YRC Public Data Repository - Protein Structure Prediction

Protein:	RER2
Organism:	Saccharomyces cerevisiae
Length:	286 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for RER2.

Description	E-value	Query Range	Subject Range
RER2 - Cis-prenyltransferase involved in dolichol synthesis; participates in endoplasmic reticulum (ER) pro... RER2_YEAST - Dehydrodolichyl diphosphate syntase complex subunit RER2 OS=Saccharomyces cerevisiae (strain ATCC 20...	3.0E-89	[1..286]	[1..286]
gi\|170714048, gi... - gi\|170714048\|gb\|EDT26230.1\| undecaprenyl diphosphate synthase [Clostridium perfringens CPE str. F496... gi\|110676017, gi... - gi\|110801370\|ref\|YP_696383.1\| undecaprenyl diphosphate synthase [Clostridium perfringens ATCC 13124]... gi\|182380984, gi... - gi\|182380984\|gb\|EDT78463.1\| undecaprenyl diphosphate synthase [Clostridium perfringens NCTC 8239], g... ISPT_CLOPE - Isoprenyl transferase OS=Clostridium perfringens (strain 13 / Type A) GN=uppS PE=3 SV=1 gi\|169299227, gi... - gi\|169342721\|ref\|ZP_02863762.1\| undecaprenyl diphosphate synthase [Clostridium perfringens C str. JG... gi\|177907477, gi... - gi\|182627140\|ref\|ZP_02954855.1\| undecaprenyl diphosphate synthase [Clostridium perfringens D str. JG... gi\|110803535, gi... - gi\|110803535\|ref\|YP_698983.1\| undecaprenyl diphosphate synthase [Clostridium perfringens SM101], gi\|... gi\|168208113, gi... - gi\|170660606\|gb\|EDT13289.1\| undecaprenyl diphosphate synthase [Clostridium perfringens E str. JGS198... UPPS_CLOPE - Undecaprenyl pyrophosphate synthase OS=Clostridium perfringens GN=uppS PE=3 SV=1 gi\|170710581, gi... - gi\|170710581\|gb\|EDT22763.1\| undecaprenyl diphosphate synthase [Clostridium perfringens B str. ATCC 3...	1.0E-86	[30..266]	[22..251]
UPPS_PYRAB - Tritrans,polycis-undecaprenyl-diphosphate synthase (geranylgeranyl-diphosphate specific) OS=Pyrococc... UPPS_PYRAB - Undecaprenyl pyrophosphate synthase OS=Pyrococcus abyssi GN=uppS PE=3 SV=1	2.0E-86	[12..260]	[16..264]
DHDDS - dehydrodolichyl diphosphate synthase	5.0E-86	[24..264]	[18..260]
UPPS_PYRHO - Undecaprenyl pyrophosphate synthase OS=Pyrococcus horikoshii GN=uppS PE=3 SV=1 UPPS_PYRHO - Tritrans,polycis-undecaprenyl-diphosphate synthase (geranylgeranyl-diphosphate specific) OS=Pyrococc...	4.0E-85	[12..260]	[16..264]
ISPT1_NOSS1 - Isoprenyl transferase 1 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=uppS1 PE=3 SV=1 gi\|25314096 - pir\|\|AD2180 undecaprenyl pyrophosphate synthetase [imported] - Nostoc sp. (strain PCC 7120)	5.0E-85	[31..260]	[20..248]
gi\|85674367, gi\|... - gi\|89107054\|ref\|AP_000834.1\| undecaprenyl pyrophosphate synthase [Escherichia coli str. K-12 substr.... gi\|81239712, gi\|... - gi\|82775564\|ref\|YP_401911.1\| undecaprenyl pyrophosphate synthase [Shigella dysenteriae Sd197], gi\|81... gi\|15829430, gi\|... - gi\|15829430\|ref\|NP_308203.1\| undecaprenyl pyrophosphate synthase [Escherichia coli O157:H7 str. Saka... gi\|254037593, gi... - gi\|254037593\|ref\|ZP_04871670.