Citrus Sinensis ID: 029267

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190------
Protein Sequence
MVLTMAAQSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLIYILIYIEIVMGYSNSMIWLQNLWGFHSRG
Secondary Structure (PSIPRED)
cHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccEEEccEEEccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHccEEEcccEEEEEccHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHcccccccccccccccccccccccccccccHcccccccEEccccccccEEccHHHHHHHHHHHcccccccccEEEEEEEEEEEEEEEccEEEccEEEcccEEEcccccccHHHHHHHHHHHHHHccccHHHHcccccHHHccccHHHHHHHHHHHHHcccEEEEccHHHHcccHHHHHHHcccccccc
Coil and Loop (DISEMBL)
mvltmaaqsytttplhrkitnkplcppllslkprsltakhlrttqstslprisvsAAATSSievkessasiqpskskslpfrvghgfdlhrlepgypliigginvphergceahsdgdVLLHCVVDAILgalglpdigqifpdsdpkwkgapssvFIKEAVRFFFLIYILIYIEIVMGYSNSMIWLQNlwgfhsrg
Flexible Loop (DISEMBL)
MVLTMAAQsytttplhrkitnkplcppllsLKPRSLTAKHlrttqstslprisvSAAATSsievkessasiqpskskslpFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLIYILIYIEIVMGYSNSMIWLQNLWGFHSRG
Low Complexity Region (SEG)
MVLTMAAQSYTTTPLHRKITNkplcppllslkprslTAKHLRTTQSTSLPRISVSAAATSSIEVkessasiqpsksksLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRfffliyiliyiEIVMGYSNSMIWLQNLWGFHSRG
Disordered region (IsUnstruct)
********************************************************************************FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLIYILIYIEIVMGYSNSMIWLQNLWGF****
Disordered Region (DISOPRED)
***TM**QSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATSSIEVKESSASI*P*KSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLIYILIYIEIVMGYSNSMIWLQNLWGF****
Disordered Region (DISEMBL)
MVLTMAAQSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSA********************KSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLIYILIYIEIVMGYSNSMIWLQNLWGFHSRG
Disordered Region (DISPRO)
*V**********TPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLIYILIYIEIVMGYSNSMIWLQNLWGFH***
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVLTMAAQSYTTTPLHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSLPRISVSAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLIYILIYIEIVMGYSNSMIWLQNLWGFHSRG
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	196	2.2.26 [Sep-21-2011]
Q9M4W3	236	2-C-methyl-D-erythritol 2	N/A	no	0.801	0.665	0.619	3e-47
Q9CAK8	231	2-C-methyl-D-erythritol 2	yes	no	0.510	0.432	0.833	2e-45
Q6EPN6	222	2-C-methyl-D-erythritol 2	no	no	0.627	0.554	0.656	3e-41
A9II47	162	2-C-methyl-D-erythritol 2	yes	no	0.428	0.518	0.583	9e-25
Q2KUX6	162	2-C-methyl-D-erythritol 2	yes	no	0.428	0.518	0.607	2e-24
Q2NAE1	386	Bifunctional enzyme IspD/	yes	no	0.433	0.220	0.576	3e-23
Q1IVA8	155	2-C-methyl-D-erythritol 2	yes	no	0.418	0.529	0.609	6e-23
Q5NYK0	165	2-C-methyl-D-erythritol 2	yes	no	0.413	0.490	0.580	1e-22
Q63T71	162	2-C-methyl-D-erythritol 2	yes	no	0.413	0.5	0.543	1e-22
A3NAL8	162	2-C-methyl-D-erythritol 2	yes	no	0.413	0.5	0.543	1e-22

>sp|Q9M4W3|ISPF_CATRO 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, chloroplastic OS=Catharanthus roseus GN=ISPF PE=2 SV=1

 Score =  187 bits (476), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 104/168 (61%), Positives = 124/168 (73%), Gaps = 11/168 (6%)

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 GDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFF 164
           GDVLLHCVVDAILGALGLPDIGQIFPD+DPKWKGAPSSVFIKEAVR  
Sbjct: 116 GDVLLHCVVDAILGALGLPDIGQIFPDTDPKWKGAPSSVFIKEAVRLM 163

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

 Score =  181 bits (460), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 85/102 (83%), Positives = 92/102 (90%), Gaps = 2/102 (1%)

Query: 63  EVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLH 122
           +V ES  S +P+K+  LPFR+GHGFDLHRLEPGYPLIIGGI +PH+RGCEAHSDGDVLLH
Sbjct: 59  DVNESVTSEKPTKT--LPFRIGHGFDLHRLEPGYPLIIGGIVIPHDRGCEAHSDGDVLLH 116

Query: 123 CVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFF 164
           CVVDAILGALGLPDIGQIFPDSDPKWKGA SSVFIKEAVR  
Sbjct: 117 CVVDAILGALGLPDIGQIFPDSDPKWKGAASSVFIKEAVRLM 158

Enzyme of the plastid non-mevalonate pathway for isoprenoid biosynthesis that 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. Is essential for chloroplast development.

Arabidopsis thaliana (taxid: 3702)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>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

 Score =  168 bits (425), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 84/128 (65%), Positives = 100/128 (78%), Gaps = 5/128 (3%)

Query: 42  RTTQSTSLPRISV-----SAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGY 96
           R+T S S  R S+     S  A ++++ +   A     K  +LPFRVGHGFDLHRLEPG 
Sbjct: 22  RSTPSASPARPSLRLRRPSTLAAAAVQAEHQPAVAAAPKPPALPFRVGHGFDLHRLEPGL 81

Query: 97  PLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVF 156
           PLIIGGI++PH+RGC+AHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDP+WKGA SSVF
Sbjct: 82  PLIIGGIDIPHDRGCDAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPRWKGADSSVF 141

Query: 157 IKEAVRFF 164
           ++EAV+  
Sbjct: 142 MREAVKLM 149

Enzyme of the plastid non-mevalonate pathway for isoprenoid biosynthesis that 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. Is essential for chloroplast development.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|A9II47|ISPF_BORPD 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Bordetella petrii (strain ATCC BAA-461 / DSM 12804 / CCUG 43448) GN=ispF PE=3 SV=1

 Score =  113 bits (282), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 49/84 (58%), Positives = 64/84 (76%)

Query: 78  SLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDI 137
           ++PFRVG G+D+H L  G PLIIGG+ +PH  G + HSD DVLLH V DA+LGA GL DI
Sbjct: 2   NVPFRVGQGYDVHALVAGRPLIIGGVTIPHTHGLQGHSDADVLLHAVTDALLGAAGLGDI 61

Query: 138 GQIFPDSDPKWKGAPSSVFIKEAV 161
           G+ FPD+DP ++GA S V +++AV
Sbjct: 62  GRHFPDTDPAYRGADSRVLLRDAV 85

Converts 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MECDP) and CMP.

Bordetella petrii (strain ATCC BAA-461 / DSM 12804 / CCUG 43448) (taxid: 340100)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q2KUX6|ISPF_BORA1 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Bordetella avium (strain 197N) GN=ispF PE=3 SV=1

 Score =  112 bits (279), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 51/84 (60%), Positives = 63/84 (75%)

Query: 78  SLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDI 137
           ++PFRVG GFD+H L  G PLIIGG+ + H  G   HSD DVLLH V DAILGA GL DI
Sbjct: 2   TIPFRVGQGFDVHALVTGRPLIIGGVRIEHSHGLLGHSDADVLLHAVTDAILGAAGLGDI 61

Query: 138 GQIFPDSDPKWKGAPSSVFIKEAV 161
           G+ FPD+DP++KGA S V ++EA+
Sbjct: 62  GRHFPDTDPRFKGADSRVLLREAM 85

Converts 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MECDP) and CMP.

Bordetella avium (strain 197N) (taxid: 360910)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q2NAE1|ISPDF_ERYLH Bifunctional enzyme IspD/IspF OS=Erythrobacter litoralis (strain HTCC2594) GN=ispDF PE=3 SV=1

 Score =  108 bits (269), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 49/85 (57%), Positives = 61/85 (71%)

Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           LP RVG GFD+H+LE G  L +GGI + H++G   HSD DV LH +VDA+LGA+G  DIG
Sbjct: 224 LPVRVGTGFDVHKLEAGEELWLGGIRLEHDKGLAGHSDADVALHAIVDALLGAIGKGDIG 283

Query: 139 QIFPDSDPKWKGAPSSVFIKEAVRF 163
             FP SDP+WKGA SS FI+ A + 
Sbjct: 284 DHFPPSDPQWKGAASSAFIEHAAKL 308

Bifunctional enzyme that catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate (MEP) (IspD), and converts 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MECDP) and CMP (IspF).

Erythrobacter litoralis (strain HTCC2594) (taxid: 314225)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q1IVA8|ISPF_KORVE 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Koribacter versatilis (strain Ellin345) GN=ispF PE=3 SV=1

 Score =  107 bits (266), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 50/82 (60%), Positives = 57/82 (69%)

Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            RVG GFD H    G PL IGG+ +PH  G   HSDGDVLLH + DA+LGA+   DIG  
Sbjct: 2   IRVGLGFDSHEFREGIPLRIGGLTIPHTHGLSGHSDGDVLLHAITDALLGAVAAGDIGAF 61

Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FP SDPKWKGA S VFI+EA+R
Sbjct: 62  FPPSDPKWKGANSVVFIEEAMR 83

Converts 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MECDP) and CMP.

Koribacter versatilis (strain Ellin345) (taxid: 204669)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q5NYK0|ISPF_AROAE 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Aromatoleum aromaticum (strain EbN1) GN=ispF PE=3 SV=1

 Score =  106 bits (265), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 47/81 (58%), Positives = 60/81 (74%)

Query: 80  PFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQ 139
           PFR+G GFD+H L PG  LI+GG+++P ERG   HSD DVLLH + DA+LGA GL DIG+
Sbjct: 4   PFRIGQGFDVHALVPGRALIVGGVHIPFERGLLGHSDADVLLHALTDALLGAAGLGDIGR 63

Query: 140 IFPDSDPKWKGAPSSVFIKEA 160
           +FPD+D    GA S V ++EA
Sbjct: 64  LFPDTDAAHAGADSRVLLREA 84

Converts 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MECDP) and CMP.

Aromatoleum aromaticum (strain EbN1) (taxid: 76114)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|Q63T71|ISPF_BURPS 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Burkholderia pseudomallei (strain K96243) GN=ispF PE=1 SV=1

 Score =  105 bits (263), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 44/81 (54%), Positives = 60/81 (74%)

Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           + FR+G G+D+H+L PG PLIIGG+ +P+ERG   HSD DVLLH + DA+ GA  L DIG
Sbjct: 1   MDFRIGQGYDVHQLVPGRPLIIGGVTIPYERGLLGHSDADVLLHAITDALFGAAALGDIG 60

Query: 139 QIFPDSDPKWKGAPSSVFIKE 159
           + F D+DP++KGA S   ++E
Sbjct: 61  RHFSDTDPRFKGADSRALLRE 81

Converts 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MECDP) and CMP.

Burkholderia pseudomallei (strain K96243) (taxid: 272560)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

>sp|A3NAL8|ISPF_BURP6 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase OS=Burkholderia pseudomallei (strain 668) GN=ispF PE=3 SV=1

 Score =  105 bits (263), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 44/81 (54%), Positives = 60/81 (74%)

Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           + FR+G G+D+H+L PG PLIIGG+ +P+ERG   HSD DVLLH + DA+ GA  L DIG
Sbjct: 1   MDFRIGQGYDVHQLVPGRPLIIGGVTIPYERGLLGHSDADVLLHAITDALFGAAALGDIG 60

Query: 139 QIFPDSDPKWKGAPSSVFIKE 159
           + F D+DP++KGA S   ++E
Sbjct: 61  RHFSDTDPRFKGADSRALLRE 81

Converts 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MECDP) and CMP.

Burkholderia pseudomallei (strain 668) (taxid: 320373)

EC: 4

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 1

EC: 2

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	196
152962682	237	2-C-methyl-D-erythritol 2,4-cyclodiphosp	0.836	0.691	0.969	3e-87
359904131	245	2-C-methyl-D-erythritol 2 [Humulus lupul	0.632	0.506	0.752	1e-49
118483430	233	unknown [Populus trichocarpa]	0.785	0.660	0.625	5e-49
297836983	231	2C-methyl-D-erythritol 2,4-cyclodiphosph	0.714	0.606	0.673	8e-49
224075014	233	predicted protein [Populus trichocarpa]	0.785	0.660	0.625	8e-49
164604998	241	2-C-methyl-D-erythritol 2,4-cyclodiphosp	0.596	0.485	0.784	3e-48
164604996	237	2-C-methyl-D-erythritol 2,4-cyclodiphosp	0.775	0.641	0.649	4e-48
46410856	238	putative 2C-methyl-D-erythritol 2,4-cycl	0.596	0.491	0.784	9e-48
206812332	238	putative 2C-methyl-D-erythritol 2,4-cycl	0.596	0.491	0.784	9e-48
224053853	187	predicted protein [Populus trichocarpa]	0.566	0.593	0.805	9e-48

>gi|152962682|dbj|BAF73931.1| 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Citrus jambhiri]

 Score =  326 bits (836), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 159/164 (96%), Positives = 159/164 (96%)

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

Query: 61  SIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVL 120
           SIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVL
Sbjct: 61  SIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVL 120

Query: 121 LHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFF 164
           LHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVR  
Sbjct: 121 LHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLM 164

Source: Citrus jambhiri

Species: Citrus jambhiri

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359904131|gb|AEV89963.1| 2-C-methyl-D-erythritol 2 [Humulus lupulus]

 Score =  201 bits (511), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 94/125 (75%), Positives = 109/125 (87%), Gaps = 1/125 (0%)

Query: 41  LRTTQSTSLPRI-SVSAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLI 99
           LR +++T L  + SVSAA T+++E +++ + +  + SK LPFRVGHGFDLHRLEPGYPLI
Sbjct: 48  LRQSKTTPLSALPSVSAAGTAALEAEQTPSEVSTTPSKILPFRVGHGFDLHRLEPGYPLI 107

Query: 100 IGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE 159
           IGGIN+PHE+GCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGA SSVFIKE
Sbjct: 108 IGGINIPHEKGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAASSVFIKE 167

Query: 160 AVRFF 164
           AVR  
Sbjct: 168 AVRLM 172

Source: Humulus lupulus

Species: Humulus lupulus

Genus: Humulus

Family: Cannabaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118483430|gb|ABK93615.1| unknown [Populus trichocarpa]

 Score =  199 bits (506), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 105/168 (62%), Positives = 126/168 (75%), Gaps = 14/168 (8%)

Query: 3   LTMAAQSYTTTPL--HRKITNKPLCPPLLSLKPRSLTAKHLRTT----QSTSLPRISVSA 56
           + MA   YT+  +   +   NK +    LSL+P + T  H++ T    + T L   S+SA
Sbjct: 1   MAMATNLYTSYSIIATKAHNNKSVS---LSLQPGTYTTSHVKFTLPIQKRTGL---SISA 54

Query: 57  AATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSD 116
           A+T++ +V+ S+ S +   S+ LPFRVGHGFDLHRLEPGYPLIIGGI+VPH+RGCEAHSD
Sbjct: 55  ASTTATQVEGSATSSK--ASRILPFRVGHGFDLHRLEPGYPLIIGGIDVPHDRGCEAHSD 112

Query: 117 GDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFF 164
           GDVLLHCV DAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVR  
Sbjct: 113 GDVLLHCVADAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLM 160

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>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]

 Score =  198 bits (504), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 103/153 (67%), Positives = 117/153 (76%), Gaps = 13/153 (8%)

Query: 15  LHRKITNKPLCPPLLSLKPRSLTAKHLRTTQSTSL---PRISVSAAATSSIEVKESSASI 71
            H +IT  P   P   +  R       R  QS SL   P ISV  AA+S+++V ES+ S 
Sbjct: 16  FHSQITKTPFLLPATKIYLR-------RPKQSLSLSCRPSISV-LAASSAVDVNESATSE 67

Query: 72  QPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGA 131
           +P+K+  LPFR+GHGFDLHRLEPGYPLIIGGI++PH+RGCEAHSDGDVLLHCVVDAILGA
Sbjct: 68  KPTKT--LPFRIGHGFDLHRLEPGYPLIIGGIDIPHDRGCEAHSDGDVLLHCVVDAILGA 125

Query: 132 LGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFF 164
           LGLPDIGQIFPDSDPKWKGA SSVFIKEAVR  
Sbjct: 126 LGLPDIGQIFPDSDPKWKGAASSVFIKEAVRLM 158

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224075014|ref|XP_002304519.1| predicted protein [Populus trichocarpa] gi|222841951|gb|EEE79498.1| predicted protein [Populus trichocarpa]

 Score =  198 bits (504), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 105/168 (62%), Positives = 126/168 (75%), Gaps = 14/168 (8%)

Query: 3   LTMAAQSYTTTPL--HRKITNKPLCPPLLSLKPRSLTAKHLRTT----QSTSLPRISVSA 56
           + MA   YT+  +   +   NK +    LSL+P + T  H++ T    + T L   S+SA
Sbjct: 1   MAMATNLYTSYSIIATKAHNNKSVS---LSLQPGTYTTSHVKFTLPIQKRTGL---SISA 54

Query: 57  AATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSD 116
           A+T++ +V+ S+ S + S+   LPFRVGHGFDLHRLEPGYPLIIGGI+VPH+RGCEAHSD
Sbjct: 55  ASTTATQVEGSATSSKASRI--LPFRVGHGFDLHRLEPGYPLIIGGIDVPHDRGCEAHSD 112

Query: 117 GDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFF 164
           GDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGA SSVFIKEAVR  
Sbjct: 113 GDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAASSVFIKEAVRLM 160

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|164604998|dbj|BAF98295.1| 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Hevea brasiliensis]

 Score =  196 bits (499), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 98/125 (78%), Positives = 106/125 (84%), Gaps = 8/125 (6%)

Query: 41  LRTTQSTSLPRISVSAAA-TSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLI 99
           LRTT      R S+SAAA T++++V   + S +    KSLPFRVGHGFDLHRLEPGYPLI
Sbjct: 51  LRTTT-----RFSISAAAGTTAVQVDGPTTSNK--GPKSLPFRVGHGFDLHRLEPGYPLI 103

Query: 100 IGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE 159
           IGGIN+PHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE
Sbjct: 104 IGGINIPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE 163

Query: 160 AVRFF 164
           AVR  
Sbjct: 164 AVRLM 168

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|164604996|dbj|BAF98294.1| 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Hevea brasiliensis]

 Score =  196 bits (498), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 111/171 (64%), Positives = 126/171 (73%), Gaps = 19/171 (11%)

Query: 3   LTMAAQSYTT-TPLHRKI------TNKPLCPPL-LSLKPRSLTAKHLRTTQSTSLPRISV 54
           + MA   YT+ +P+  K       +NK L  PL  S+   SL+   LRTT      R+S+
Sbjct: 4   MAMATHLYTSYSPITSKTITTNYNSNKALSVPLHKSIASPSLS---LRTTA-----RLSI 55

Query: 55  SAAA-TSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEA 113
           SAAA  ++++V     S +    KSLPFRVGHGFDLHRLEPGYPLIIGGIN+PHERGCEA
Sbjct: 56  SAAAGATALQVDGPPTSSK--GPKSLPFRVGHGFDLHRLEPGYPLIIGGINIPHERGCEA 113

Query: 114 HSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFF 164
           HSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVR  
Sbjct: 114 HSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLM 164

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|46410856|gb|AAS94122.1| putative 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Hevea brasiliensis]

 Score =  195 bits (495), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 98/125 (78%), Positives = 106/125 (84%), Gaps = 8/125 (6%)

Query: 41  LRTTQSTSLPRISVSAAA-TSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLI 99
           LRTT      R S+SAAA T++++V   + S +    KSLPFRVGHGFDLHRLEPGYPLI
Sbjct: 48  LRTTI-----RFSISAAAGTTAVQVDGPTTSNK--GPKSLPFRVGHGFDLHRLEPGYPLI 100

Query: 100 IGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE 159
           IGGIN+PHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE
Sbjct: 101 IGGINIPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE 160

Query: 160 AVRFF 164
           AVR  
Sbjct: 161 AVRLM 165

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|206812332|gb|ACI22427.1| putative 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Hevea brasiliensis]

 Score =  195 bits (495), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 98/125 (78%), Positives = 106/125 (84%), Gaps = 8/125 (6%)

Query: 41  LRTTQSTSLPRISVSAAA-TSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLI 99
           LRTT      R S+SAAA T++++V   + S +    KSLPFRVGHGFDLHRLEPGYPLI
Sbjct: 48  LRTTI-----RFSISAAAGTTAVQVDGPTTSNK--GPKSLPFRVGHGFDLHRLEPGYPLI 100

Query: 100 IGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE 159
           IGGIN+PHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE
Sbjct: 101 IGGINIPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE 160

Query: 160 AVRFF 164
           AVR  
Sbjct: 161 AVRLM 165

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224053853|ref|XP_002298012.1| predicted protein [Populus trichocarpa] gi|222845270|gb|EEE82817.1| predicted protein [Populus trichocarpa]

 Score =  195 bits (495), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 91/113 (80%), Positives = 103/113 (91%), Gaps = 2/113 (1%)

Query: 52  ISVSAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGC 111
           +S+SAA+T++I+V   + S +   SK+LPFRVGHGFDLHRLEPGYPLIIGGI+VPH+RGC
Sbjct: 4   LSISAASTTAIQVDGPTTSSK--ASKTLPFRVGHGFDLHRLEPGYPLIIGGIDVPHDRGC 61

Query: 112 EAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRFF 164
           EAHSDGDVLLHCVVDA+LGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVR  
Sbjct: 62  EAHSDGDVLLHCVVDAVLGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRLM 114

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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	196
TAIR|locus:2024618	231	ISPF "isoprenoid F" [Arabidops	0.602	0.510	0.733	1.5e-42
TIGR_CMR|GSU_3367	157	GSU_3367 "2C-methyl-D-erythrit	0.408	0.509	0.562	4.3e-22
TIGR_CMR|VC_0529	158	VC_0529 "2C-methyl-D-erythrito	0.413	0.512	0.555	1.1e-21
UNIPROTKB|P62617	159	ispF "2-C-methyl-D-erythritol	0.413	0.509	0.555	1.9e-21
TIGR_CMR|BA_0085	158	BA_0085 "2C-methyl-D-erythrito	0.403	0.5	0.556	6.3e-21
TIGR_CMR|SPO_2090	377	SPO_2090 "2-C-methyl-D-erythri	0.408	0.212	0.55	1.4e-20
TIGR_CMR|SO_3437	159	SO_3437 "2C-methyl-D-erythrito	0.408	0.503	0.537	5.7e-20
TIGR_CMR|APH_1276	168	APH_1276 "2C-methyl-D-erythrit	0.418	0.488	0.558	9.2e-20
TIGR_CMR|CHY_2341	163	CHY_2341 "2C-methyl-D-erythrit	0.413	0.496	0.481	2.2e-18
TIGR_CMR|CPS_1073	170	CPS_1073 "2C-methyl-D-erythrit	0.408	0.470	0.487	5.8e-18

TAIR|locus:2024618 ISPF "isoprenoid F" [Arabidopsis thaliana (taxid:3702)]

 Score = 450 (163.5 bits), Expect = 1.5e-42, P = 1.5e-42
 Identities = 91/124 (73%), Positives = 99/124 (79%)

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 EAVR 162
             EAVR
Sbjct:   153 EAVR 156

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|GSU_3367 GSU_3367 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 257 (95.5 bits), Expect = 4.3e-22, P = 4.3e-22
 Identities = 45/80 (56%), Positives = 60/80 (75%)

Query:    82 RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
             R+GHG+D+HRL  G  LI+GG+++PHE G   HSD DVLLH + DAILGAL L DIG+ F
Sbjct:     2 RIGHGYDVHRLVAGRKLIVGGVDIPHELGLLGHSDADVLLHAISDAILGALALGDIGKHF 61

Query:   142 PDSDPKWKGAPSSVFIKEAV 161
             PD+DP++KGA S   ++  +
Sbjct:    62 PDTDPRYKGADSRALLRHVM 81

GO:0008299 "isoprenoid biosynthetic process" evidence=ISS

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=ISS

TIGR_CMR|VC_0529 VC_0529 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 45/81 (55%), Positives = 59/81 (72%)

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

Query:   142 PDSDPKWKGAPSSVFIKEAVR 162
             PD+D KWKGA S   +K+  R
Sbjct:    63 PDTDDKWKGADSRELLKDVYR 83

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=ISS

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=ISS

UNIPROTKB|P62617 ispF "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase monomer" [Escherichia coli K-12 (taxid:83333)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 45/81 (55%), Positives = 60/81 (74%)

Query:    82 RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
             R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG++F
Sbjct:     2 RIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLF 61

Query:   142 PDSDPKWKGAPSSVFIKEAVR 162
             PD+DP +KGA S   ++EA R
Sbjct:    62 PDTDPAFKGADSRELLREAWR 82

GO:0016114 "terpenoid biosynthetic process" evidence=IEA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0008299 "isoprenoid biosynthetic process" evidence=IEA

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=IEA;IDA

GO:0006744 "ubiquinone biosynthetic process" evidence=IDA

TIGR_CMR|BA_0085 BA_0085 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 246 (91.7 bits), Expect = 6.3e-21, P = 6.3e-21
 Identities = 44/79 (55%), Positives = 57/79 (72%)

Query:    81 FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
             FR+G GFD+H    G PLIIGGI +PHE+G   HSD DVLLH + DA LGA+   DIG+ 
Sbjct:     2 FRIGQGFDVHEFAEGRPLIIGGITIPHEKGLIGHSDADVLLHTIADACLGAIAAGDIGKH 61

Query:   141 FPDSDPKWKGAPSSVFIKE 159
             FPD+DP +K A S+V +++
Sbjct:    62 FPDTDPAFKDADSAVLLQK 80

GO:0008299 "isoprenoid biosynthetic process" evidence=ISS

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=ISS

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)]

 Score = 244 (91.0 bits), Expect = 1.4e-20, P = 1.4e-20
 Identities = 44/80 (55%), Positives = 59/80 (73%)

Query:    82 RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
             R+G+G+D+HR  PG  +I+ GI VPH+RG + HSD DV +H V DA+ GAL   DIG+ F
Sbjct:   222 RLGNGYDVHRFGPGDHVILCGIKVPHDRGLQGHSDADVGMHAVTDALYGALVEGDIGRHF 281

Query:   142 PDSDPKWKGAPSSVFIKEAV 161
             P SDP+WKGA S +F++ AV
Sbjct:   282 PPSDPQWKGAASEIFLRHAV 301

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=ISS

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=ISS

GO:0050518 "2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase activity" evidence=ISS

TIGR_CMR|SO_3437 SO_3437 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 237 (88.5 bits), Expect = 5.7e-20, P = 5.7e-20
 Identities = 43/80 (53%), Positives = 58/80 (72%)

Query:    79 LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
             +  R+GHGFD+H+     PLI+ G+ VP+E G  AHSDGDV+LH + DAILGA+ L DIG
Sbjct:     1 MKIRIGHGFDVHKFGEPRPLILCGVEVPYETGLVAHSDGDVVLHAISDAILGAMALGDIG 60

Query:   139 QIFPDSDPKWKGAPSSVFIK 158
             + FPD+D  +KGA S V ++
Sbjct:    61 KHFPDTDAAYKGADSRVLLR 80

GO:0008299 "isoprenoid biosynthetic process" evidence=ISS

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=ISS

TIGR_CMR|APH_1276 APH_1276 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Anaplasma phagocytophilum HZ (taxid:212042)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 48/86 (55%), Positives = 58/86 (67%)

Query:    79 LPFRVGHGFDLHRL----EPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGL 134
             +PFRVG GFD+HR     E G  + I GI V H +G  AHSDGDV LH + DA+LG +G 
Sbjct:     6 MPFRVGMGFDVHRFTESREEGQYIPICGIKVAHTQGIVAHSDGDVALHALTDALLGCMGE 65

Query:   135 PDIGQIFPDSDPKWKGAPSSVFIKEA 160
               IGQ FP+SDP+WK A SS F+ EA
Sbjct:    66 GSIGQHFPNSDPQWKNASSSYFLLEA 91

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=ISS

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=ISS

TIGR_CMR|CHY_2341 CHY_2341 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 222 (83.2 bits), Expect = 2.2e-18, P = 2.2e-18
 Identities = 39/81 (48%), Positives = 55/81 (67%)

Query:    82 RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
             R+G G+D+H L  G  LIIGG+ +P  +G   HSD DVL H + DA LG+L L DIGQ+F
Sbjct:     4 RIGFGYDVHPLVEGRKLIIGGVEIPFTKGLLGHSDADVLYHAIADAFLGSLALGDIGQLF 63

Query:   142 PDSDPKWKGAPSSVFIKEAVR 162
             PD+D +++G  S + ++E  R
Sbjct:    64 PDNDERYRGIDSGLLLQEVYR 84

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=ISS

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=ISS

TIGR_CMR|CPS_1073 CPS_1073 "2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 218 (81.8 bits), Expect = 5.8e-18, P = 5.8e-18
 Identities = 39/80 (48%), Positives = 55/80 (68%)

Query:    82 RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
             R+GHGFD+H+     PL++GG+ +P E G  AHSDGDV +H + DAILGAL L DIG  F
Sbjct:     2 RIGHGFDVHKFGGKGPLVLGGVKIPFELGFIAHSDGDVAIHALCDAILGALCLADIGNHF 61

Query:   142 PDSDPKWKGAPSSVFIKEAV 161
             PD+D +++   S + ++  V
Sbjct:    62 PDTDGQYENISSRILLRHVV 81

GO:0008685 "2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity" evidence=ISS

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=ISS

---

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)
Q9CAK8	ISPF_ARATH	4, ., 6, ., 1, ., 1, 2	0.8333	0.5102	0.4329	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	4.6.1	0.921
4th Layer	4.6.1.12	0.914

---

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	Length	Definition	E-value
Query	196
PLN02862	216	PLN02862, PLN02862, 2-C-methyl-D-erythritol 2,4-cy	4e-68
cd00554	153	cd00554, MECDP_synthase, MECDP_synthase (2-C-methy	3e-48
pfam02542	156	pfam02542, YgbB, YgbB family	9e-48
PRK00084	159	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclod	3e-44
COG0245	159	COG0245, IspF, 2C-methyl-D-erythritol 2,4-cyclodip	6e-44
TIGR00151	155	TIGR00151, ispF, 2-C-methyl-D-erythritol 2,4-cyclo	6e-42
PRK09382	378	PRK09382, ispDF, bifunctional 2-C-methyl-D-erythri	7e-40

>gnl|CDD|178453 PLN02862, PLN02862, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

 Score =  207 bits (527), Expect = 4e-68
 Identities = 86/148 (58%), Positives = 106/148 (71%), Gaps = 7/148 (4%)

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 PDIGQIFPDSDPKWKGAPSSVFIKEAVR 162
           PDIGQIFPD+DPKWKGA SSVFIKEAVR
Sbjct: 114 PDIGQIFPDTDPKWKGADSSVFIKEAVR 141

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

 Score =  154 bits (391), Expect = 3e-48
 Identities = 48/82 (58%), Positives = 64/82 (78%)

Query: 82  RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
           R+G G+D+HR   G PLI+GG+ +PHE+G   HSDGDVLLH + DA+LGA GL DIG+ F
Sbjct: 1   RIGIGYDVHRFVEGRPLILGGVEIPHEKGLLGHSDGDVLLHALTDALLGAAGLGDIGEHF 60

Query: 142 PDSDPKWKGAPSSVFIKEAVRF 163
           PD+DPKWKGA S + ++EA++ 
Sbjct: 61  PDTDPKWKGADSRILLEEALKL 82

This pathway is present in bacteria, plants and some protozoa but is distinct from that used by mammals and Archaea. MECDP_synthase forms a homotrimer, carrying three active sites, each of which is formed in a cleft between pairs of subunits. Length = 153

>gnl|CDD|217094 pfam02542, YgbB, YgbB family

 Score =  152 bits (388), Expect = 9e-48
 Identities = 49/83 (59%), Positives = 63/83 (75%)

Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+G G+D+HR   G PLI+GG+ +PHE+G   HSDGDVLLH + DA+LGA GL DIG+ 
Sbjct: 1   IRIGQGYDVHRFVEGRPLILGGVEIPHEKGLLGHSDGDVLLHALCDALLGAAGLGDIGEH 60

Query: 141 FPDSDPKWKGAPSSVFIKEAVRF 163
           FPD+DPKWKGA S + ++E VR 
Sbjct: 61  FPDTDPKWKGADSRILLREVVRL 83

The ygbB protein is a putative enzyme of deoxy-xylulose pathway (terpenoid biosynthesis). Length = 156

>gnl|CDD|178851 PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed

 Score =  144 bits (365), Expect = 3e-44
 Identities = 46/82 (56%), Positives = 60/82 (73%)

Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+G GFD+HR   G PLI+GG+ +P+E+G   HSDGDVLLH + DA+LGA  L DIG+ 
Sbjct: 3   MRIGQGFDVHRFGEGRPLILGGVEIPYEKGLLGHSDGDVLLHAICDALLGAAALGDIGKH 62

Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+DP +KGA S V ++E  R
Sbjct: 63  FPDTDPAFKGADSRVLLREVAR 84

Length = 159

>gnl|CDD|223323 COG0245, IspF, 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]

 Score =  143 bits (363), Expect = 6e-44
 Identities = 50/84 (59%), Positives = 63/84 (75%)

Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+G GFD+HR   G PLI+GG+ +PHE+G   HSDGDVLLH + DA+LGA GL DIG+ 
Sbjct: 1   IRIGLGFDVHRFGEGRPLILGGVEIPHEKGLLGHSDGDVLLHALTDALLGAAGLGDIGKH 60

Query: 141 FPDSDPKWKGAPSSVFIKEAVRFF 164
           FPD+DP+WKGA S + +KEAV   
Sbjct: 61  FPDTDPRWKGADSRILLKEAVELV 84

Length = 159

>gnl|CDD|129255 TIGR00151, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

 Score =  138 bits (349), Expect = 6e-42
 Identities = 52/81 (64%), Positives = 65/81 (80%)

Query: 82  RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
           R+G GFD+HR  PG PLI+GG+ +PHE+G  AHSDGDVLLH + DA+LGALGL DIG+ F
Sbjct: 1   RIGQGFDVHRFGPGRPLILGGVEIPHEKGLLAHSDGDVLLHALTDALLGALGLGDIGKHF 60

Query: 142 PDSDPKWKGAPSSVFIKEAVR 162
           PD+DP+WKGA S V ++ AV 
Sbjct: 61  PDTDPRWKGADSRVLLRHAVA 81

Members of this protein family are 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, the IspF protein of the deoxyxylulose (non-mevalonate) pathway of IPP biosynthesis. This protein occurs as an IspDF bifunctional fusion protein in about 20 percent of bacterial genomes [Biosynthesis of cofactors, prosthetic groups, and carriers, Other]. Length = 155

>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

 Score =  138 bits (351), Expect = 7e-40
 Identities = 46/99 (46%), Positives = 62/99 (62%)

Query: 65  KESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCV 124
           KE         S S   R G+GFD+H  E G P+ + G+ +PH+ G + HSD DV LH +
Sbjct: 202 KEDLKMADLLLSPSRDIRTGNGFDVHAFEEGDPVTLCGVKIPHDFGLKGHSDADVALHAL 261

Query: 125 VDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVRF 163
            DA+LGA+G  DIG+ FPDSDP+WKGA S + ++ A  F
Sbjct: 262 TDALLGAIGAGDIGEHFPDSDPQWKGAASKILLEHAADF 300

Length = 378

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	196
PLN02862	216	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth	100.0
PRK00084	159	ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate	100.0
TIGR00151	155	ispF 2C-methyl-D-erythritol 2,4-cyclodiphosphate s	100.0
cd00554	153	MECDP_synthase MECDP_synthase (2-C-methyl-D-erythr	100.0
PF02542	157	YgbB: YgbB family; InterPro: IPR003526 MECDP (2-C-	100.0
COG0245	159	IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate s	100.0
PRK09382	378	ispDF bifunctional 2-C-methyl-D-erythritol 4-phosp	100.0

>PLN02862 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

Probab=100.00  E-value=1e-49  Score=340.71  Aligned_cols=129  Identities=65%  Similarity=1.118  Sum_probs=117.4

Q ss_pred             cccccccccccCCcccccCCCCCCCceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCC
Q 029267           55 SAAATSSIEVKESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGL  134 (196)
Q Consensus        55 ~~~~~~~~~~~~~~~~~~~~~~~~m~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~gl  134 (196)
                      +++++++.+++...  ...+..+.|+||||+|||+|+|+++||||||||+||+++||.|||||||++||||||||||+|+
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            44445555555544  5566666788999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcccCCCCCCcCCCCCHHHHHHHHHHHHHhc-CeEEEEEEEeecccchhh
Q 029267          135 PDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       135 GDIG~~FPdsdpk~Kga~S~~~L~~a~~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      ||||++|||+||+|||++|.+||++++++++++ |.|+|||++|+.-.|||.
T Consensus       114 GDIG~~FPdtd~~~Kg~~S~~lL~~a~~ll~~~G~~I~NvD~tII~q~PKi~  165 (216)
T PLN02862        114 PDIGQIFPDTDPKWKGADSSVFIKEAVRLMHEAGYEIGNLDATLILQRPKLS  165 (216)
T ss_pred             CcccccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEcCCCcch
Confidence            999999999999999999999999999999997 999999999999999985

>PRK00084 ispF 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed

Probab=100.00  E-value=3.3e-48  Score=318.37  Aligned_cols=107  Identities=45%  Similarity=0.824  Sum_probs=104.4

Q ss_pred             CceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHH
Q 029267           79 LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIK  158 (196)
Q Consensus        79 m~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~  158 (196)
                      |++|||+|||+|||+++|||+||||+||+++|+.|||||||++||||||||||+|+||||++||++||+|||++|..||+
T Consensus         1 m~~RiG~G~D~H~~~~~r~l~LGGV~i~~~~gl~gHSDgDVl~HAi~DAlLGA~glgDIG~~Fp~td~~~kg~~S~~lL~   80 (159)
T PRK00084          1 MMMRIGQGFDVHRFGEGRPLILGGVEIPYEKGLLGHSDGDVLLHAICDALLGAAALGDIGKHFPDTDPAFKGADSRVLLR   80 (159)
T ss_pred             CCceEEEeEEcccccCCCcEEEEeEEeCCCCCCcccCHHHHHHHHHHHHHHHHccCCchhhhCCCCChhhCCCCHHHHHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhc-CeEEEEEEEeecccchhh
Q 029267          159 EAVRFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       159 ~a~~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      +++++++++ |.++|||++|+.-.|||.
T Consensus        81 ~~~~~~~~~g~~i~niD~tii~e~PKi~  108 (159)
T PRK00084         81 EVARLLRAKGYRIGNVDITIIAQRPKMA  108 (159)
T ss_pred             HHHHHHHHcCCEEEEEEEEEEcCCCcch
Confidence            999999997 899999999999999984

>TIGR00151 ispF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

Probab=100.00  E-value=3.2e-47  Score=311.52  Aligned_cols=104  Identities=52%  Similarity=0.967  Sum_probs=102.2

Q ss_pred             eEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHHHH
Q 029267           82 RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAV  161 (196)
Q Consensus        82 RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~a~  161 (196)
                      |||+|||+|||+++||||||||+||+++|+.|||||||++|||+||||||+|+||||++|||+||+|||++|..||++++
T Consensus         1 RvG~G~D~H~~~~~r~l~LgGV~ip~~~Gl~gHSDgDVl~HAi~DAlLGA~glgDIG~~Fpdtd~~~k~~~S~~lL~~~~   80 (155)
T TIGR00151         1 RIGQGFDVHRFGPGRPLILGGVEIPHEKGLLAHSDGDVLLHALTDALLGALGLGDIGKHFPDTDPRWKGADSRVLLRHAV   80 (155)
T ss_pred             CcEeeEeccccCCCCcEEEeeEEeCCCCCCcccCHHHHHHHHHHHHHHHHccCCcCcccCCCCChhhCCCCHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhc-CeEEEEEEEeecccchhh
Q 029267          162 RFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       162 ~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      ++++++ |.|+|||++|+.-.|||.
T Consensus        81 ~~~~~~g~~i~niD~tii~e~PKi~  105 (155)
T TIGR00151        81 ALIKEKGYRIGNVDITIIAQRPKLL  105 (155)
T ss_pred             HHHHHcCCEEEEEEEEEEcCCCcch
Confidence            999996 999999999999999985

Members of this protein family are 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, the IspF protein of the deoxyxylulose (non-mevalonate) pathway of IPP biosynthesis. This protein occurs as an IspDF bifunctional fusion protein in about 20 percent of bacterial genomes.

>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

Probab=100.00  E-value=6.5e-47  Score=308.99  Aligned_cols=104  Identities=50%  Similarity=0.932  Sum_probs=102.2

Q ss_pred             eEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHHHH
Q 029267           82 RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAV  161 (196)
Q Consensus        82 RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~a~  161 (196)
                      |||+|||+|||+++||||||||+||+++|+.|||||||++||||||||||+++||||++|||+||+|||++|..||++++
T Consensus         1 RvG~G~D~H~~~~~r~l~LgGV~i~~~~gl~gHSDgDVl~HAl~DAlLGA~glgDIG~~Fp~~d~~~k~~~S~~lL~~~~   80 (153)
T cd00554           1 RIGIGYDVHRFVEGRPLILGGVEIPHEKGLLGHSDGDVLLHALTDALLGAAGLGDIGEHFPDTDPKWKGADSRILLEEAL   80 (153)
T ss_pred             CcEeeEeccccCCCCCEEEeeEEeCCCCCCcccCHHHHHHHHHHHHHHHHccCCcccccCCCCChhhCCCCHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhc-CeEEEEEEEeecccchhh
Q 029267          162 RFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       162 ~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      ++++++ |.++|||++|+.-.|||.
T Consensus        81 ~~~~~~g~~i~niD~tii~e~PKi~  105 (153)
T cd00554          81 KLIREKGYEIVNIDITIIAERPKIS  105 (153)
T ss_pred             HHHHHcCCEEEEEEEEEEecCCcch
Confidence            999998 799999999999999985

This pathway is present in bacteria, plants and some protozoa but is distinct from that used by mammals and Archaea. MECDP_synthase forms a homotrimer, carrying three active sites, each of which is formed in a cleft between pairs of subunits.

>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

Probab=100.00  E-value=1.5e-47  Score=313.92  Aligned_cols=105  Identities=50%  Similarity=0.907  Sum_probs=99.7

Q ss_pred             eeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHHH
Q 029267           81 FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEA  160 (196)
Q Consensus        81 ~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~a  160 (196)
                      ||||+|||+|||+++|+|+||||+||+++|+.|||||||++|||+||||||+++||||+||||+||+|||++|..||+++
T Consensus         1 ~RiG~G~D~H~~~~~r~L~LgGV~ip~~~gl~gHSDgDVl~HAi~DAlLGA~glgDIG~~Fpd~d~~~k~~~S~~lL~~~   80 (157)
T PF02542_consen    1 MRIGIGYDVHRFVEGRPLILGGVEIPSEKGLEGHSDGDVLLHAIIDALLGAAGLGDIGTHFPDTDPKYKGADSRILLKEV   80 (157)
T ss_dssp             EEEEEEEEEEEEEETSEEEETTEEEEESEEEESSSS--HHHHHHHHHHHHHTTS-THHHHSTTTSGGGTTCSHHHHHHHH
T ss_pred             CeeEeEEEeeeecCCCCEEEeeEEcCCCCCCcccChHHHHHHHHHHHHHHhccCCcccccCCCCChhhCCCCHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CeEEEEEEEeecccchhh
Q 029267          161 VRFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       161 ~~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      +++++++ |.|+|||++|..-.|||.
T Consensus        81 ~~~~~~~g~~i~niD~tii~e~PKi~  106 (157)
T PF02542_consen   81 VELLREKGYRIVNIDITIIAERPKIS  106 (157)
T ss_dssp             HHHHHHTTEEEEEEEEEEESSSSTTG
T ss_pred             HHHHHHcCcEEEEEEEEEEcCCCccH
Confidence            9999998 679999999999999984

Isoprenoids can also be synthesized through the mevalonate pathway. The non-mevolante route is used by many bacteria and human pathogens, including Mycobacterium tuberculosis and Plasmodium falciparum. This route appears to involve seven enzymes. MECDP synthetase catalyses the intramolecular attack by a phosphate group on a diphosphate, with cytidine monophosphate (CMP) acting as the leaving group to give the cyclic diphosphate product MEDCP. The enzyme is a trimer with three active sites shared between adjacent copies of the protein. The enzyme also has two metal binding sites, the metals playing key roles in catalysis[]. A number of proteins from eukaryotes and prokaryotes share this common N-terminal signature and appear to be involved in terpenoid biosynthesis. The YgbB protein is a putative enzyme of this type [].; GO: 0008685 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase activity, 0016114 terpenoid biosynthetic process; PDB: 3T80_B 3GHZ_A 2PMP_A 3F6M_A 3FPI_A 3RE3_A 1T0A_C 1W57_A 1W55_A 3B6N_A ....

>COG0245 IspF 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase [Lipid metabolism]

Probab=100.00  E-value=3e-46  Score=307.61  Aligned_cols=104  Identities=50%  Similarity=0.926  Sum_probs=102.2

Q ss_pred             eeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHHH
Q 029267           81 FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEA  160 (196)
Q Consensus        81 ~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~a  160 (196)
                      +|||+|||+|+|+++||||||||+||+++|+.|||||||++||||||||||+++||||++||++||+|||++|..||+++
T Consensus         1 ~RiG~G~DvH~~~~g~p~iLgGV~ip~~~Gl~gHSDgDVllHAi~DAllgA~glGDIG~~Fp~~d~~~kgadS~~lL~~~   80 (159)
T COG0245           1 IRIGLGFDVHRFGEGRPLILGGVEIPHEKGLLGHSDGDVLLHALTDALLGAAGLGDIGKHFPDTDPRWKGADSRILLKEA   80 (159)
T ss_pred             CcccccceeeeecCCCcEEEEEEEecCCCCccccChHHHHHHHHHHHHHHhhccCcchhcCCCCCcccCCCchHHHHHHH
Confidence            59999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CeEEEEEEEeecccchh
Q 029267          161 VRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       161 ~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      +++++++ |.++|||++|+...||+
T Consensus        81 ~~~v~~~g~~i~Nvd~tii~~~PK~  105 (159)
T COG0245          81 VELVREKGYRIGNVDITIIAQRPKL  105 (159)
T ss_pred             HHHHHHhCcEEEeEEEEEEEecCcc
Confidence            9999998 79999999999999987

>PRK09382 ispDF bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional

Probab=100.00  E-value=1.9e-43  Score=316.92  Aligned_cols=106  Identities=42%  Similarity=0.761  Sum_probs=103.9

Q ss_pred             ceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHH
Q 029267           80 PFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE  159 (196)
Q Consensus        80 ~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~  159 (196)
                      .+|||+|||+|+|++||+||||||+||+++|+.|||||||++||||||||||+|+||||+||||+||+|||++|..||++
T Consensus       217 ~~~~g~g~d~h~~~~~~~~~lggv~i~~~~g~~~hsd~dv~~ha~~da~lga~~~gdig~~fp~~d~~~k~~~s~~~l~~  296 (378)
T PRK09382        217 DIRTGNGFDVHAFEEGDPVTLCGVKIPHDFGLKGHSDADVALHALTDALLGAIGAGDIGEHFPDSDPQWKGAASKILLEH  296 (378)
T ss_pred             ceEEEEeeeeeeecCCCCEEEeeEEecCCCCCcccChHHHHHHHHHHHHHHHccCCcCcccCCCCChhhCCCCHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhc-CeEEEEEEEeecccchhh
Q 029267          160 AVRFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       160 a~~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      ++++++++ |.|+|+|++|..-.|||-
T Consensus       297 ~~~~~~~~~~~~~n~d~~i~~~~pk~~  323 (378)
T PRK09382        297 AADFVREAGGEIINADVTIIAEAPKIG  323 (378)
T ss_pred             HHHHHHHcCCEEEEEEEEEEecCCcch
Confidence            99999997 999999999999999984

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	196
2pmp_A	160	Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphos		6e-44
3f0d_A	183	High Resolution Crystal Structure Of 2c-Methyl-D-Er		2e-23
3ike_A	166	Crystal Structure Of 2c-Methyl-D-Erythritol 2,4-Cyc		3e-23
3f6m_A	165	Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4- C		4e-22
1iv1_A	152	Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphos		3e-21
1vh8_A	170	Crystal Structure Of A 2c-methyl-d-erythritol 2,4-c		4e-21
1jn1_A	158	Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphos		4e-21
1iv2_A	152	Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphos		5e-21
1t0a_A	159	Crystal Structure Of 2c-Methyl-D-Erythritol-2,4-Cyc		1e-20
3re3_A	162	Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4-Cy		4e-19
1h47_A	161	Structures Of Mecp Synthase In Complex With (I) Cmp		8e-19
3elc_A	165	Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Cl		8e-19
2gzl_A	159	Structure Of 2c-Methyl-D-Erythritol 2,4-Clycodiphos		9e-19
3ghz_A	162	2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Syntha		1e-18
1yqn_A	161	E. Coli Ispf Double Mutant Length = 161		2e-18
1jy8_A	159	2c-methyl-d-erythritol 2,4-cyclodiphosphate Synthas		2e-18
1knj_A	159	Co-Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4		3e-18
1gx1_A	160	Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphos		3e-18
1w55_A	371	Structure Of The Bifunctional Ispdf From Campylobac		8e-18
2uzh_A	165	Mycobacterium Smegmatis 2c-Methyl-D-Erythritol-2,4-		6e-12
3b6n_A	187	Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Cy		1e-10

>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

Iteration: 1
 Score =  173 bits (438), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 79/84 (94%), Positives = 82/84 (97%)
Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           LPFR+GHGFDLHRLEPGYPLIIGGI +PH+RGCEAHSDGDVLLHCVVDAILGALGLPDIG
Sbjct: 2   LPFRIGHGFDLHRLEPGYPLIIGGIVIPHDRGCEAHSDGDVLLHCVVDAILGALGLPDIG 61
Query: 139 QIFPDSDPKWKGAPSSVFIKEAVR 162
           QIFPDSDPKWKGA SSVFIKEAVR
Sbjct: 62  QIFPDSDPKWKGAASSVFIKEAVR 85

>pdb|3F0D|A Chain A, High Resolution Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Cyclodiphosphatase Synthase From Burkholderia Pseudomallei Length = 183

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 44/81 (54%), Positives = 60/81 (74%)
Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           + FR+G G+D+H+L PG PLIIGG+ +P+ERG   HSD DVLLH + DA+ GA  L DIG
Sbjct: 22  MDFRIGQGYDVHQLVPGRPLIIGGVTIPYERGLLGHSDADVLLHAITDALFGAAALGDIG 81
Query: 139 QIFPDSDPKWKGAPSSVFIKE 159
           + F D+DP++KGA S   ++E
Sbjct: 82  RHFSDTDPRFKGADSRALLRE 102

>pdb|3IKE|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Burkholderia Pseudomallei With Cytosine Length = 166

Iteration: 1
 Score =  104 bits (260), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 44/81 (54%), Positives = 60/81 (74%)
Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           + FR+G G+D+H+L PG PLIIGG+ +P+ERG   HSD DVLLH + DA+ GA  L DIG
Sbjct: 5   MDFRIGQGYDVHQLVPGRPLIIGGVTIPYERGLLGHSDADVLLHAITDALFGAAALGDIG 64
Query: 139 QIFPDSDPKWKGAPSSVFIKE 159
           + F D+DP++KGA S   ++E
Sbjct: 65  RHFSDTDPRFKGADSRALLRE 85

>pdb|3F6M|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase Ispf From Yersinia Pestis Length = 165

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 48/83 (57%), Positives = 62/83 (74%), Gaps = 2/83 (2%)
Query: 82  RVGHGFDLHRL-EPGY-PLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQ 139
           R+GHGFD+H+  E G  PLIIGG+ +P+E+G  AHSDGDV LH   DA+LGA  L DIG+
Sbjct: 5   RIGHGFDVHKFGENGSGPLIIGGVRIPYEKGLLAHSDGDVALHAATDALLGAAALGDIGK 64
Query: 140 IFPDSDPKWKGAPSSVFIKEAVR 162
           +FPD+DP +KGA S   ++EA R
Sbjct: 65  LFPDTDPAFKGADSRGLLREAYR 87

>pdb|1IV1|A Chain A, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase Length = 152

Iteration: 1
 Score = 97.8 bits (242), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 44/82 (53%), Positives = 58/82 (70%)
Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+G+G D HRLE G PL + G+ +P   G  AHSDGD  LH + DA+L A GL DIG +
Sbjct: 1   MRIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAALHALTDALLSAYGLGDIGLL 60
Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+DP+W+G  S VF++EA+R
Sbjct: 61  FPDTDPRWRGERSEVFLREALR 82

>pdb|1VH8|A Chain A, Crystal Structure Of A 2c-methyl-d-erythritol 2,4-cyclodiphosphate Synthase Length = 170

Iteration: 1
 Score = 97.4 bits (241), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 45/82 (54%), Positives = 57/82 (69%)
Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+GHGFD+H      PLIIGG+ VP+  G  AHSDGDV LH + DAILGA  L DIG++
Sbjct: 4   IRIGHGFDVHAFGEDRPLIIGGVEVPYHTGFIAHSDGDVALHALTDAILGAAALGDIGKL 63
Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+D ++K A S   ++EA R
Sbjct: 64  FPDTDXQYKNADSRGLLREAFR 85

>pdb|1JN1|A Chain A, Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Haemophilus Influenzae (Hi0671) Length = 158

Iteration: 1
 Score = 97.4 bits (241), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 45/82 (54%), Positives = 57/82 (69%)
Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+GHGFD+H      PLIIGG+ VP+  G  AHSDGDV LH + DAILGA  L DIG++
Sbjct: 2   IRIGHGFDVHAFGEDRPLIIGGVEVPYHTGFIAHSDGDVALHALTDAILGAAALGDIGKL 61
Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+D ++K A S   ++EA R
Sbjct: 62  FPDTDMQYKNADSRGLLREAFR 83

>pdb|1IV2|A Chain A, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase (Bound Form Cdp) Length = 152

Iteration: 1
 Score = 97.4 bits (241), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 43/82 (52%), Positives = 58/82 (70%)
Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+G+G D HRLE G PL + G+ +P   G  AHSDGD  +H + DA+L A GL DIG +
Sbjct: 1   MRIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLL 60
Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+DP+W+G  S VF++EA+R
Sbjct: 61  FPDTDPRWRGERSEVFLREAMR 82

>pdb|1T0A|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase From Shewanella Oneidensis Length = 159

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 43/80 (53%), Positives = 57/80 (71%)
Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           +  R+GHGFD+H+     PLI+ G+ VP+E G  AHSDGDV+LH + DAILGA  L DIG
Sbjct: 1   MKIRIGHGFDVHKFGEPRPLILCGVEVPYETGLVAHSDGDVVLHAISDAILGAXALGDIG 60
Query: 139 QIFPDSDPKWKGAPSSVFIK 158
           + FPD+D  +KGA S V ++
Sbjct: 61  KHFPDTDAAYKGADSRVLLR 80

>pdb|3RE3|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Francisella Tularensis Length = 162

Iteration: 1
 Score = 90.9 bits (224), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 41/81 (50%), Positives = 56/81 (69%), Gaps = 1/81 (1%)
Query: 80  PFRVGHGFDLHRLEPGYP-LIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
            FR+GHG+D+H+       +IIGG+ + +  G EAHSDGDVL+H + DAILGALGL DIG
Sbjct: 5   SFRIGHGYDVHKFTSAKQNIIIGGVEIAYHLGLEAHSDGDVLIHALCDAILGALGLGDIG 64
Query: 139 QIFPDSDPKWKGAPSSVFIKE 159
           + F D+D ++K   S  F+ E
Sbjct: 65  KHFLDTDNQFKNIDSKFFLAE 85

>pdb|1H47|A Chain A, Structures Of Mecp Synthase In Complex With (I) Cmp And (Ii) Cmp And Product Length = 161

Iteration: 1
 Score = 90.1 bits (222), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 46/84 (54%), Positives = 61/84 (72%)
Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           L  R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG
Sbjct: 1   LEMRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIG 60
Query: 139 QIFPDSDPKWKGAPSSVFIKEAVR 162
           ++FPD+DP +KGA S   ++EA R
Sbjct: 61  KLFPDTDPAFKGADSRELLREAWR 84

>pdb|3ELC|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Clycodiphosphate Synthase Complexed With Ligand Length = 165

Iteration: 1
 Score = 90.1 bits (222), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 46/84 (54%), Positives = 61/84 (72%)
Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           L  R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG
Sbjct: 5   LEMRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIG 64
Query: 139 QIFPDSDPKWKGAPSSVFIKEAVR 162
           ++FPD+DP +KGA S   ++EA R
Sbjct: 65  KLFPDTDPAFKGADSRELLREAWR 88

>pdb|2GZL|A Chain A, Structure Of 2c-Methyl-D-Erythritol 2,4-Clycodiphosphate Synthase Complexed With A Cdp Derived Fluorescent Inhibitor Length = 159

Iteration: 1
 Score = 89.7 bits (221), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 46/84 (54%), Positives = 61/84 (72%)
Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           L  R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG
Sbjct: 1   LEMRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIG 60
Query: 139 QIFPDSDPKWKGAPSSVFIKEAVR 162
           ++FPD+DP +KGA S   ++EA R
Sbjct: 61  KLFPDTDPAFKGADSRELLREAWR 84

>pdb|3GHZ|A Chain A, 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Salmonella Typhimurium Length = 162

Iteration: 1
 Score = 89.0 bits (219), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 45/82 (54%), Positives = 60/82 (73%)
Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG++
Sbjct: 4   MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKL 63
Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+DP +KGA S   ++EA R
Sbjct: 64  FPDTDPAFKGADSRELLREAWR 85

>pdb|1YQN|A Chain A, E. Coli Ispf Double Mutant Length = 161

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 45/82 (54%), Positives = 60/82 (73%)
Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG++
Sbjct: 3   MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKL 62
Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+DP +KGA S   ++EA R
Sbjct: 63  FPDTDPAFKGADSRELLREAWR 84

>pdb|1JY8|A Chain A, 2c-methyl-d-erythritol 2,4-cyclodiphosphate Synthase (ispf) Length = 159

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 45/82 (54%), Positives = 60/82 (73%)
Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG++
Sbjct: 1   MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKL 60
Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+DP +KGA S   ++EA R
Sbjct: 61  FPDTDPAFKGADSRELLREAWR 82

>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

Iteration: 1
 Score = 88.2 bits (217), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 45/81 (55%), Positives = 60/81 (74%)
Query: 82  RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
           R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG++F
Sbjct: 2   RIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLF 61
Query: 142 PDSDPKWKGAPSSVFIKEAVR 162
           PD+DP +KGA S   ++EA R
Sbjct: 62  PDTDPAFKGADSRELLREAWR 82

>pdb|1GX1|A Chain A, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate Synthase Length = 160

Iteration: 1
 Score = 88.2 bits (217), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 45/81 (55%), Positives = 60/81 (74%)
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 PDSDPKWKGAPSSVFIKEAVR 162
           PD+DP +KGA S   ++EA R
Sbjct: 63  PDTDPAFKGADSRELLREAWR 83

>pdb|1W55|A Chain A, Structure Of The Bifunctional Ispdf From Campylobacter Jejuni Length = 371

Iteration: 1
 Score = 86.7 bits (213), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 38/77 (49%), Positives = 53/77 (68%)
Query: 84  GHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPD 143
           G+GFD+H      PL++ G+ +    G +AHSDGDVL H + DAILGA GL DIG+++PD
Sbjct: 213 GNGFDVHEFGENRPLLLAGVQIHPTMGLKAHSDGDVLAHSLTDAILGAAGLGDIGELYPD 272
Query: 144 SDPKWKGAPSSVFIKEA 160
           +D K+K A S   +K+A
Sbjct: 273 TDMKFKNANSMELLKQA 289

>pdb|2UZH|A Chain A, Mycobacterium Smegmatis 2c-Methyl-D-Erythritol-2,4- Cyclodiphosphate Synthase (Ispf) Length = 165

Iteration: 1
 Score = 67.0 bits (162), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 44/77 (57%)
Query: 82  RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
           RVG G D+H +E G P  +  +      GC  HSDGDV  H + DA+L A GL D+G IF
Sbjct: 7   RVGLGTDVHPIEAGRPCRLLCLEFDDADGCAGHSDGDVAAHALCDALLSAAGLGDLGTIF 66
Query: 142 PDSDPKWKGAPSSVFIK 158
               P+W+GA  +  I+
Sbjct: 67  GTDRPQWRGASGADMIR 83

>pdb|3B6N|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase Pv003920 From Plasmodium Vivax Length = 187

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 35/104 (33%), Positives = 51/104 (49%), Gaps = 26/104 (25%)
Query: 82  RVGHGFDLHRLEPGYP-------------------------LIIGGINVPHERGCEAHSD 116
           R+G G+D+H++  G P                         L IGG+ V       +HSD
Sbjct: 6   RIGQGYDIHQIRVGPPEDIVADTTADTAANTADPNKQSFKRLTIGGVPV-ETISVLSHSD 64
Query: 117 GDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEA 160
           GDV+ H +VDA+LG +   D+G +FPD  PK+K   S  F++ A
Sbjct: 65  GDVIFHALVDALLGGMSCSDLGTLFPDGSPKYKNKNSLSFLRYA 108
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	196
2pmp_A	160	2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT;	3e-52
3f0d_A	183	2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT;	3e-50
1iv3_A	152	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth	7e-50
1t0a_A	159	2C-methyl-D-erythritol 2,4-cyclodiphosphate synth;	1e-49
3re3_A	162	2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT;	5e-49
1gx1_A	160	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth	1e-48
2uzh_A	165	2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha	1e-46
1w55_A	371	ISPD/ISPF bifunctional enzyme; biosynthetic pathwa	9e-43
3b6n_A	187	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth	1e-39

>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

 Score =  164 bits (417), Expect = 3e-52
 Identities = 79/85 (92%), Positives = 83/85 (97%)

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

Query: 138 GQIFPDSDPKWKGAPSSVFIKEAVR 162
           GQIFPDSDPKWKGA SSVFIKEAVR
Sbjct: 61  GQIFPDSDPKWKGAASSVFIKEAVR 85

>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

 Score =  159 bits (405), Expect = 3e-50
 Identities = 46/98 (46%), Positives = 63/98 (64%)

Query: 65  KESSASIQPSKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCV 124
              +   Q     S+ FR+G G+D+H+L PG PLIIGG+ +P+ERG   HSD DVLLH +
Sbjct: 8   HMGTLEAQTQGPGSMDFRIGQGYDVHQLVPGRPLIIGGVTIPYERGLLGHSDADVLLHAI 67

Query: 125 VDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVR 162
            DA+ GA  L DIG+ F D+DP++KGA S   ++E   
Sbjct: 68  TDALFGAAALGDIGRHFSDTDPRFKGADSRALLRECAS 105

>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

 Score =  157 bits (400), Expect = 7e-50
 Identities = 43/81 (53%), Positives = 58/81 (71%)

Query: 82  RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
           R+G+G D HRLE G PL + G+ +P   G  AHSDGD  +H + DA+L A GL DIG +F
Sbjct: 2   RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLF 61

Query: 142 PDSDPKWKGAPSSVFIKEAVR 162
           PD+DP+W+G  S VF++EA+R
Sbjct: 62  PDTDPRWRGERSEVFLREAMR 82

>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

 Score =  157 bits (399), Expect = 1e-49
 Identities = 43/84 (51%), Positives = 58/84 (69%)

Query: 79  LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIG 138
           +  R+GHGFD+H+     PLI+ G+ VP+E G  AHSDGDV+LH + DAILGA+ L DIG
Sbjct: 1   MKIRIGHGFDVHKFGEPRPLILCGVEVPYETGLVAHSDGDVVLHAISDAILGAMALGDIG 60

Query: 139 QIFPDSDPKWKGAPSSVFIKEAVR 162
           + FPD+D  +KGA S V ++    
Sbjct: 61  KHFPDTDAAYKGADSRVLLRHCYA 84

>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

 Score =  155 bits (395), Expect = 5e-49
 Identities = 42/88 (47%), Positives = 60/88 (68%), Gaps = 1/88 (1%)

Query: 76  SKSLPFRVGHGFDLHRLEPGYP-LIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGL 134
           S ++ FR+GHG+D+H+       +IIGG+ + +  G EAHSDGDVL+H + DAILGALGL
Sbjct: 1   SNAMSFRIGHGYDVHKFTSAKQNIIIGGVEIAYHLGLEAHSDGDVLIHALCDAILGALGL 60

Query: 135 PDIGQIFPDSDPKWKGAPSSVFIKEAVR 162
            DIG+ F D+D ++K   S  F+ E  +
Sbjct: 61  GDIGKHFLDTDNQFKNIDSKFFLAEIKK 88

>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

 Score =  154 bits (392), Expect = 1e-48
 Identities = 45/82 (54%), Positives = 60/82 (73%)

Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+GHGFD+H      P+IIGG+ +P+E+G  AHSDGDV LH + DA+LGA  L DIG++
Sbjct: 2   MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKL 61

Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           FPD+DP +KGA S   ++EA R
Sbjct: 62  FPDTDPAFKGADSRELLREAWR 83

>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

 Score =  149 bits (380), Expect = 1e-46
 Identities = 33/82 (40%), Positives = 44/82 (53%)

Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            RVG G D+H +E G P  +  +      GC  HSDGDV  H + DA+L A GL D+G I
Sbjct: 6   PRVGLGTDVHPIEAGRPCRLLCLEFDDADGCAGHSDGDVAAHALCDALLSAAGLGDLGTI 65

Query: 141 FPDSDPKWKGAPSSVFIKEAVR 162
           F    P+W+GA  +  I+    
Sbjct: 66  FGTDRPQWRGASGADMIRHVRG 87

>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

 Score =  145 bits (369), Expect = 9e-43
 Identities = 39/87 (44%), Positives = 55/87 (63%)

Query: 76  SKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLP 135
           + S     G+GFD+H      PL++ G+ +    G +AHSDGDVL H + DAILGA GL 
Sbjct: 205 TPSFEIFTGNGFDVHEFGENRPLLLAGVQIHPTMGLKAHSDGDVLAHSLTDAILGAAGLG 264

Query: 136 DIGQIFPDSDPKWKGAPSSVFIKEAVR 162
           DIG+++PD+D K+K A S   +K+A  
Sbjct: 265 DIGELYPDTDMKFKNANSMELLKQAYD 291

>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

 Score =  133 bits (336), Expect = 1e-39
 Identities = 35/107 (32%), Positives = 51/107 (47%), Gaps = 26/107 (24%)

Query: 81  FRVGHGFDLHRLEPGYP-------------------------LIIGGINVPHERGCEAHS 115
            R+G G+D+H++  G P                         L IGG+ V       +HS
Sbjct: 5   VRIGQGYDIHQIRVGPPEDIVADTTADTAANTADPNKQSFKRLTIGGVPVET-ISVLSHS 63

Query: 116 DGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAVR 162
           DGDV+ H +VDA+LG +   D+G +FPD  PK+K   S  F++ A  
Sbjct: 64  DGDVIFHALVDALLGGMSCSDLGTLFPDGSPKYKNKNSLSFLRYARL 110

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	196
3re3_A	162	2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT;	100.0
3f0d_A	183	2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT;	100.0
1t0a_A	159	2C-methyl-D-erythritol 2,4-cyclodiphosphate synth;	100.0
2pmp_A	160	2-C-methyl-D-erythritol 2,4-cyclodiphosphate SYNT;	100.0
2uzh_A	165	2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha	100.0
1gx1_A	160	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth	100.0
1iv3_A	152	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth	100.0
3b6n_A	187	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synth	100.0
1w55_A	371	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

Probab=100.00  E-value=4.6e-49  Score=323.55  Aligned_cols=107  Identities=40%  Similarity=0.725  Sum_probs=91.6

Q ss_pred             CCceeEEeeeeeeecCCCCC-eEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHH
Q 029267           78 SLPFRVGHGFDLHRLEPGYP-LIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVF  156 (196)
Q Consensus        78 ~m~~RIG~G~DvHrl~~gr~-LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~  156 (196)
                      .|+||||+|||+|||++||| ||||||+||+++||.|||||||++||||||||||+++||||+||||+||+|||+||..|
T Consensus         3 ~m~~RiG~G~DvH~~~~gr~~liLgGV~ip~~~Gl~gHSDgDVllHAi~DAlLGA~~lGDIG~~Fpdtdp~~kga~S~~l   82 (162)
T 3re3_A            3 AMSFRIGHGYDVHKFTSAKQNIIIGGVEIAYHLGLEAHSDGDVLIHALCDAILGALGLGDIGKHFLDTDNQFKNIDSKFF   82 (162)
T ss_dssp             CCCEEEEEEEEEEECCCCCCCEEETTEEECCCC------CCCHHHHHHHHHHHHHTTCCCHHHHC-------CCSCHHHH
T ss_pred             cccEEEEceEEeeeecCCCCcEEEeeEEecCCCCCcccCHHHHHHHHHHHHHHHhccCCCCcccCCCCChhhCCCCHHHH
Confidence            57899999999999999999 99999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhc-CeEEEEEEEeecccchh
Q 029267          157 IKEAVRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       157 L~~a~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      |++++++++++ |.|+|||++|..-.|||
T Consensus        83 L~~~~~~v~~~G~~i~NvD~tii~q~PKl  111 (162)
T 3re3_A           83 LAEIKKMLDKKQYSISNIDCTIIAQAPKM  111 (162)
T ss_dssp             HHHHHHHHHHTTCEEEEEEEEEECSSSCC
T ss_pred             HHHHHHHHHHcCCEEEEEEEEEEcCCCcc
Confidence            99999999987 88999999999999987

>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*

Probab=100.00  E-value=3e-49  Score=329.90  Aligned_cols=111  Identities=41%  Similarity=0.757  Sum_probs=100.1

Q ss_pred             CCCCCCceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCH
Q 029267           74 SKSKSLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPS  153 (196)
Q Consensus        74 ~~~~~m~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S  153 (196)
                      .+++.|+||||+|||+|||++|||||||||+||+++||.|||||||++||||||||||+++||||++|||+||+|||+||
T Consensus        17 ~~~~~m~~RiG~G~DvH~~~~gr~LiLGGV~ip~~~GL~gHSDgDVllHAi~DALLGA~glGDIG~~FPdtDp~~kgadS   96 (183)
T 3f0d_A           17 QGPGSMDFRIGQGYDVHQLVPGRPLIIGGVTIPYERGLLGHSDADVLLHAITDALFGAAALGDIGRHFSDTDPRFKGADS   96 (183)
T ss_dssp             -----CCEEEEEEEEEEEEEETSCEEETTEEECCSEEECSSSCCCHHHHHHHHHHHHHTTCCCHHHHSCC----CTTCCH
T ss_pred             cCCCCcceeEEeeEEeeecCCCCCEEEccEeccCCCCccccCHHHHHHHHHHHHHHHhhcCCCCcccCCCCChhhCCCCH
Confidence            34456889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhc-CeEEEEEEEeecccchh
Q 029267          154 SVFIKEAVRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       154 ~~~L~~a~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      ..||++++++++++ |.|+|||++|..-.|||
T Consensus        97 ~~lL~~~~~lv~~~G~~I~NvD~tIiaq~PKl  128 (183)
T 3f0d_A           97 RALLRECASRVAQAGFAIRNVDSTIIAQAPKL  128 (183)
T ss_dssp             HHHHHHHHHHHHHTTEEEEEEEEEEECSSSCC
T ss_pred             HHHHHHHHHHHHHcCCEEEEEEEEEEcCCCcc
Confidence            99999999999988 88999999999999987

>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*

Probab=100.00  E-value=4.9e-49  Score=322.62  Aligned_cols=107  Identities=41%  Similarity=0.716  Sum_probs=103.5

Q ss_pred             CceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHH
Q 029267           79 LPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIK  158 (196)
Q Consensus        79 m~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~  158 (196)
                      |+||||+|||+|||++||+||||||+||+++||.|||||||++||||||||||+++||||+||||+||+|||++|..||+
T Consensus         1 m~~RiG~G~DvH~~~~gr~liLgGV~ip~~~Gl~gHSDgDVl~HAi~DAlLGA~~lGDIG~~Fpdtd~~~kga~S~~lL~   80 (159)
T 1t0a_A            1 MKIRIGHGFDVHKFGEPRPLILCGVEVPYETGLVAHSDGDVVLHAISDAILGAMALGDIGKHFPDTDAAYKGADSRVLLR   80 (159)
T ss_dssp             -CEEEEEEEEEEEEEESSCEEETTEEECCSCEECCSSSCCHHHHHHHHHHHHHTTCCCHHHHSCTTCGGGTTCCHHHHHH
T ss_pred             CCceEEEEEEeeeecCCCCEEEeeEEecCCCCCcccCHHHHHHHHHHHHHHHhccCCCCcccCCCCChhhCCCCHHHHHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhc-CeEEEEEEEeecccchhh
Q 029267          159 EAVRFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       159 ~a~~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      +++++++++ |.|+|||++|..-.|||-
T Consensus        81 ~~~~~v~~~G~~i~NvD~tii~q~PKi~  108 (159)
T 1t0a_A           81 HCYALAKAKGFELGNLDVTIIAQAPKMA  108 (159)
T ss_dssp             HHHHHHHHTTEEEEEEEEEEECSSSCCG
T ss_pred             HHHHHHHHcCCEEEEEEEEEEcCCCcCh
Confidence            999999997 999999999999999873

>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}

Probab=100.00  E-value=4.7e-49  Score=323.01  Aligned_cols=108  Identities=75%  Similarity=1.278  Sum_probs=104.7

Q ss_pred             CCceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHH
Q 029267           78 SLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFI  157 (196)
Q Consensus        78 ~m~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L  157 (196)
                      .|+||||+|||+|||++||+||||||+||+++||.|||||||++||||||||||+++||||+||||+||+|||++|..||
T Consensus         1 ~~~~RiG~G~DvH~~~~gr~liLgGV~ip~~~Gl~gHSDgDVl~HAi~DAlLGA~~lGDIG~~Fpdtd~~~kga~S~~lL   80 (160)
T 2pmp_A            1 TLPFRIGHGFDLHRLEPGYPLIIGGIVIPHDRGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAASSVFI   80 (160)
T ss_dssp             CCSEEEEEEEEEEEEEETCCCEETTEECCCSEEECSSSCCCHHHHHHHHHHHHHHTCCCHHHHSCSSCSSCSSCCHHHHH
T ss_pred             CCceeEEeEEEeeeecCCCCEEEeeEEeCCCCCCcccChHHHHHHHHHHHHHHhccCCCCcccCCCCChhhCCCCHHHHH
Confidence            36799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc-CeEEEEEEEeecccchhh
Q 029267          158 KEAVRFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       158 ~~a~~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      ++++++++++ |.|.|||++|..-.|||-
T Consensus        81 ~~~~~~v~~~G~~i~NvD~tii~q~PKi~  109 (160)
T 2pmp_A           81 KEAVRLMDEAGYEIGNLDATLILQRPKIS  109 (160)
T ss_dssp             HHHHHHHHHHTEEEEEEEEEEECSSSCCG
T ss_pred             HHHHHHHHHcCCEEEEEEEEEEecCCcCH
Confidence            9999999997 999999999999999873

>2uzh_A 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; ISPF, lyase, mycobacteria, complex with CDP; HET: CDP IPE; 2.2A {Mycobacterium smegmatis}

Probab=100.00  E-value=1.9e-48  Score=320.80  Aligned_cols=107  Identities=31%  Similarity=0.548  Sum_probs=101.2

Q ss_pred             CCceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHH
Q 029267           78 SLPFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFI  157 (196)
Q Consensus        78 ~m~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L  157 (196)
                      +|+||||+|||+|||++||+||||||+||+++||.|||||||++||||||||||+++||||+||||+||+|||++|..||
T Consensus         3 ~~~~RiG~G~DvH~~~~gr~liLgGV~ip~~~Gl~gHSDgDVl~HAi~DAlLGA~~lGDIG~~Fpdtdp~~kga~S~~lL   82 (165)
T 2uzh_A            3 MMLPRVGLGTDVHPIEAGRPCRLLCLEFDDADGCAGHSDGDVAAHALCDALLSAAGLGDLGTIFGTDRPQWRGASGADMI   82 (165)
T ss_dssp             --CCEEEEEEEEEEBCTTSCEEETTEEETTSCCBC--CCCCHHHHHHHHHHHHHTTCCCHHHHHTTTCGGGTTCCHHHHH
T ss_pred             CCcEEEEEEEEeeeecCCCCEEEeeEEccCCCCCcccCHHHHHHHHHHHHHHHhccCCCCcccCCCCChhhCCCCHHHHH
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc-CeEEEEEEEeecccchh
Q 029267          158 KEAVRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       158 ~~a~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      ++++++++++ |.|.|||++|..-.|||
T Consensus        83 ~~~~~~v~~~G~~i~NvD~tii~q~PKi  110 (165)
T 2uzh_A           83 RHVRGLVENAGFVIGNATVQVIGNRPKV  110 (165)
T ss_dssp             HHHHHHHHHTTEEEEEEEEEEESSSSCC
T ss_pred             HHHHHHHHHcCCEEEEEEEEEEcCCCcc
Confidence            9999999997 88999999999999987

>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*

Probab=100.00  E-value=2.2e-48  Score=319.07  Aligned_cols=105  Identities=45%  Similarity=0.781  Sum_probs=102.9

Q ss_pred             ceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHH
Q 029267           80 PFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE  159 (196)
Q Consensus        80 ~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~  159 (196)
                      +||||+|||+|||++||+||||||+||+++||.|||||||++||||||||||+++||||+||||+||+|||++|..||++
T Consensus         1 ~~RiG~G~DvH~~~~gr~liLgGV~ip~~~Gl~gHSDgDVl~HAi~DAlLGA~~lGDIG~~Fpdtd~~~kga~S~~lL~~   80 (160)
T 1gx1_A            1 EMRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLRE   80 (160)
T ss_dssp             CEEEEEEEEEEEEESSSCEEETTEEECCSSEECSSSCCCHHHHHHHHHHHHHTTCCCHHHHSCTTCGGGTTCCHHHHHHH
T ss_pred             CccEEEEEEeeeecCCCcEEEeeEeccCCCCCcccCHHHHHHHHHHHHHHHhccCCCCcccCCCCChhhCCCCHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhc-CeEEEEEEEeecccchh
Q 029267          160 AVRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       160 a~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      ++++++++ |.|.|||++|..-.|||
T Consensus        81 ~~~~v~~~G~~i~NvD~tii~q~PKi  106 (160)
T 1gx1_A           81 AWRRIQAKGYTLGNVDVTIIAQAPKM  106 (160)
T ss_dssp             HHHHHHHTTCEEEEEEEEEECSSSCC
T ss_pred             HHHHHHHcCCEEEEEEEEEEcCCCcc
Confidence            99999997 99999999999999987

>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

Probab=100.00  E-value=2.3e-48  Score=316.73  Aligned_cols=104  Identities=43%  Similarity=0.786  Sum_probs=101.6

Q ss_pred             eeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHHH
Q 029267           81 FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEA  160 (196)
Q Consensus        81 ~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~a  160 (196)
                      ||||+|||+|||++|||||||||+||+++||.|||||||++||||||||||+++||||+||||+||+|||++|..||+++
T Consensus         1 ~RiG~G~DvH~~~~gr~liLgGV~ip~~~Gl~gHSDgDVllHAi~DAlLGA~~lGDIG~~Fpdtdp~~kga~S~~lL~~~   80 (152)
T 1iv3_A            1 MRIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREA   80 (152)
T ss_dssp             -CEEEEEEEEEEEETSCEEETTEEECCSEEECSSSCCCHHHHHHHHHHHHTTTCCCHHHHSCTTSTTTTTCCHHHHHHHH
T ss_pred             CceEEEEEeeeecCCCCEEEeeEEecCCCCCcccChHHHHHHHHHHHHHHhccCCCCcccCCCCChhhCCCCHHHHHHHH
Confidence            59999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhc-CeEEEEEEEeecccchh
Q 029267          161 VRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       161 ~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      +++++++ |.|.|||++|..-.|||
T Consensus        81 ~~~~~~~G~~i~NvD~tii~q~PKi  105 (152)
T 1iv3_A           81 MRLVEARGAKLLQASLVLTLDRPKL  105 (152)
T ss_dssp             HHHHHHTTCCEEEEEEEEECSSSCC
T ss_pred             HHHHHHcCCEEEEEEEEEEecCCcC
Confidence            9999997 99999999999999987

>3b6n_A 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; malaria isoprenoid biosynthesis and prenylation pathways ISPF; 2.26A {Plasmodium vivax sai-1}

Probab=100.00  E-value=3.5e-45  Score=306.27  Aligned_cols=104  Identities=36%  Similarity=0.697  Sum_probs=85.2

Q ss_pred             ceeEEeeeeeeecCCC-------------------------CCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCC
Q 029267           80 PFRVGHGFDLHRLEPG-------------------------YPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGL  134 (196)
Q Consensus        80 ~~RIG~G~DvHrl~~g-------------------------r~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~gl  134 (196)
                      +||||+|||+|||+++                         |+||||||+|| ++||.|||||||++||||||||||+++
T Consensus         4 ~~RiG~G~DvH~~~~g~~g~~~~~~~~~~~~~~~~~~~~~~r~LiLGGV~ip-~~Gl~gHSDgDVl~HAi~DAlLGA~~l   82 (187)
T 3b6n_A            4 GVRIGQGYDIHQIRVGPPEDIVADTTADTAANTADPNKQSFKRLTIGGVPVE-TISVLSHSDGDVIFHALVDALLGGMSC   82 (187)
T ss_dssp             CEEEEEEEEEEEEESSCCC------------------CCEEEEEEETTEEEE-EEEEEESSCCCHHHHHHHHHHHHHTTC
T ss_pred             CceeEeeEeeeccccCCccccccccccccccccccccccCCCcEEEeeEecC-CCCCCccCHHHHHHHHHHHHHHHhccC
Confidence            5899999999999754                         89999999999 789999999999999999999999999


Q ss_pred             CCCcccCCCCCCcCCCCCHHHHHHHHHHHHHhc-CeEEEEEEEeecccchh
Q 029267          135 PDIGQIFPDSDPKWKGAPSSVFIKEAVRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       135 GDIG~~FPdsdpk~Kga~S~~~L~~a~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      ||||++|||+||+|||++|..||++++++++++ |.|.|||++|.+-.|||
T Consensus        83 GDIG~~FPdtdp~~kga~S~~lL~~a~~l~~~~Gy~I~NvD~tiiaq~PKi  133 (187)
T 3b6n_A           83 SDLGTLFPDGSPKYKNKNSLSFLRYARLLLYKRNYAIANVDIIVIAEVPKI  133 (187)
T ss_dssp             C---------------CCTHHHHHHHHHHHHHTTEEEEEEEEEEECSSSCS
T ss_pred             CCCcccCCCCChhhCCCCHHHHHHHHHHHHHHcCCEEEEEEEEEEeCCCcc
Confidence            999999999999999999999999999999997 88999999999999987

>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*

Probab=100.00  E-value=4.5e-43  Score=310.18  Aligned_cols=106  Identities=41%  Similarity=0.658  Sum_probs=103.4

Q ss_pred             ceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHH
Q 029267           80 PFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE  159 (196)
Q Consensus        80 ~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~  159 (196)
                      .||||+|||+|+|++||+||||||+||+++||.|||||||++||||||||||+++||||+||||+||+|||++|..||++
T Consensus       209 ~~r~g~g~d~h~~~~~~~~~l~g~~i~~~~g~~~hsd~dv~~ha~~da~lga~~~gdig~~f~~~~~~~~~~~s~~~l~~  288 (371)
T 1w55_A          209 EIFTGNGFDVHEFGENRPLLLAGVQIHPTMGLKAHSDGDVLAHSLTDAILGAAGLGDIGELYPDTDMKFKNANSMELLKQ  288 (371)
T ss_dssp             CEEEEEEEEEEEEEEESCEEETTEEEESSEEECSSTTCCHHHHHHHHHHHHHTTCCCHHHHSCCTTSTTTTCCHHHHHHH
T ss_pred             ceEEecCceEeeccCCCceeecCEEecCCCCCccCChhHHHHHHHHHHHHHhhcCCCccccCCCCChhhCCCCHHHHHHH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhc-CeEEEEEEEeecccchhh
Q 029267          160 AVRFFFLI-YILIYIEIVMGYSNSMIW  185 (196)
Q Consensus       160 a~~li~~~-~~iiniDi~i~~~~~~~~  185 (196)
                      ++++++++ |.|+|||++|..-.|||-
T Consensus       289 ~~~~~~~~g~~~~n~d~~~~~~~pk~~  315 (371)
T 1w55_A          289 AYDKVREIGFELINIDICVMAQSPKLK  315 (371)
T ss_dssp             HHHHHHHTTEEEEEEEEEEECSSSCCG
T ss_pred             HHHHHHHcCCEEEEEeEEEEeCCCCch
Confidence            99999987 999999999999999874

---

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	196
d1iv3a_	150	d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiph	1e-30
d1gx1a_	157	d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiph	1e-29
d1w55a2	163	d.79.5.1 (A:208-370) IspD/ispF bifunctional enzyme	5e-28
d1t0aa_	158	d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiph	1e-27

>d1iv3a_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Thermus thermophilus [TaxId: 274]} Length = 150

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: Thermus thermophilus [TaxId: 274]

 Score =  107 bits (269), Expect = 1e-30
 Identities = 45/97 (46%), Positives = 63/97 (64%), Gaps = 1/97 (1%)

Query: 82  RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
           R+G+G D HRLE G PL + G+ +P   G  AHSDGD  +H + DA+L A GL DIG +F
Sbjct: 1   RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLF 60

Query: 142 PDSDPKWKGAPSSVFIKEAVRF-FFLIYILIYIEIVM 177
           PD+DP+W+G  S VF++EA+R        L+   +V+
Sbjct: 61  PDTDPRWRGERSEVFLREAMRLVEARGAKLLQASLVL 97

>d1gx1a_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Escherichia coli [TaxId: 562]} Length = 157

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 =  104 bits (262), Expect = 1e-29
 Identities = 47/97 (48%), Positives = 66/97 (68%), Gaps = 1/97 (1%)

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 PDSDPKWKGAPSSVFIKEAVRFFFL-IYILIYIEIVM 177
           PD+DP +KGA S   ++EA R      Y L  +++ +
Sbjct: 63  PDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTI 99

>d1w55a2 d.79.5.1 (A:208-370) IspD/ispF bifunctional enzyme, MECDP synthase domain {Campylobacter jejuni [TaxId: 197]} Length = 163

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: IpsF-like
family: IpsF-like
domain: IspD/ispF bifunctional enzyme, MECDP synthase domain
species: Campylobacter jejuni [TaxId: 197]

 Score =  101 bits (252), Expect = 5e-28
 Identities = 38/83 (45%), Positives = 53/83 (63%)

Query: 82  RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIF 141
             G+GFD+H      PL++ G+ +    G +AHSDGDVL H + DAILGA GL DIG+++
Sbjct: 4   FTGNGFDVHEFGENRPLLLAGVQIHPTMGLKAHSDGDVLAHSLTDAILGAAGLGDIGELY 63

Query: 142 PDSDPKWKGAPSSVFIKEAVRFF 164
           PD+D K+K A S   +K+A    
Sbjct: 64  PDTDMKFKNANSMELLKQAYDKV 86

>d1t0aa_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Shewanella oneidensis [TaxId: 70863]} Length = 158

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]

 Score = 99.9 bits (249), Expect = 1e-27
 Identities = 44/98 (44%), Positives = 63/98 (64%), Gaps = 1/98 (1%)

Query: 81  FRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQI 140
            R+GHGFD+H+     PLI+ G+ VP+E G  AHSDGDV+LH + DAILGA+ L DIG+ 
Sbjct: 2   IRIGHGFDVHKFGEPRPLILCGVEVPYETGLVAHSDGDVVLHAISDAILGAMALGDIGKH 61

Query: 141 FPDSDPKWKGAPSSVFIKEAVRFFFL-IYILIYIEIVM 177
           FPD+D  +KGA S V ++          + L  +++ +
Sbjct: 62  FPDTDAAYKGADSRVLLRHCYALAKAKGFELGNLDVTI 99

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	196
d1gx1a_	157	2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha	100.0
d1t0aa_	158	2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha	100.0
d1iv3a_	150	2C-methyl-D-erythritol 2,4-cyclodiphosphate syntha	100.0
d1w55a2	163	IspD/ispF bifunctional enzyme, MECDP synthase doma	100.0

>d1gx1a_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Escherichia coli [TaxId: 562]}

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]

Probab=100.00  E-value=7.4e-47  Score=305.59  Aligned_cols=105  Identities=45%  Similarity=0.781  Sum_probs=102.8

Q ss_pred             ceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHH
Q 029267           80 PFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE  159 (196)
Q Consensus        80 ~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~  159 (196)
                      .+|||+|||+|||+++|+|+||||+||+++|++|||||||++||||||||||+++||||+|||++|++|||++|..||++
T Consensus         1 d~RiG~G~D~H~~~~~~~l~LgGv~i~~~~gl~gHSDgDv~~HAi~DAilGa~~lgDIG~~Fp~~d~~~k~~~S~~~L~~   80 (157)
T d1gx1a_           1 EMRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLRE   80 (157)
T ss_dssp             CEEEEEEEEEEEEESSSCEEETTEEECCSSEECSSSCCCHHHHHHHHHHHHHTTCCCHHHHSCTTCGGGTTCCHHHHHHH
T ss_pred             CceeEEEEEEeeEcCCCCEEEEEEEecCCCCceEecCccHHHHHHHHHHHHhhcCCCchhccccccchhhccchHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhc-CeEEEEEEEeecccchh
Q 029267          160 AVRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       160 a~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      ++++++++ |.|+|||++|+.-+|+|
T Consensus        81 ~~~~l~~~g~~I~NiD~tIi~e~PKi  106 (157)
T d1gx1a_          81 AWRRIQAKGYTLGNVDVTIIAQAPKM  106 (157)
T ss_dssp             HHHHHHHTTCEEEEEEEEEECSSSCC
T ss_pred             HHHHHHHhCCEehhhhhHhHHHHhhh
Confidence            99999997 99999999999999987

>d1t0aa_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Shewanella oneidensis [TaxId: 70863]}

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=6.5e-47  Score=306.18  Aligned_cols=105  Identities=42%  Similarity=0.732  Sum_probs=102.7

Q ss_pred             ceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHH
Q 029267           80 PFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE  159 (196)
Q Consensus        80 ~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~  159 (196)
                      .||||+|||+|||+++|+|+||||+||+++|++|||||||++||||||||||+++||||+|||++||+|||+||..||++
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             HHHHHHhc-CeEEEEEEEeecccchh
Q 029267          160 AVRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       160 a~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      ++++++++ |.|+|||++|+.-+|+|
T Consensus        81 ~~~~~~~~g~~I~NiD~tIi~e~PKi  106 (158)
T d1t0aa_          81 CYALAKAKGFELGNLDVTIIAQAPKM  106 (158)
T ss_dssp             HHHHHHHTTEEEEEEEEEEECSSSCC
T ss_pred             HHHHHHHcCCEEeeeehhhhhhhhhh
Confidence            99999997 89999999999999987

>d1iv3a_ d.79.5.1 (A:) 2C-methyl-D-erythritol 2,4-cyclodiphosphate synthase IspF {Thermus thermophilus [TaxId: 274]}

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: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=6.3e-47  Score=304.15  Aligned_cols=103  Identities=44%  Similarity=0.788  Sum_probs=101.5

Q ss_pred             eEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHHHH
Q 029267           82 RVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKEAV  161 (196)
Q Consensus        82 RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~a~  161 (196)
                      |||+|||+|||+++|||+||||+||+++|++|||||||++||||||||||+++||||+||||+||+|||+||..||++++
T Consensus         1 RiG~G~D~H~~~~~~~l~lgGv~i~~~~gl~gHSDgDv~~HAl~DAilGA~~~gDIG~~Fpd~d~~~k~~~S~~~L~~~~   80 (150)
T d1iv3a_           1 RIGYGEDSHRLEEGRPLYLCGLLIPSPVGALAHSDGDAAMHALTDALLSAYGLGDIGLLFPDTDPRWRGERSEVFLREAM   80 (150)
T ss_dssp             CEEEEEEEEEEEETSCEEETTEEECCSEEECSSSCCCHHHHHHHHHHHHTTTCCCHHHHSCTTSTTTTTCCHHHHHHHHH
T ss_pred             CcEeEEEeeeEcCCCCEEEEEEEecCCCCceeccCccHHHHHHHHHHHHHHhcCchhhhccccchhhhcccHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhc-CeEEEEEEEeecccchh
Q 029267          162 RFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       162 ~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      ++++++ |.++|||++|+.-+|||
T Consensus        81 ~~i~~~g~~I~NiD~tIi~e~PKi  104 (150)
T d1iv3a_          81 RLVEARGAKLLQASLVLTLDRPKL  104 (150)
T ss_dssp             HHHHHTTCCEEEEEEEEECSSSCC
T ss_pred             HHHHHhheeeeechhhhhhhHHHh
Confidence            999987 99999999999999987

>d1w55a2 d.79.5.1 (A:208-370) IspD/ispF bifunctional enzyme, MECDP synthase domain {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a+b)
fold: Bacillus chorismate mutase-like
superfamily: IpsF-like
family: IpsF-like
domain: IspD/ispF bifunctional enzyme, MECDP synthase domain
species: Campylobacter jejuni [TaxId: 197]

Probab=100.00  E-value=1.2e-46  Score=305.95  Aligned_cols=105  Identities=41%  Similarity=0.676  Sum_probs=102.8

Q ss_pred             ceeEEeeeeeeecCCCCCeEEeeeeeCCCCCCCccChhHHHHHHHHHHHHHhcCCCCCcccCCCCCCcCCCCCHHHHHHH
Q 029267           80 PFRVGHGFDLHRLEPGYPLIIGGINVPHERGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAPSSVFIKE  159 (196)
Q Consensus        80 ~~RIG~G~DvHrl~~gr~LiLGGV~Ip~~~GL~gHSDGDVllHAI~DALLGA~glGDIG~~FPdsdpk~Kga~S~~~L~~  159 (196)
                      ++|||+|||+|||.+||+|+||||+||+++|++|||||||++||||||||||+++||||+|||++||+|||++|..||++
T Consensus         2 ~~riG~G~D~H~~~~~~~l~LgGv~i~~~~gl~gHSDgDv~~HAi~DAilGA~~lgDIG~~Fp~~d~~~k~~~S~~~L~~   81 (163)
T d1w55a2           2 EIFTGNGFDVHEFGENRPLLLAGVQIHPTMGLKAHSDGDVLAHSLTDAILGAAGLGDIGELYPDTDMKFKNANSMELLKQ   81 (163)
T ss_dssp             CEEEEEEEEEEEEEEESCEEETTEEEESSEEECSSTTCCHHHHHHHHHHHHHTTCCCHHHHSCCTTSTTTTCCHHHHHHH
T ss_pred             CeeEEEEEEeeeEcCCCCEEEEEEEecCCCCcceecCcchhHHHHHHHHHHhccCCchhhhhcccccchhhhhHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhc-CeEEEEEEEeecccchh
Q 029267          160 AVRFFFLI-YILIYIEIVMGYSNSMI  184 (196)
Q Consensus       160 a~~li~~~-~~iiniDi~i~~~~~~~  184 (196)
                      ++++++++ |.|+|||++|..-+|+|
T Consensus        82 ~~~~l~~~g~~I~NID~tIi~e~PKi  107 (163)
T d1w55a2          82 AYDKVREIGFELINIDICVMAQSPKL  107 (163)
T ss_dssp             HHHHHHHTTEEEEEEEEEEECSSSCC
T ss_pred             HHHHHHHcCCEeehhhhhhhhhhhhh
Confidence            99999986 99999999999999987