecaprenyl diphosphate synthase {Escherichia coli [TaxId: 562]} Length = 228

class: Alpha and beta proteins (a/b)
fold: Undecaprenyl diphosphate synthase
superfamily: Undecaprenyl diphosphate synthase
family: Undecaprenyl diphosphate synthase
domain: Undecaprenyl diphosphate synthase
species: Escherichia coli [TaxId: 562]

 Score = 56.7 bits (136), Expect = 1e-11
 Identities = 23/88 (26%), Positives = 36/88 (40%), Gaps = 1/88 (1%)

Query: 10  LKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRS 69
           L +N               +    +  +  +  D I +   + +H+ M      D+ IR+
Sbjct: 125 LTLNIAANYGGRWDIVQGVRQLAEKVQQGNLQPDQIDE-EMLNQHVCMHELAPVDLVIRT 183

Query: 70  SGETRPSNFLLWQTSNCSLYSPAALWLE 97
            GE R SNFLLWQ +   LY    LW +
Sbjct: 184 GGEHRISNFLLWQIAYAELYFTDVLWPD 211

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	104
d1f75a_	229	Undecaprenyl diphosphate synthase {Micrococcus lut	100.0
d1ueha_	228	Undecaprenyl diphosphate synthase {Escherichia col	100.0

>d1f75a_ c.101.1.1 (A:) Undecaprenyl diphosphate synthase {Micrococcus luteus [TaxId: 1270]}

class: Alpha and beta proteins (a/b)
fold: Undecaprenyl diphosphate synthase
superfamily: Undecaprenyl diphosphate synthase
family: Undecaprenyl diphosphate synthase
domain: Undecaprenyl diphosphate synthase
species: Micrococcus luteus [TaxId: 1270]

Probab=100.00  E-value=1.2e-43  Score=268.06  Aligned_cols=90  Identities=28%  Similarity=0.377  Sum_probs=87.3

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++..|.++       +++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       130 nia~~Yggr~EI~~A~~~i~~~~~~~~~~-------~~~i~e~~~~~~L~t~~~PdpDLlIRTsGe~RLSnFLLWQ~aYs  202 (229)
T d1f75a_         130 VFALNYGGRKEIISAVQLIAERYKSGEIS-------LDEISETHFNEYLFTANMPDPELLIRTSGEERLSNFLIWQCSYS  202 (229)
T ss_dssp             EEECSCCHHHHHHHHHHHHHHHHHTTSSC-------GGGCSHHHHGGGSTTTTSCCCSEEEECTTCCBCCSCSTTTTTTC
T ss_pred             EEeccCcchhhHHHHHHHHHhhhcccccc-------hhhhhHhhHHHhcCCCCCCCcceEEecCCccccccchhhhhcce
Confidence            68999999999999999999999999998       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       203 El~F~d~lWPdf~~~dl  219 (229)
T d1f75a_         203 EFVFIDEFWPDFNEESL  219 (229)
T ss_dssp             EEEECCSCGGGCCHHHH
T ss_pred             EEEECCCCCccCCHHHH
Confidence            99999999999999875

>d1ueha_ c.101.1.1 (A:) Undecaprenyl diphosphate synthase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Undecaprenyl diphosphate synthase
superfamily: Undecaprenyl diphosphate synthase
family: Undecaprenyl diphosphate synthase
domain: Undecaprenyl diphosphate synthase
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.3e-43  Score=267.53  Aligned_cols=90  Identities=26%  Similarity=0.343  Sum_probs=87.4

Q ss_pred             eEEecCCchhHHHHHHHHHHHHHhcCCCccccccCCCCCCCHHHHHhhhhcCCCCCCcEEEeccCCcCCCCcchhhhcce
Q 039384            7 VQPLKINSLILPVPDVQEYCEDKLDGSQALKEKIDEDTIKKLVDVEKHMFMAVAPDPDITIRSSGETRPSNFLLWQTSNC   86 (104)
Q Consensus         7 ~~a~~Y~gR~EIv~Av~~~~~~v~~g~l~~~~~~~~~~~It~~~i~~~L~~~~~PdpDLlIRTSGE~RLSnFLlWQ~~ya   86 (104)
                      .+|++||||+||++|++++++++.+|.++       +++|+++.|+++||++++||||||||||||+|||||||||++||
T Consensus       128 nia~~Yggr~EI~~A~~~~~~~~~~~~~~-------~~~i~~~~~~~~l~~~~~pdpDLlIRTsGe~RLSnFLlWQ~ays  200 (228)
T d1ueha_         128 NIAANYGGRWDIVQGVRQLAEKVQQGNLQ-------PDQIDEEMLNQHVCMHELAPVDLVIRTGGEHRISNFLLWQIAYA  200 (228)
T ss_dssp             EEEESCCHHHHHHHHHHHHHHHHHTTSCC-------GGGCCHHHHHTTSTTTTSCCCCEEEECSSCCSCTTSSCGGGTTC
T ss_pred             EEEeccccchHHHHHHHHHHHHHHhCCCC-------HhHhhhhheecccccCCCCCCcEEEecCCceeccccchhcccce
Confidence            58999999999999999999999999998       68999999999999999999999999999999999999999999


Q ss_pred             eEEeccCCCcCCccccc
Q 039384           87 SLYSPAALWLEEKKKRQ  103 (104)
Q Consensus        87 el~f~~~lWPdf~~~~~  103 (104)
                      ||||++++||||++.|+
T Consensus       201 El~F~d~lWPdf~~~dl  217 (228)
T d1ueha_         201 ELYFTDVLWPDFDEQDF  217 (228)
T ss_dssp             EEEECCSCGGGCCHHHH
T ss_pred             eEEECCCCCCcCCHHHH
Confidence            99999999999999875