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia sp. 1_1_43],... gi\|110640393, gi... - gi\|110640393\|ref\|YP_668121.1\| undecaprenyl pyrophosphate synthase [Escherichia coli 536], gi\|1103419... gi\|251783732, gi... - gi\|251783732\|ref\|YP_002998036.1\| hypothetical protein B21_00171 [Escherichia coli BL21], gi\|24237600... gi\|254287096, gi... - gi\|254287096\|ref\|YP_003052844.1\| undecaprenyl pyrophosphate synthase [Escherichia coli BL21(DE3)], g... gi\|253972194, gi... - gi\|254160293\|ref\|YP_003043401.1\| undecaprenyl pyrophosphate synthase [Escherichia coli B str. REL606... gi\|254791307, gi... - gi\|254791307\|ref\|YP_003076144.1\| undecaprenyl pyrophosphate synthetase (di-trans,poly-cis-decaprenyl... gi\|91209244, gi\|... - gi\|91209244\|ref\|YP_539230.1\| undecaprenyl pyrophosphate synthase [Escherichia coli UTI89], gi\|910708... gi\|218430525, gi... - gi\|218703428\|ref\|YP_002410947.1\| undecaprenyl pyrophosphate synthase [Escherichia coli UMN026], gi\|2... gi\|218698594, gi... - gi\|218698594\|ref\|YP_002406223.1\| undecaprenyl pyrophosphate synthase [Escherichia coli IAI39], gi\|21... gi\|218693639, gi... - gi\|218693639\|ref\|YP_002401306.1\| undecaprenyl pyrophosphate synthase [Escherichia coli 55989], gi\|21... gi\|218425613, gi... - gi\|218688049\|ref\|YP_002396261.1\| undecaprenyl pyrophosphate synthase [Escherichia coli ED1a], gi\|218... UPPS_ECOL6 - Undecaprenyl pyrophosphate synthase OS=Escherichia coli O6 GN=uppS PE=3 SV=1 UPPS_ECO57 - Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) OS=Escheri... gi\|115511583, gi... - gi\|117622459\|ref\|YP_851372.1\| undecaprenyl pyrophosphate synthase [Escherichia coli APEC O1], gi\|115... gi\|124499758, gi... - gi\|124529602\|ref\|ZP_01700546.1\| undecaprenyl diphosphate synthase [Escherichia coli B], gi\|124499758... gi\|188014574, gi... - gi\|188025157\|ref\|ZP_02776415.2\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|187776344, gi... - gi\|187776344\|ref\|ZP_02802018.2\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|24111609, gi\|... - gi\|24111609\|ref\|NP_706119.1\| undecaprenyl pyrophosphate synthase [Shigella flexneri 2a str. 301], gi... gi\|170681254, gi... - gi\|170681254\|ref\|YP_001742302.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli SMS-3-... gi\|169887645, gi... - gi\|170079810\|ref\|YP_001729130.1\| undecaprenyl pyrophosphate synthase [Escherichia coli str. K-12 sub... gi\|30039973, gi\|... - gi\|30061731\|ref\|NP_835902.1\| undecaprenyl pyrophosphate synthase [Shigella flexneri 2a str. 2457T], ... gi\|189371076, gi... - gi\|189405251\|ref\|ZP_02814290.2\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... UPPS_ECOL6 - Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) OS=Escheri... gi\|189360694, gi... - gi\|189403434\|ref\|ZP_02795359.2\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|15799856, gi\|... - gi\|15799856\|ref\|NP_285868.1\| undecaprenyl pyrophosphate synthase [Escherichia coli O157:H7 EDL933], ... gi\|189357032, gi... - gi\|189402191\|ref\|ZP_02780794.2\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... EG13329 - undecaprenyl pyrophosphate synthase / Undecaprenyl pyrophosphate synthase; dimeric gi\|189000390, gi... - gi\|189010417\|ref\|ZP_02807073.2\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|169756401, gi... - gi\|170021473\|ref\|YP_001726427.1\| undecaprenyl pyrophosphate synthase [Escherichia coli ATCC 8739], g... UPPS_ECOLI - Undecaprenyl pyrophosphate synthetase (EC 2.5.1.31) (UPP synthetase) (Di-trans,poly-cis-decaprenylci... gi\|215485335, gi... - gi\|215485335\|ref\|YP_002327766.1\| undecaprenyl pyrophosphate synthase [Escherichia coli O127:H6 str. ... gi\|209158254, gi... - gi\|209396854\|ref\|YP_002268782.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H... gi\|208818308, gi... - gi\|208818308\|ref\|ZP_03258628.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|208733413, gi... - gi\|208812136\|ref\|ZP_03253465.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|218363884, gi... - gi\|218557115\|ref\|YP_002390028.1\| undecaprenyl pyrophosphate synthase [Escherichia coli S88], gi\|2183... gi\|218552754, gi... - gi\|218552754\|ref\|YP_002385667.1\| undecaprenyl pyrophosphate synthase [Escherichia coli IAI1], gi\|218... gi\|218547629, gi... - gi\|218547629\|ref\|YP_002381420.1\| undecaprenyl pyrophosphate synthase [Escherichia fergusonii ATCC 35... gi\|217326563, gi... - gi\|217326563\|ref\|ZP_03442647.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|192931169, gi... - gi\|193063261\|ref\|ZP_03044352.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli E22], g... gi\|191172816, gi... - gi\|191172816\|ref\|ZP_03034353.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli F11], g... gi\|191166374, gi... - gi\|191166374\|ref\|ZP_03028206.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli B7A], g... gi\|189375226, gi... - gi\|189406338\|ref\|ZP_02827988.2\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|208727355, gi... - gi\|208807554\|ref\|ZP_03249891.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli O157:H7... gi\|227884913, gi... - gi\|227884913\|ref\|ZP_04002718.1\| undecaprenyl pyrophosphate synthase [Escherichia coli 83972], gi\|227... gi\|194421939, gi... - gi\|194439120\|ref\|ZP_03071202.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli 101-1],... gi\|194413701, gi... - gi\|194428326\|ref\|ZP_03060868.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli B171], ... gi\|238899572, gi... - gi\|238899572\|ref\|YP_002925368.1\| undecaprenyl pyrophosphate synthase [Escherichia coli BW2952], gi\|2... gi\|192959043, gi... - gi\|193067631\|ref\|ZP_03048598.1\| di-trans,poly-cis-decaprenylcistransferase [Escherichia coli E110019... gi\|237704333, gi... - gi\|237704333\|ref\|ZP_04534814.1\| undecaprenyl pyrophosphate synthase [Escherichia sp. 3_2_53FAA], gi\|... EG13329 - undecaprenyl pyrophosphate synthase / Undecaprenyl pyrophosphate synthase; dimeric UPPS_SHIFL - Ditrans,polycis-undecaprenyl-diphosphate synthase ((2E,6E)-farnesyl-diphosphate specific) OS=Shigell...	3.0E-84	[21..274]	[9..253]
DHDDS_MOUSE - Dehydrodolichyl diphosphate syntase complex subunit Dhdds OS=Mus musculus GN=Dhdds PE=2 SV=1	3.0E-84	[24..264]	[18..260]
gi\|1552751 - gi\|1552751\|gb\|AAB08603.1\| hypothetical protein [Escherichia coli] gi\|110804226, gi... - gi\|110804226\|ref\|YP_687746.1\| undecaprenyl pyrophosphate synthase [Shigella flexneri 5 str. 8401], g... gi\|83585490 - gi\|83585490\|ref\|ZP_00924135.1\| COG0020: Undecaprenyl pyrophosphate synthase [Escherichia coli 101-1] gi\|253325843, gi... - gi\|253774799\|ref\|YP_003037630.1\| undecaprenyl diphosphate synthase [Escherichia coli BL21(DE3)], gi\|... tr\|A0A0X8U7C9\|A0... - UDP pyrophosphate synthase OS=Escherichia coli (strain K12) GN=C3026_00795 PE=4 SV=1 gi\|157155987, gi... - gi\|75189269\|ref\|ZP_00702536.1\| COG0020: Undecaprenyl pyrophosphate synthase [Escherichia coli E24377... gi\|75194384, gi\|... - gi\|75194384\|ref\|ZP_00704454.1\| COG0020: Undecaprenyl pyrophosphate synthase [Escherichia coli HS], g... gi\|75210497 - gi\|75210497\|ref\|ZP_00710648.1\| COG0020: Undecaprenyl pyrophosphate synthase [Escherichia coli B171] gi\|75230465 - gi\|75230465\|ref\|ZP_00716946.1\| COG0020: Undecaprenyl pyrophosphate synthase [Escherichia coli B7A] gi\|195938144 - gi\|195938144\|ref\|ZP_03083526.1\| undecaprenyl pyrophosphate synthase [Escherichia coli O157:H7 str. E... gi\|75238877 - gi\|75238877\|ref\|ZP_00722859.1\| COG0020: Undecaprenyl pyrophosphate synthase [Escherichia coli E11001... gi\|209917364, gi... - gi\|209917364\|ref\|YP_002291448.1\| undecaprenyl pyrophosphate synthase [Escherichia coli SE11], gi\|209... gi\|75240237 - gi\|75240237\|ref\|ZP_00724184.1\| COG0020: Undecaprenyl pyrophosphate synthase [Escherichia coli F11] gi\|75258835 - gi\|75258835\|ref\|ZP_00730225.1\| COG0020: Undecaprenyl pyrophosphate synthase [Escherichia coli E22]	3.0E-84	[21..274]	[8..252]
UPPS_PYRFU - Tritrans,polycis-undecaprenyl-diphosphate synthase (geranylgeranyl-diphosphate specific) OS=Pyrococc... UPPS_PYRFU - Undecaprenyl pyrophosphate synthase OS=Pyrococcus furiosus GN=uppS PE=3 SV=1	4.0E-84	[12..260]	[16..264]

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Predicted Domain #1

Region A:
Residues: [1-286]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 METDSGIPGH SFVLKWTKNI FSRTLRASNC VPRHVGFIMD GNRRFARKKE MDVKEGHEAG  60
   61 FVSMSRILEL CYEAGVDTAT VFAFSIENFK RSSREVESLM TLARERIRQI TERGELACKY 120
  121 GVRIKIIGDL SLLDKSLLED VRVAVETTKN NKRATLNICF PYTGREEILH AMKETIVQHK 180
  181 KGAAIDESTL ESHLYTAGVP PLDLLIRTSG VSRLSDFLIW QASSKGVRIE LLDCLWPEFG 240
  241 PIRMAWILLK FSFHKSFLNK EYRLEEGDYD EETNGDPIDL KEKKLN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	359.035458
Match:	1jp3A_
Description:	Undecaprenyl diphosphate synthase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
prenyltransferase activity	4.40397054534951	bayes_pls_golite062009
di-trans,poly-cis-decaprenylcistransferase activity	3.07573514495519	bayes_pls_golite062009
transferase activity	1.42376896518855	bayes_pls_golite062009
catalytic activity	0.878978773660153	bayes_pls_golite062009
dehydrodolichyl diphosphate synthase activity	0.761527128946352	bayes_pls_golite062009
binding	0.747530931796963	bayes_pls_golite062009
protein binding	0.746384987072271	bayes_pls_golite062009
transferase activity, transferring alkyl or aryl (other than methyl) groups	0.256467886977999	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: