Citrus Sinensis ID: 026508

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------
MVLTMAAQSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
ccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccEEEEcEEcccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHcccEEEccEEEEEcccccccccHHHHHHHHHHHHccccccEEEEcccccccccccccHHHHHHHEEEEEEc
ccEEEEccccccccccccccccccccccccccccccccccccccccccccccccHHccccHHHHHHHHHHHcccccccccEEEEEEEEEEEEEEEccEEEccEEEcccEEEcccccccHHHHHHHHHHHHHHccccHHHHcccccHHHccccHHHHHHHHHHHHHHccccEEEEEEEEEccccccHHHHHHHHHHHHHHccccHHHEEEEEEcccccHHHHcccEEEEEEEEEEccc
mvltmaaqsytttplhrkitnkplcppllslkprsltakhlrttqstslprisvsAAATSSievkessasiqpskskslpfrvghgfdlhrlepgypliigginvphergceahsdgdVLLHCVVDAILgalglpdigqifpdsdpkwkgapssvFIKEAVRLMDEAGYEIGNLDATlilqrpklspykETIRTNLSellgadptvvnlkakthekvdslgenrsIAAHTVILLMKK
MVLTMAAQsytttplhrkitnkplcppllsLKPRSLTAKHlrttqstslprisvSAAATSsievkessasiqpskskslpFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNlsellgadptvvNLKAKThekvdslgenrsiaahtVILLMKK
MVLTMAAQSYTTTPLHRKITNkplcppllslkprslTAKHLRTTQSTSLPRISVSAAATSSIEVkessasiqpsksksLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
********************************************************************************FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKA*************SIAAHTVILL***
***T***QSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATSSIEVKESSASI*P*KSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
MVLTMAAQSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSA********************KSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
*VLTMA*QSYTTTPLHRKITNKPLCPPLLSLKPRSLTAK***********RISVSAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MVLTMAAQSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query237 2.2.26 [Sep-21-2011]
Q9M4W3236 2-C-methyl-D-erythritol 2 N/A no 0.970 0.974 0.701 1e-87
Q9CAK8231 2-C-methyl-D-erythritol 2 yes no 0.911 0.935 0.744 2e-87
Q6EPN6222 2-C-methyl-D-erythritol 2 no no 0.827 0.882 0.736 3e-81
B1HNM6158 2-C-methyl-D-erythritol 2 yes no 0.662 0.993 0.509 2e-42
Q2NAE1386 Bifunctional enzyme IspD/ yes no 0.670 0.411 0.477 1e-41
A9VN99158 2-C-methyl-D-erythritol 2 yes no 0.662 0.993 0.496 3e-41
Q6HPT1158 2-C-methyl-D-erythritol 2 yes no 0.662 0.993 0.496 3e-41
Q63HB3158 2-C-methyl-D-erythritol 2 yes no 0.662 0.993 0.496 3e-41
Q81J62158 2-C-methyl-D-erythritol 2 yes no 0.662 0.993 0.496 3e-41
B9IZH1158 2-C-methyl-D-erythritol 2 yes no 0.662 0.993 0.496 3e-41
>sp|Q9M4W3|ISPF_CATRO 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, chloroplastic OS=Catharanthus roseus GN=ISPF PE=2 SV=1 Back     alignment and function desciption
 Score =  322 bits (826), Expect = 1e-87,   Method: Compositional matrix adjust.
 Identities = 169/241 (70%), Positives = 195/241 (80%), Gaps = 11/241 (4%)

Query: 3   LTMAAQSYTTTPLHRKITNKP----LCPPLLSLKPRSLTAKHLR--TTQSTSLPRISVSA 56
           + MA   Y +T +  K TN+     LC P+   K    T  ++R  T QS +L  +  +A
Sbjct: 1   MAMATSFYCSTAIPSKKTNQNRENFLCSPVGGSK---TTPSYIRLSTRQSRTLSLVVSAA 57

Query: 57  AATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSD 116
           A+ +++E +   A++ PSK   L FRVGHGFDLHRLEPGYPLIIGGIN+PH+RGCEAHSD
Sbjct: 58  ASGAAVEAEPKFAAVTPSKI--LSFRVGHGFDLHRLEPGYPLIIGGINIPHDRGCEAHSD 115

Query: 117 GDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDA 176
           GDVLLHCVVDAILGALGLPDIGQIFPD+DPKWKGAPSSVFIKEAVRLMDEAGYE+GNLDA
Sbjct: 116 GDVLLHCVVDAILGALGLPDIGQIFPDTDPKWKGAPSSVFIKEAVRLMDEAGYELGNLDA 175

Query: 177 TLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMK 236
           TLILQRPK+SP+KE IR NL +LLGADP VVNLKAKTHEKVDSLGENRSIAAHTV+LLM+
Sbjct: 176 TLILQRPKVSPHKEAIRQNLCQLLGADPCVVNLKAKTHEKVDSLGENRSIAAHTVVLLMR 235

Query: 237 K 237
           K
Sbjct: 236 K 236
Converts 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate into 2C-methyl-D-erythritol 2,4-cyclodiphosphate and CMP. Also converts 4-diphosphocytidyl-2C-methyl-D-erythritol into 2C-methyl-D-erythritol 3,4-cyclophosphate and CMP.
Catharanthus roseus (taxid: 4058)
EC: 4EC: .EC: 6EC: .EC: 1EC: .EC: 1EC: 2
>sp|Q9CAK8|ISPF_ARATH 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, chloroplastic OS=Arabidopsis thaliana GN=ISPF PE=1 SV=1 Back     alignment and function description
>sp|Q6EPN6|ISPF_ORYSJ 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, chloroplastic OS=Oryza sativa subsp. japonica GN=ISPF PE=2 SV=1 Back     alignment and function description
>sp|B1HNM6|ISPF_LYSSC 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Lysinibacillus sphaericus (strain C3-41) GN=ispF PE=3 SV=1 Back     alignment and function description
>sp|Q2NAE1|ISPDF_ERYLH Bifunctional enzyme IspD/IspF OS=Erythrobacter litoralis (strain HTCC2594) GN=ispDF PE=3 SV=1 Back     alignment and function description
>sp|A9VN99|ISPF_BACWK 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Bacillus weihenstephanensis (strain KBAB4) GN=ispF PE=3 SV=1 Back     alignment and function description
>sp|Q6HPT1|ISPF_BACHK 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Bacillus thuringiensis subsp. konkukian (strain 97-27) GN=ispF PE=3 SV=1 Back     alignment and function description
>sp|Q63HB3|ISPF_BACCZ 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Bacillus cereus (strain ZK / E33L) GN=ispF PE=3 SV=1 Back     alignment and function description
>sp|Q81J62|ISPF_BACCR 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Bacillus cereus (strain ATCC 14579 / DSM 31) GN=ispF PE=3 SV=1 Back     alignment and function description
>sp|B9IZH1|ISPF_BACCQ 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Bacillus cereus (strain Q1) GN=ispF PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query237
152962682237 2-C-methyl-D-erythritol 2,4-cyclodiphosp 1.0 1.0 0.978 1e-130
359904131245 2-C-methyl-D-erythritol 2 [Humulus lupul 0.831 0.804 0.823 2e-91
297836983231 2C-methyl-D-erythritol 2,4-cyclodiphosph 0.898 0.922 0.765 5e-91
118483430233 unknown [Populus trichocarpa] 0.953 0.969 0.719 1e-90
224075014233 predicted protein [Populus trichocarpa] 0.953 0.969 0.719 1e-90
224053853187 predicted protein [Populus trichocarpa] 0.776 0.983 0.860 9e-89
164604998241 2-C-methyl-D-erythritol 2,4-cyclodiphosp 0.801 0.788 0.823 7e-88
164604996237 2-C-methyl-D-erythritol 2,4-cyclodiphosp 0.949 0.949 0.721 1e-87
377648356240 2-C-methyl-D-erythritol 2,4-cyclodiphosp 0.814 0.804 0.8 2e-87
46410856238 putative 2C-methyl-D-erythritol 2,4-cycl 0.801 0.798 0.823 2e-87
>gi|152962682|dbj|BAF73931.1| 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Citrus jambhiri] Back     alignment and taxonomy information
 Score =  470 bits (1210), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 232/237 (97%), Positives = 233/237 (98%)

Query: 1   MVLTMAAQSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATS 60
           MVLTMAAQSYTT PLH KITNKPLCPP LSLKPRSLTAKHLRTTQSTSLPRISVSAAATS
Sbjct: 1   MVLTMAAQSYTTAPLHSKITNKPLCPPPLSLKPRSLTAKHLRTTQSTSLPRISVSAAATS 60

Query: 61  SIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVL 120
           SIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVL
Sbjct: 61  SIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVL 120

Query: 121 LHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLIL 180
           LHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLIL
Sbjct: 121 LHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLIL 180

Query: 181 QRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK 237
           QRPKLSPYKETIRT+LSELLGADP VVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
Sbjct: 181 QRPKLSPYKETIRTSLSELLGADPAVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK 237

Source: Citrus jambhiri

Species: Citrus jambhiri

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359904131|gb|AEV89963.1| 2-C-methyl-D-erythritol 2 [Humulus lupulus] Back     alignment and taxonomy information
>gi|297836983|ref|XP_002886373.1| 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Arabidopsis lyrata subsp. lyrata] gi|297332214|gb|EFH62632.1| 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|118483430|gb|ABK93615.1| unknown [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224075014|ref|XP_002304519.1| predicted protein [Populus trichocarpa] gi|222841951|gb|EEE79498.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224053853|ref|XP_002298012.1| predicted protein [Populus trichocarpa] gi|222845270|gb|EEE82817.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|164604998|dbj|BAF98295.1| 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|164604996|dbj|BAF98294.1| 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Hevea brasiliensis] Back     alignment and taxonomy information
>gi|377648356|gb|AFB70982.1| 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Mitragyna speciosa] Back     alignment and taxonomy information
>gi|46410856|gb|AAS94122.1| putative 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Hevea brasiliensis] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query237
TAIR|locus:2024618231 ISPF "isoprenoid F" [Arabidops 0.814 0.835 0.809 6e-80
TIGR_CMR|BA_0085158 BA_0085 "2C-methyl-D-erythrito 0.662 0.993 0.496 7.8e-39
TIGR_CMR|GSU_3367157 GSU_3367 "2C-methyl-D-erythrit 0.658 0.993 0.487 1.3e-38
TIGR_CMR|SO_3437159 SO_3437 "2C-methyl-D-erythrito 0.670 1.0 0.465 2.4e-35
TIGR_CMR|VC_0529158 VC_0529 "2C-methyl-D-erythrito 0.654 0.981 0.470 2.4e-35
UNIPROTKB|P62617159 ispF "2-C-methyl-D-erythritol 0.654 0.974 0.477 3.1e-35
TIGR_CMR|CPS_1073170 CPS_1073 "2C-methyl-D-erythrit 0.649 0.905 0.448 2e-33
TIGR_CMR|APH_1276168 APH_1276 "2C-methyl-D-erythrit 0.654 0.922 0.465 6.7e-33
TIGR_CMR|SPO_2090377 SPO_2090 "2-C-methyl-D-erythri 0.654 0.411 0.419 1.4e-32
TIGR_CMR|CHY_2341163 CHY_2341 "2C-methyl-D-erythrit 0.637 0.926 0.437 2.6e-31
TAIR|locus:2024618 ISPF "isoprenoid F" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 803 (287.7 bits), Expect = 6.0e-80, P = 6.0e-80
 Identities = 161/199 (80%), Positives = 174/199 (87%)

Query:    42 RTTQSTSL---PRISVSAAATSSIEVXXXXXXXXXXXXXXLPFRVGHGFDLHRLEPGYPL 98
             R  +S SL   P  SVSAA+ S+++V              LPFR+GHGFDLHRLEPGYPL
Sbjct:    36 RPKKSLSLSCRPSASVSAAS-SAVDVNESVTSEKPTKT--LPFRIGHGFDLHRLEPGYPL 92

Query:    99 IIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIK 158
             IIGGI +PH+RGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGA SSVFIK
Sbjct:    93 IIGGIVIPHDRGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAASSVFIK 152

Query:   159 EAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVD 218
             EAVRLMDEAGYEIGNLDATLILQRPK+SP+KETIR+NLS+LLGADP+VVNLKAKTHEKVD
Sbjct:   153 EAVRLMDEAGYEIGNLDATLILQRPKISPHKETIRSNLSKLLGADPSVVNLKAKTHEKVD 212

Query:   219 SLGENRSIAAHTVILLMKK 237
             SLGENRSIAAHTVILLMKK
Sbjct:   213 SLGENRSIAAHTVILLMKK 231
GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=IEA;IGI;ISS
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0016114 "terpenoid biosynthetic process" evidence=IEA
GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=ISS;RCA
GO:0015995 "chlorophyll biosynthetic process" evidence=RCA;IMP
GO:0016117 "carotenoid biosynthetic process" evidence=RCA;IMP
GO:0009570 "chloroplast stroma" evidence=IDA
GO:0006098 "pentose-phosphate shunt" evidence=RCA
GO:0006364 "rRNA processing" evidence=RCA
GO:0006636 "unsaturated fatty acid biosynthetic process" evidence=RCA
GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA
GO:0006744 "ubiquinone biosynthetic process" evidence=RCA
GO:0009073 "aromatic amino acid family biosynthetic process" evidence=RCA
GO:0009637 "response to blue light" evidence=RCA
GO:0009644 "response to high light intensity" evidence=RCA
GO:0009744 "response to sucrose stimulus" evidence=RCA
GO:0009965 "leaf morphogenesis" evidence=RCA
GO:0010027 "thylakoid membrane organization" evidence=RCA
GO:0010114 "response to red light" evidence=RCA
GO:0010155 "regulation of proton transport" evidence=RCA
GO:0010218 "response to far red light" evidence=RCA
GO:0019344 "cysteine biosynthetic process" evidence=RCA
GO:0030154 "cell differentiation" evidence=RCA
GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA
TIGR_CMR|BA_0085 BA_0085 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_3367 GSU_3367 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
TIGR_CMR|SO_3437 SO_3437 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|VC_0529 VC_0529 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
UNIPROTKB|P62617 ispF "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase monomer" [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_1073 CPS_1073 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
TIGR_CMR|APH_1276 APH_1276 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Anaplasma phagocytophilum HZ (taxid:212042)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_2090 SPO_2090 "2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/ 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Ruegeria pomeroyi DSS-3 (taxid:246200)] Back     alignment and assigned GO terms
TIGR_CMR|CHY_2341 CHY_2341 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)] Back     alignment and assigned GO terms

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) ?
Q9M4W3ISPF_CATRO4, ., 6, ., 1, ., 1, 20.70120.97040.9745N/Ano
B1HNM6ISPF_LYSSC4, ., 6, ., 1, ., 1, 20.50950.66240.9936yesno
Q6EPN6ISPF_ORYSJ4, ., 6, ., 1, ., 1, 20.73630.82700.8828nono
Q9CAK8ISPF_ARATH4, ., 6, ., 1, ., 1, 20.74430.91130.9350yesno
Q1IVA8ISPF_KORVE4, ., 6, ., 1, ., 1, 20.50310.64970.9935yesno
Q1LLZ4ISPF_RALME4, ., 6, ., 1, ., 1, 20.50620.66660.9404yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer4.6.10.983
4th Layer4.6.1.120.979

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
fgenesh1_pm.C_scaffold_2000068
annotation not avaliable (231 aa)
(Arabidopsis lyrata)
Predicted Functional Partners:
Al_scaffold_0005_156
annotation not avaliable (300 aa)
••••  • 0.997
fgenesh2_kg.4__628__AT2G26930.1
annotation not avaliable (383 aa)
• •• •• 0.968
scaffold_802953.1
annotation not avaliable (476 aa)
• •• •• 0.967
scaffold_802695.1
annotation not avaliable (741 aa)
  •  •• 0.951
fgenesh2_kg.8__2416__AT5G64050.1
annotation not avaliable (570 aa)
•  •  • 0.919
fgenesh2_kg.7__2759__AT4G15560.1
annotation not avaliable (717 aa)
• •   • 0.876
fgenesh2_kg.3__2369__AT3G21500.2
annotation not avaliable (655 aa)
• •   • 0.874
fgenesh2_kg.7__664__AT4G34350.1
annotation not avaliable (466 aa)
  •   • 0.866
scaffold_601156.1
annotation not avaliable (701 aa)
• •   • 0.797
fgenesh2_kg.7__3525__AT5G38830.1
annotation not avaliable (511 aa)
•     • 0.747

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query237
PLN02862216 PLN02862, PLN02862, 2-C-methyl-D-erythritol 2,4-cy 1e-123
cd00554153 cd00554, MECDP_synthase, MECDP_synthase (2-C-methy 1e-88
pfam02542156 pfam02542, YgbB, YgbB family 4e-87
PRK00084159 PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclod 6e-77
COG0245159 COG0245, IspF, 2C-methyl-D-erythritol 2,4-cyclodip 7e-77
TIGR00151155 TIGR00151, ispF, 2-C-methyl-D-erythritol 2,4-cyclo 3e-73
PRK09382378 PRK09382, ispDF, bifunctional 2-C-methyl-D-erythri 1e-65
>gnl|CDD|178453 PLN02862, PLN02862, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase Back     alignment and domain information 
 Score =  348 bits (893), Expect = e-123
 Identities = 154/223 (69%), Positives = 179/223 (80%), Gaps = 7/223 (3%)

Query: 15  LHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATSSIEVKESSASIQPS 74
                    +         R       + ++S+   R +++AAA+++ EV+ +    + +
Sbjct: 1   ASSAPYAAFVVLSATPSGRR-----RSKASRSSRATRSTITAAASTTAEVENALTPSKAA 55

Query: 75  KSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGL 134
            +  LPFRVGHGFDLHRLEPG PLIIGGI++PH+RGCEAHSDGDVLLHCVVDAILGALGL
Sbjct: 56  PT--LPFRVGHGFDLHRLEPGLPLIIGGIDIPHDRGCEAHSDGDVLLHCVVDAILGALGL 113

Query: 135 PDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRT 194
           PDIGQIFPD+DPKWKGA SSVFIKEAVRLM EAGYEIGNLDATLILQRPKLSP+KE IR+
Sbjct: 114 PDIGQIFPDTDPKWKGADSSVFIKEAVRLMHEAGYEIGNLDATLILQRPKLSPHKEAIRS 173

Query: 195 NLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK 237
           NLS+LLGADP+VVNLKAKTHEKVDSLGENRSIAAHTV+LLMKK
Sbjct: 174 NLSKLLGADPSVVNLKAKTHEKVDSLGENRSIAAHTVVLLMKK 216

Length = 216
>gnl|CDD|100025 cd00554, MECDP_synthase, MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis Back     alignment and domain information
>gnl|CDD|217094 pfam02542, YgbB, YgbB family Back     alignment and domain information
>gnl|CDD|178851 PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed Back     alignment and domain information
>gnl|CDD|223323 COG0245, IspF, 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism] Back     alignment and domain information
>gnl|CDD|129255 TIGR00151, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase Back     alignment and domain information
>gnl|CDD|236492 PRK09382, ispDF, bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 237
PLN02862216 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth 100.0
PRK00084159 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate 100.0
PF02542157 YgbB: YgbB family; InterPro: IPR003526 MECDP (2-C- 100.0
COG0245159 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate s 100.0
TIGR00151155 ispF 2C-methyl-D-erythritol 2,4-cyclodiphosphate s 100.0
cd00554153 MECDP_synthase MECDP_synthase (2-C-methyl-D-erythr 100.0
PRK09382378 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosp 100.0
>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase Back     alignment and domain information 
Probab=100.00  E-value=2.1e-77  Score=524.73  Aligned_cols=181  Identities=83%  Similarity=1.302  Sum_probs=168.9

Q ss_pred             ccccccccccccCcccccCCCCCCCceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCCCChhHHHHHHHHHHHHHhcCC
Q 026508           55 SAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGL  134 (237)
Q Consensus        55 ~~~~~~~~~~~~~~~~~~~~~~~~~~~RIG~G~DvHr~~~gr~LiLGGV~Ip~~~GL~gHSDGDVLlHAI~DALLGA~gl  134 (237)
                      +++++++.+++...  ...+....|+||||+|||+|||++|||||||||+||+++||.||||||||+|||+||||||+|+
T Consensus        36 ~~~~~~~~~~~~~~--~~~~~~~~~~~RvG~G~DvH~~~~gr~LiLGGV~Ip~~~Gl~gHSDgDVllHAi~DALLGA~gl  113 (216)
T PLN02862         36 TAAASTTAEVENAL--TPSKAAPTLPFRVGHGFDLHRLEPGLPLIIGGIDIPHDRGCEAHSDGDVLLHCVVDAILGALGL  113 (216)
T ss_pred             cccccceeeeeccc--CCcccCccCceeEEEeEEccccCCCCcEEEeeEEeCCCCCcCccCHHHHHHHHHHHHHHHHccC
Confidence            34444455554433  5556667788999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcccCCCCCCccCCCCHHHHHHHHHHHHHhCCCeEEEEEEEEEcCCCCCchhHHHHHHHHHHHhCCCCCceeEEeEcC
Q 026508          135 PDIGQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTH  214 (237)
Q Consensus       135 GDIG~~FPdtDp~~Kg~dS~~lL~~v~~ll~~~G~~I~NiD~TIi~q~PKl~p~~~~mr~~La~lL~i~~~~VnIKAtT~  214 (237)
                      ||||+||||+||+|||+||.+||++++++++++||+|+|+|+|||+|+|||+||+++||+||+++|++++++|||||||+
T Consensus       114 GDIG~~FPdtd~~~Kg~~S~~lL~~a~~ll~~~G~~I~NvD~tII~q~PKi~p~~~~m~~~La~lL~i~~~~VnIKAtT~  193 (216)
T PLN02862        114 PDIGQIFPDTDPKWKGADSSVFIKEAVRLMHEAGYEIGNLDATLILQRPKLSPHKEAIRSNLSKLLGADPSVVNLKAKTH  193 (216)
T ss_pred             CcccccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCCcchHHHHHHHHHHHHHhCCCcceEEEEEecC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcccccceEEEEEEEeeeC
Q 026508          215 EKVDSLGENRSIAAHTVILLMKK  237 (237)
Q Consensus       215 E~LG~~Gr~egIaa~Avvll~k~  237 (237)
                      |+|||+||+|||+|+|+|+|+++
T Consensus       194 E~LG~~Gr~egIaa~Avvll~~~  216 (216)
T PLN02862        194 EKVDSLGENRSIAAHTVVLLMKK  216 (216)
T ss_pred             CCCCCCccCCcEEEEEEEEEEeC
Confidence            99999999999999999999875

>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed Back     alignment and domain information
>PF02542 YgbB: YgbB family; InterPro: IPR003526 MECDP (2-C-methyl-D-erythritol 2,4-cyclodiphosphate) synthetase, an enzyme in the non-mevalonate pathway of isoprenoid synthesis, isoprenoids being essential in all organisms Back     alignment and domain information
>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism] Back     alignment and domain information
>TIGR00151 ispF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase Back     alignment and domain information
>cd00554 MECDP_synthase MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis Back     alignment and domain information
>PRK09382 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query237
2pmp_A160 Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphos 5e-86
3f0d_A183 High Resolution Crystal Structure Of 2c-Methyl-D-Er 7e-39
3ike_A166 Crystal Structure Of 2c-Methyl-D-Erythritol 2,4-Cyc 1e-38
1jn1_A158 Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphos 3e-38
1vh8_A170 Crystal Structure Of A 2c-methyl-d-erythritol 2,4-c 2e-37
1t0a_A159 Crystal Structure Of 2c-Methyl-D-Erythritol-2,4-Cyc 1e-36
3f6m_A165 Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4- C 2e-36
3re3_A162 Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4-Cy 3e-34
3ghz_A162 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Syntha 6e-34
1h47_A161 Structures Of Mecp Synthase In Complex With (I) Cmp 1e-33
3elc_A165 Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Cl 1e-33
2gzl_A159 Structure Of 2c-Methyl-D-Erythritol 2,4-Clycodiphos 1e-33
1jy8_A159 2c-methyl-d-erythritol 2,4-cyclodiphosphate Synthas 3e-33
1yqn_A161 E. Coli Ispf Double Mutant Length = 161 9e-33
1gx1_A160 Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphos 1e-32
1knj_A159 Co-Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4 1e-32
1w55_A371 Structure Of The Bifunctional Ispdf From Campylobac 8e-30
1iv1_A152 Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphos 8e-29
1iv2_A152 Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphos 2e-28
3b6n_A187 Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Cy 5e-26
2uzh_A165 Mycobacterium Smegmatis 2c-Methyl-D-Erythritol-2,4- 1e-21
>pdb|2PMP|A Chain A, Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From The Isoprenoid Biosynthetic Pathway Of Arabidopsis Thaliana Length = 160 Back     alignment and structure 
Iteration: 1

 Score =  313 bits (802), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 149/159 (93%), Positives = 157/159 (98%)
Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           LPFR+GHGFDLHRLEPGYPLIIGGI +PH+RGCEAHSDGDVLLHCVVDAILGALGLPDIG
Sbjct: 2   LPFRIGHGFDLHRLEPGYPLIIGGIVIPHDRGCEAHSDGDVLLHCVVDAILGALGLPDIG 61
Query: 139 QIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSE 198
           QIFPDSDPKWKGA SSVFIKEAVRLMDEAGYEIGNLDATLILQRPK+SP+KETIR+NLS+
Sbjct: 62  QIFPDSDPKWKGAASSVFIKEAVRLMDEAGYEIGNLDATLILQRPKISPHKETIRSNLSK 121
Query: 199 LLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK 237
           LLGADP+VVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
Sbjct: 122 LLGADPSVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK 160
>pdb|3F0D|A Chain A, High Resolution Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Cyclodiphosphatase Synthase From Burkholderia Pseudomallei Length = 183 Back     alignment and structure
>pdb|3IKE|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Burkholderia Pseudomallei With Cytosine Length = 166 Back     alignment and structure
>pdb|1JN1|A Chain A, Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Haemophilus Influenzae (Hi0671) Length = 158 Back     alignment and structure
>pdb|1VH8|A Chain A, Crystal Structure Of A 2c-methyl-d-erythritol 2,4-cyclodiphosphate Synthase Length = 170 Back     alignment and structure
>pdb|1T0A|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase From Shewanella Oneidensis Length = 159 Back     alignment and structure
>pdb|3F6M|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase Ispf From Yersinia Pestis Length = 165 Back     alignment and structure
>pdb|3RE3|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Francisella Tularensis Length = 162 Back     alignment and structure
>pdb|3GHZ|A Chain A, 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Salmonella Typhimurium Length = 162 Back     alignment and structure
>pdb|1H47|A Chain A, Structures Of Mecp Synthase In Complex With (I) Cmp And (Ii) Cmp And Product Length = 161 Back     alignment and structure
>pdb|3ELC|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Clycodiphosphate Synthase Complexed With Ligand Length = 165 Back     alignment and structure
>pdb|2GZL|A Chain A, Structure Of 2c-Methyl-D-Erythritol 2,4-Clycodiphosphate Synthase Complexed With A Cdp Derived Fluorescent Inhibitor Length = 159 Back     alignment and structure
>pdb|1JY8|A Chain A, 2c-methyl-d-erythritol 2,4-cyclodiphosphate Synthase (ispf) Length = 159 Back     alignment and structure
>pdb|1YQN|A Chain A, E. Coli Ispf Double Mutant Length = 161 Back     alignment and structure
>pdb|1GX1|A Chain A, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase Length = 160 Back     alignment and structure
>pdb|1KNJ|A Chain A, Co-Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase (Ispf) From E. Coli Involved In Mevalonate-Independent Isoprenoid Biosynthesis, Complexed With CmpMECDPMN2+ Length = 159 Back     alignment and structure
>pdb|1W55|A Chain A, Structure Of The Bifunctional Ispdf From Campylobacter Jejuni Length = 371 Back     alignment and structure
>pdb|1IV1|A Chain A, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase Length = 152 Back     alignment and structure
>pdb|1IV2|A Chain A, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase (Bound Form Cdp) Length = 152 Back     alignment and structure
>pdb|3B6N|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase Pv003920 From Plasmodium Vivax Length = 187 Back     alignment and structure
>pdb|2UZH|A Chain A, Mycobacterium Smegmatis 2c-Methyl-D-Erythritol-2,4- Cyclodiphosphate Synthase (Ispf) Length = 165 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query237
2pmp_A160 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; 4e-92
3f0d_A183 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; 6e-88
1t0a_A159 2C-methyl-D-erythritol 2,4-cyclodiphosphate synth; 1e-87
3re3_A162 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; 1e-86
1gx1_A160 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth 2e-85
1iv3_A152 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth 6e-85
3b6n_A187 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth 9e-79
2uzh_A165 2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha 6e-78
1w55_A371 ISPD/ISPF bifunctional enzyme; biosynthetic pathwa 3e-77
>2pmp_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; plant enzymes, MEP pathway, isoprenoid proteins, CMP, zinc IONS, lyase; HET: C5P; 2.30A {Arabidopsis thaliana} Length = 160 Back     alignment and structure
 Score =  267 bits (684), Expect = 4e-92
 Identities = 149/160 (93%), Positives = 158/160 (98%)

Query: 78  SLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDI 137
           +LPFR+GHGFDLHRLEPGYPLIIGGI +PH+RGCEAHSDGDVLLHCVVDAILGALGLPDI
Sbjct: 1   TLPFRIGHGFDLHRLEPGYPLIIGGIVIPHDRGCEAHSDGDVLLHCVVDAILGALGLPDI 60

Query: 138 GQIFPDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLS 197
           GQIFPDSDPKWKGA SSVFIKEAVRLMDEAGYEIGNLDATLILQRPK+SP+KETIR+NLS
Sbjct: 61  GQIFPDSDPKWKGAASSVFIKEAVRLMDEAGYEIGNLDATLILQRPKISPHKETIRSNLS 120

Query: 198 ELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK 237
           +LLGADP+VVNLKAKTHEKVDSLGENRSIAAHTVILLMKK
Sbjct: 121 KLLGADPSVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK 160
>3f0d_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; ssgcid, niaid, isoprene biosynthe lyase, metal-binding, structural genomics; 1.20A {Burkholderia pseudomallei} PDB: 3f0e_A 3f0f_A* 3f0g_A* 3ieq_A* 3iew_A* 3jvh_A* 3k14_A* 3k2x_A* 3ke1_A* 3mbm_A* 3p0z_A* 3p10_A* 3q8h_A* 3qhd_A* 3ikf_A* 3ike_A* Length = 183 Back     alignment and structure
>1t0a_A 2C-methyl-D-erythritol 2,4-cyclodiphosphate synth; mixed alpha beta, homotrimer, synthase, lyase; HET: FPP; 1.60A {Shewanella oneidensis} SCOP: d.79.5.1 PDB: 1vh8_A* 1vha_A* 1jn1_A 3fpi_A* 3f6m_A* Length = 159 Back     alignment and structure
>3re3_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; structural genomics, center for structural genomics of infec diseases, csgid; 2.65A {Francisella tularensis subsp} Length = 162 Back     alignment and structure
>1gx1_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; isoprenoid, lyase, isoprene biosynthesis; HET: CDP; 1.8A {Escherichia coli} SCOP: d.79.5.1 PDB: 1h47_A* 1h48_A* 3ern_A* 3eor_A* 3elc_A* 3esj_A* 3fba_A* 2amt_A* 1knj_A* 1knk_A 1u3l_A* 1u3p_A 1u40_A* 1u43_A* 1jy8_A* 2gzl_A* 1yqn_A* 3ghz_A* 3t80_A* Length = 160 Back     alignment and structure
>1iv3_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; isoprenoid, non-mevalonate, riken structural genomics/proteomics initiative, RSGI; 1.52A {Thermus thermophilus} SCOP: d.79.5.1 PDB: 1iv2_A 1iv4_A* 1iv1_A Length = 152 Back     alignment and structure
>3b6n_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; malaria isoprenoid biosynthesis and prenylation pathways ISPF; 2.26A {Plasmodium vivax sai-1} Length = 187 Back     alignment and structure
>2uzh_A 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; ISPF, lyase, mycobacteria, complex with CDP; HET: CDP IPE; 2.2A {Mycobacterium smegmatis} Length = 165 Back     alignment and structure
>1w55_A ISPD/ISPF bifunctional enzyme; biosynthetic pathway, isoprenoids, nonmevalonate, transferase; HET: C GPP; 2.3A {Campylobacter jejuni} SCOP: c.68.1.13 d.79.5.1 PDB: 1w57_A* Length = 371 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query237
3re3_A162 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; 100.0
1t0a_A159 2C-methyl-D-erythritol 2,4-cyclodiphosphate synth; 100.0
2pmp_A160 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; 100.0
3f0d_A183 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; 100.0
1gx1_A160 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth 100.0
2uzh_A165 2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha 100.0
1iv3_A152 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth 100.0
3b6n_A187 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth 100.0
1w55_A371 ISPD/ISPF bifunctional enzyme; biosynthetic pathwa 100.0
>3re3_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; structural genomics, center for structural genomics of infec diseases, csgid; 2.65A {Francisella tularensis subsp} SCOP: d.79.5.0 Back     alignment and structure
Probab=100.00  E-value=1e-79  Score=519.15  Aligned_cols=160  Identities=43%  Similarity=0.769  Sum_probs=144.7

Q ss_pred             CCCceeEEeeeeeeecCCCCC-eEEeeeeeCCCCCCCCCChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCccCCCCHHH
Q 026508           77 KSLPFRVGHGFDLHRLEPGYP-LIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSV  155 (237)
Q Consensus        77 ~~~~~RIG~G~DvHr~~~gr~-LiLGGV~Ip~~~GL~gHSDGDVLlHAI~DALLGA~glGDIG~~FPdtDp~~Kg~dS~~  155 (237)
                      ..|+||||+|||+|||++||| ||||||+||+++||.|||||||++||||||||||+++||||+||||+||+|||+||..
T Consensus         2 ~~m~~RiG~G~DvH~~~~gr~~liLgGV~ip~~~Gl~gHSDgDVllHAi~DAlLGA~~lGDIG~~Fpdtdp~~kga~S~~   81 (162)
T 3re3_A            2 NAMSFRIGHGYDVHKFTSAKQNIIIGGVEIAYHLGLEAHSDGDVLIHALCDAILGALGLGDIGKHFLDTDNQFKNIDSKF   81 (162)
T ss_dssp             CCCCEEEEEEEEEEECCCCCCCEEETTEEECCCC------CCCHHHHHHHHHHHHHTTCCCHHHHC-------CCSCHHH
T ss_pred             CcccEEEEceEEeeeecCCCCcEEEeeEEecCCCCCcccCHHHHHHHHHHHHHHHhccCCCCcccCCCCChhhCCCCHHH
Confidence            457899999999999999999 9999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCeEEEEEEEEEcCCCCCchhHHHHHHHHHHHhCCCCCceeEEeEcCCCCCCcccccceEEEEEEEee
Q 026508          156 FIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLM  235 (237)
Q Consensus       156 lL~~v~~ll~~~G~~I~NiD~TIi~q~PKl~p~~~~mr~~La~lL~i~~~~VnIKAtT~E~LG~~Gr~egIaa~Avvll~  235 (237)
                      ||++++++++++||+|+|+|+|||+|+|||+||+++||+|||++|++++++|||||||+|+|||+||+|||+|+|+|||+
T Consensus        82 lL~~~~~~v~~~G~~i~NvD~tii~q~PKl~p~~~~m~~~la~~L~~~~~~V~vKAtT~E~LGf~Gr~EGIaa~Av~ll~  161 (162)
T 3re3_A           82 FLAEIKKMLDKKQYSISNIDCTIIAQAPKMLPHIEKMRACLANILEIQISQINIKATTTERLGFIGREEGIATHVVCLLY  161 (162)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEEEEECSSSCCGGGHHHHHHHHHHHHTSCGGGEEEEEECCSSCHHHHTTSEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHcCCEEEEEEEEEEcCCCcchhHHHHHHHHHHHHHCCCCceEEEEEecCCCcCCCcccceEEEEEEEEEe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             e
Q 026508          236 K  236 (237)
Q Consensus       236 k  236 (237)
                      |
T Consensus       162 ~  162 (162)
T 3re3_A          162 R  162 (162)
T ss_dssp             C
T ss_pred             C
Confidence            6
>1t0a_A 2C-methyl-D-erythritol 2,4-cyclodiphosphate synth; mixed alpha beta, homotrimer, synthase, lyase; HET: FPP; 1.60A {Shewanella oneidensis} SCOP: d.79.5.1 PDB: 1vh8_A* 1vha_A* 1jn1_A 3fpi_A* 3f6m_A* Back     alignment and structure
>2pmp_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; plant enzymes, MEP pathway, isoprenoid proteins, CMP, zinc IONS, lyase; HET: C5P; 2.30A {Arabidopsis thaliana} Back     alignment and structure
>3f0d_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT; ssgcid, niaid, isoprene biosynthe lyase, metal-binding, structural genomics; 1.20A {Burkholderia pseudomallei} PDB: 3f0e_A 3f0f_A* 3f0g_A* 3ieq_A* 3iew_A* 3jvh_A* 3k14_A* 3k2x_A* 3ke1_A* 3mbm_A* 3p0z_A* 3p10_A* 3q8h_A* 3qhd_A* 3ikf_A* 3ike_A* Back     alignment and structure
>1gx1_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; isoprenoid, lyase, isoprene biosynthesis; HET: CDP; 1.8A {Escherichia coli} SCOP: d.79.5.1 PDB: 1h47_A* 1h48_A* 3ern_A* 3eor_A* 3elc_A* 3esj_A* 3fba_A* 2amt_A* 1knj_A* 1knk_A 1u3l_A* 1u3p_A 1u40_A* 1u43_A* 1jy8_A* 2gzl_A* 1yqn_A* 3ghz_A* 3t80_A* Back     alignment and structure
>2uzh_A 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; ISPF, lyase, mycobacteria, complex with CDP; HET: CDP IPE; 2.2A {Mycobacterium smegmatis} Back     alignment and structure
>1iv3_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; isoprenoid, non-mevalonate, riken structural genomics/proteomics initiative, RSGI; 1.52A {Thermus thermophilus} SCOP: d.79.5.1 PDB: 1iv2_A 1iv4_A* 1iv1_A Back     alignment and structure
>3b6n_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; malaria isoprenoid biosynthesis and prenylation pathways ISPF; 2.26A {Plasmodium vivax sai-1} Back     alignment and structure
>1w55_A ISPD/ISPF bifunctional enzyme; biosynthetic pathway, isoprenoids, nonmevalonate, transferase; HET: C GPP; 2.3A {Campylobacter jejuni} SCOP: c.68.1.13 d.79.5.1 PDB: 1w57_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 237
d1gx1a_157 d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiph 9e-59
d1t0aa_158 d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiph 1e-57
d1w55a2163 d.79.5.1 (A:208-370) IspD/ispF bifunctional enzyme 1e-57
d1iv3a_150 d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiph 1e-54
>d1gx1a_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Escherichia coli [TaxId: 562]} Length = 157 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: IpsF-like
family: IpsF-like
domain: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF
species: Escherichia coli [TaxId: 562]

 Score =  180 bits (459), Expect = 9e-59
 Identities = 74/155 (47%), Positives = 101/155 (65%)

Query: 82  RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
           R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG++F
Sbjct: 3   RIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLF 62

Query: 142 PDSDPKWKGAPSSVFIKEAVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLG 201
           PD+DP +KGA S   ++EA R +   GY +GN+D T+I Q PK+ P+   +R  ++E LG
Sbjct: 63  PDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLG 122

Query: 202 ADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMK 236
                VN+KA T EK+   G    IA   V LL+K
Sbjct: 123 CHMDDVNVKATTTEKLGFTGRGEGIACEAVALLIK 157
>d1t0aa_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Shewanella oneidensis [TaxId: 70863]} Length = 158 Back     information, alignment and structure
>d1w55a2 d.79.5.1 (A:208-370) IspD/ispF bifunctional enzyme, MECDP synthase domain {Campylobacter jejuni [TaxId: 197]} Length = 163 Back     information, alignment and structure
>d1iv3a_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Thermus thermophilus [TaxId: 274]} Length = 150 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query237
d1t0aa_158 2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha 100.0
d1gx1a_157 2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha 100.0
d1w55a2163 IspD/ispF bifunctional enzyme, MECDP synthase doma 100.0
d1iv3a_150 2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha 100.0
>d1t0aa_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Shewanella oneidensis [TaxId: 70863]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: IpsF-like
family: IpsF-like
domain: 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF
species: Shewanella oneidensis [TaxId: 70863]

Probab=100.00  E-value=5.3e-76  Score=491.95  Aligned_cols=158  Identities=47%  Similarity=0.784  Sum_probs=156.2

Q ss_pred             ceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCCCChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCccCCCCHHHHHHH
Q 026508           80 PFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE  159 (237)
Q Consensus        80 ~~RIG~G~DvHr~~~gr~LiLGGV~Ip~~~GL~gHSDGDVLlHAI~DALLGA~glGDIG~~FPdtDp~~Kg~dS~~lL~~  159 (237)
                      .||||+|||+|||+++|+|+||||+||+++|++|||||||++||||||||||+++||||+||||+||+|||+||..||++
T Consensus         1 k~RiG~G~D~H~~~~~~~l~LgGv~i~~~~gl~gHSDgDv~~HAi~DAilGA~~~gDIG~~Fp~~d~~~k~~~S~~~L~~   80 (158)
T d1t0aa_           1 KIRIGHGFDVHKFGEPRPLILCGVEVPYETGLVAHSDGDVVLHAISDAILGAMALGDIGKHFPDTDAAYKGADSRVLLRH   80 (158)
T ss_dssp             CEEEEEEEEEEEEEESSCEEETTEEECCSCEECCSSSCCHHHHHHHHHHHHHTTCCCHHHHSCTTCGGGTTCCHHHHHHH
T ss_pred             CceEEEEEEEeeEcCCCCEEEEEEEeCCCCCceEecCccHHHHHHHHHHhhhhhcCcchhhccccchhhccccHHHHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCeEEEEEEEEEcCCCCCchhHHHHHHHHHHHhCCCCCceeEEeEcCCCCCCcccccceEEEEEEEeeeC
Q 026508          160 AVRLMDEAGYEIGNLDATLILQRPKLSPYKETIRTNLSELLGADPTVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK  237 (237)
Q Consensus       160 v~~ll~~~G~~I~NiD~TIi~q~PKl~p~~~~mr~~La~lL~i~~~~VnIKAtT~E~LG~~Gr~egIaa~Avvll~k~  237 (237)
                      ++++++++||+|+|||+|||+|+|||+||+++||+|||++|+++.++|||||||+|+|||+||+|||+|+|+|+|.|+
T Consensus        81 ~~~~~~~~g~~I~NiD~tIi~e~PKi~p~~~~m~~~la~~L~i~~~~IsIKAtT~E~LG~iG~~eGIaa~avvll~k~  158 (158)
T d1t0aa_          81 CYALAKAKGFELGNLDVTIIAQAPKMAPHIEDMRQVLAADLNADVADINVKATTTEKLGFTGRKEGIAVEAVVLLSRQ  158 (158)
T ss_dssp             HHHHHHHTTEEEEEEEEEEECSSSCCGGGHHHHHHHHHHHTTCCGGGEEEEEECCTTCHHHHTTSEEEEEEEEEEEEC
T ss_pred             HHHHHHHcCCEEeeeehhhhhhhhhhhHHHHHHHHHHHHHhCCCcccEEEEEecCCCcccCcCCcEEEEEEEEEEEeC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999985
>d1gx1a_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1w55a2 d.79.5.1 (A:208-370) IspD/ispF bifunctional enzyme, MECDP synthase domain {Campylobacter jejuni [TaxId: 197]} Back     information, alignment and structure
>d1iv3a_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure