Citrus Sinensis ID: 045169

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190--
MPKCKKIYNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSLLVNPMPL
cccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccccc
cccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccccc
MPKCKKIYNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKikelepftSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSllvnpmpl
MPKCKKIYNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSLLVNPMPL
MPKCKKIYNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSLLVNPMPL
****KKIYNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSLLV*****
MP*****YNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSLLVNPMPL
MPKCKKIYNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSLLVNPMPL
****KKIYNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSLLVNPMPL
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MPKCKKIYNETLLTFAKLASNKLQNLYQKELDDISRIRLLYKLPFIRERIAKCYFWILGVRILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIESAIDKLPKYMKLCHRGLLEMKNVVKIYFFEAKWYHQNYVSSMKEYMTVALDCLHPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVVSLLVNPMPL
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query192 2.2.26 [Sep-21-2011]
Q6Q3H3 557 (-)-germacrene D synthase yes no 0.713 0.245 0.463 4e-34
Q5SBP6546 Germacrene-D synthase OS= N/A no 0.708 0.249 0.443 5e-30
Q6Q3H2556 Valencene synthase OS=Vit no no 0.729 0.251 0.395 1e-27
E3W207 559 Sesquiterpene synthase OS N/A no 0.713 0.245 0.396 4e-27
F6M8H4 559 Probable sesquiterpene sy N/A no 0.713 0.245 0.396 5e-27
F6M8H5 562 Probable sesquiterpene sy N/A no 0.713 0.243 0.391 6e-27
F6M8H7 562 Probable sesquiterpene sy N/A no 0.713 0.243 0.385 1e-26
B5A435 559 Sesquiterpene synthase OS N/A no 0.713 0.245 0.391 1e-26
E3W208 562 Sesquiterpene synthase OS N/A no 0.713 0.243 0.396 2e-26
F6M8H6 562 Probable sesquiterpene sy N/A no 0.713 0.243 0.396 2e-26
>sp|Q6Q3H3|TPSGD_VITVI (-)-germacrene D synthase OS=Vitis vinifera GN=VIT_19s0014g04930 PE=1 SV=1 Back     alignment and function desciption
 Score =  144 bits (362), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 83/179 (46%), Positives = 107/179 (59%), Gaps = 42/179 (23%)

Query: 8   YNETLLTFAKLASNKLQNLYQKELDDISR----IRLLYKLPFIRERIAKCYFWILGV--- 60
           +N+ LL  AKL  N LQ L+QKEL DIS     +   +KLPF R+R+ +CYFWILGV   
Sbjct: 230 HNKALLKLAKLDFNLLQKLHQKELSDISAWWKDLDFAHKLPFARDRVVECYFWILGVYFE 289

Query: 61  -------RILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIE----SAIDKLPKYMKLCHR 109
                  RILTKV++MTS IDDIYDVYG ++ELE FT A+E    SAID+LP+YM++C++
Sbjct: 290 PQFFFARRILTKVIAMTSIIDDIYDVYGTLEELELFTEAVERWDISAIDQLPEYMRVCYQ 349

Query: 110 GLL------------------------EMKNVVKIYFFEAKWYHQNYVSSMKEYMTVAL 144
            LL                         MKN V+ Y+ EAKW     + +M+EYM VAL
Sbjct: 350 ALLYVYSEIEEEMAKEGRSYRLYYAKEAMKNQVRAYYEEAKWLQVQQIPTMEEYMPVAL 408
Involved in the biosynthesis of germacrene D. Can use farnesyl diphosphate as substrate, but not geranyl diphosphate or geranylgeranyl diphosphate. Produces mainly (-)-germacrene D along with gamma-cadinene.
Vitis vinifera (taxid: 29760)
EC: 4EC: .EC: 2EC: .EC: 3EC: .EC: 7EC: 5
>sp|Q5SBP6|GDS_OCIBA Germacrene-D synthase OS=Ocimum basilicum GN=GDS PE=1 SV=1 Back     alignment and function description
>sp|Q6Q3H2|TPSVS_VITVI Valencene synthase OS=Vitis vinifera GN=ValCS PE=1 SV=1 Back     alignment and function description
>sp|E3W207|SAUSS_SANAS Sesquiterpene synthase OS=Santalum austrocaledonicum PE=2 SV=1 Back     alignment and function description
>sp|F6M8H4|SAST_SANAL Probable sesquiterpene synthase OS=Santalum album GN=SesquiTPS1 PE=3 SV=1 Back     alignment and function description
>sp|F6M8H5|SAUST_SANAS Probable sesquiterpene synthase OS=Santalum austrocaledonicum GN=SesquiTPS PE=3 SV=1 Back     alignment and function description
>sp|F6M8H7|SMST_SANMU Probable sesquiterpene synthase OS=Santalum murrayanum GN=STPS PE=3 SV=1 Back     alignment and function description
>sp|B5A435|STPS1_SANAL Sesquiterpene synthase OS=Santalum album PE=1 SV=1 Back     alignment and function description
>sp|E3W208|SPISS_SANSP Sesquiterpene synthase OS=Santalum spicatum PE=2 SV=1 Back     alignment and function description
>sp|F6M8H6|SPIST_SANSP Probable sesquiterpene synthase OS=Santalum spicatum GN=SesquiTPS PE=3 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query192
322424205 541 germacrene D synthase [Citrus hystrix] 0.765 0.271 0.521 2e-39
336318889 561 terpene synthase 1 [Populus trichocarpa] 0.723 0.247 0.454 6e-33
41058926 561 (-)-germacrene D synthase [Populus trich 0.723 0.247 0.448 6e-33
224126255 561 predicted protein [Populus trichocarpa] 0.723 0.247 0.454 7e-33
302143186 365 unnamed protein product [Vitis vinifera] 0.713 0.375 0.463 2e-32
147856860 557 hypothetical protein VITISV_030783 [Viti 0.713 0.245 0.463 2e-32
359493937 557 PREDICTED: (-)-germacrene D synthase [Vi 0.713 0.245 0.463 2e-32
147828675 557 hypothetical protein VITISV_013313 [Viti 0.713 0.245 0.463 2e-32
60266878 565 germacrene-D synthase [Actinidia delicio 0.713 0.242 0.463 2e-32
75223414 557 RecName: Full=(-)-germacrene D synthase 0.713 0.245 0.463 2e-32
>gi|322424205|gb|ADX01384.1| germacrene D synthase [Citrus hystrix] Back     alignment and taxonomy information
 Score =  167 bits (424), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 99/190 (52%), Positives = 118/190 (62%), Gaps = 43/190 (22%)

Query: 8   YNETLLTFAKLASNKLQNLYQKELDDISR----IRLLYKLPFIRERIAKCYFWILGV--- 60
           +NE LLTFAKL  N LQ L+QKEL DISR    +   +KLPF+R+RIA+ YFW +GV   
Sbjct: 215 HNEALLTFAKLGFNGLQKLHQKELGDISRWWKELDFAHKLPFVRDRIAEVYFWAVGVHFE 274

Query: 61  -------RILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIE----SAIDKLPKYMKLCHR 109
                  ++ TKV+ MTS IDDIYDVYGKI+EL+ FTSAIE    +AID+LP+YMKLC R
Sbjct: 275 PQYSFTRKLFTKVIYMTSIIDDIYDVYGKIEELDLFTSAIERWDINAIDQLPEYMKLCIR 334

Query: 110 GLLE------------------------MKNVVKIYFFEAKWYHQNYVSSMKEYMTVAL- 144
            L+                         MKN VK YFFEAKW HQNYV ++ EYMTVAL 
Sbjct: 335 ALINVYSEVEKDLVSQGKLYRLHYAKEAMKNQVKHYFFEAKWCHQNYVPTVDEYMTVALI 394

Query: 145 DCLHPILMGI 154
              HP L  I
Sbjct: 395 SSGHPNLSTI 404

Source: Citrus hystrix

Species: Citrus hystrix

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|336318889|gb|AEI52901.1| terpene synthase 1 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|41058926|gb|AAR99061.1| (-)-germacrene D synthase [Populus trichocarpa x Populus deltoides] Back     alignment and taxonomy information
>gi|224126255|ref|XP_002319795.1| predicted protein [Populus trichocarpa] gi|222858171|gb|EEE95718.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|302143186|emb|CBI20481.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147856860|emb|CAN83470.1| hypothetical protein VITISV_030783 [Vitis vinifera] Back     alignment and taxonomy information
>gi|359493937|ref|XP_003634696.1| PREDICTED: (-)-germacrene D synthase [Vitis vinifera] gi|302143188|emb|CBI20483.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|147828675|emb|CAN68620.1| hypothetical protein VITISV_013313 [Vitis vinifera] Back     alignment and taxonomy information
>gi|60266878|gb|AAX16121.1| germacrene-D synthase [Actinidia deliciosa] Back     alignment and taxonomy information
>gi|75223414|sp|Q6Q3H3.1|TPSGD_VITVI RecName: Full=(-)-germacrene D synthase gi|45478053|gb|AAS66357.1| (-)-germacrene D synthase [Vitis vinifera] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query192
UNIPROTKB|B5A435 559 B5A435 "Sesquiterpene synthase 0.583 0.200 0.415 7.3e-33
UNIPROTKB|B2KSJ5 571 B2KSJ5 "(+)-gamma-cadinene syn 0.557 0.187 0.44 7.7e-33
UNIPROTKB|B2KSJ6 560 B2KSJ6 "Alpha-farnesene syntha 0.552 0.189 0.427 2.4e-28
UNIPROTKB|J7LMP2 565 J7LMP2 "Bicyclogermacrene synt 0.583 0.198 0.415 5.3e-25
UNIPROTKB|J7LP58 564 J7LP58 "Alpha-copaene/delta-ca 0.583 0.198 0.376 1.2e-24
UNIPROTKB|B3TPQ6 550 B3TPQ6 "Beta-cubebene synthase 0.546 0.190 0.422 1.9e-23
UNIPROTKB|J7LJN5 555 J7LJN5 "Beta-caryophyllene syn 0.557 0.192 0.416 2.2e-23
TAIR|locus:2829283 600 TPS-CIN ""terpene synthase-lik 0.515 0.165 0.401 2.6e-23
TAIR|locus:2086014 600 TPS-CIN ""terpene synthase-lik 0.515 0.165 0.401 2.6e-23
TAIR|locus:2178657 547 TPS21 "terpene synthase 21" [A 0.473 0.166 0.352 1.3e-22
UNIPROTKB|B5A435 B5A435 "Sesquiterpene synthase" [Santalum album (taxid:35974)] Back     alignment and assigned GO terms
 Score = 246 (91.7 bits), Expect = 7.3e-33, Sum P(2) = 7.3e-33
 Identities = 54/130 (41%), Positives = 83/130 (63%)

Query:     8 YNETLLTFAKLASNKLQNLYQKELDDISR----IRLLYKLPFIRERIAKCYFWILGV--- 60
             +N+ LL  AKL  N LQ+L++KEL D++R    +    K PF R+R+ + YFW+LGV   
Sbjct:   232 HNKALLKLAKLDFNLLQSLHKKELSDMARWWKSLDFAAKFPFARDRLVEGYFWVLGVYFE 291

Query:    61 -------RILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIE----SAIDKLPKYMKLCHR 109
                    +I+ KV +M S IDDIYD YG + ELE FT A++     ++D+LP+YMK C++
Sbjct:   292 PQYSLARKIIIKVFTMISTIDDIYDAYGTLDELELFTKAMQRWDVGSLDQLPEYMKPCYK 351

Query:   110 GLLEMKNVVK 119
              +L++ N ++
Sbjct:   352 SILDVYNEIE 361
GO:0010334 "sesquiterpene synthase activity" evidence=IDA
GO:0033383 "geranyl diphosphate metabolic process" evidence=IDA
UNIPROTKB|B2KSJ5 B2KSJ5 "(+)-gamma-cadinene synthase" [Cucumis melo (taxid:3656)] Back     alignment and assigned GO terms
UNIPROTKB|B2KSJ6 B2KSJ6 "Alpha-farnesene synthase" [Cucumis melo (taxid:3656)] Back     alignment and assigned GO terms
UNIPROTKB|J7LMP2 J7LMP2 "Bicyclogermacrene synthase" [Phyla dulcis (taxid:542674)] Back     alignment and assigned GO terms
UNIPROTKB|J7LP58 J7LP58 "Alpha-copaene/delta-cadinene synthase" [Phyla dulcis (taxid:542674)] Back     alignment and assigned GO terms
UNIPROTKB|B3TPQ6 B3TPQ6 "Beta-cubebene synthase" [Magnolia grandiflora (taxid:3406)] Back     alignment and assigned GO terms
UNIPROTKB|J7LJN5 J7LJN5 "Beta-caryophyllene synthase" [Phyla dulcis (taxid:542674)] Back     alignment and assigned GO terms
TAIR|locus:2829283 TPS-CIN ""terpene synthase-like sequence-1,8-cineole"" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2086014 TPS-CIN ""terpene synthase-like sequence-1,8-cineole"" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2178657 TPS21 "terpene synthase 21" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer4.2.3LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query192
cd00684542 cd00684, Terpene_cyclase_plant_C1, Plant Terpene C 1e-41
pfam03936270 pfam03936, Terpene_synth_C, Terpene synthase famil 2e-34
cd00868284 cd00868, Terpene_cyclase_C1, Terpene cyclases, Cla 2e-27
cd00684542 cd00684, Terpene_cyclase_plant_C1, Plant Terpene C 8e-09
PLN0215096 PLN02150, PLN02150, terpene synthase/cyclase famil 3e-06
PLN02279 784 PLN02279, PLN02279, ent-kaur-16-ene synthase 1e-05
>gnl|CDD|173832 cd00684, Terpene_cyclase_plant_C1, Plant Terpene Cyclases, Class 1 Back     alignment and domain information 
 Score =  146 bits (371), Expect = 1e-41
 Identities = 75/178 (42%), Positives = 98/178 (55%), Gaps = 42/178 (23%)

Query: 9   NETLLTFAKLASNKLQNLYQKELDDISR----IRLLYKLPFIRERIAKCYFWILGV---- 60
           NETLL  AKL  N LQ L+Q+EL  +SR    + L  KLPF R+R+ +CYFW  G     
Sbjct: 218 NETLLELAKLDFNILQALHQEELKILSRWWKDLDLASKLPFARDRLVECYFWAAGTYFEP 277

Query: 61  -----RI-LTKVVSMTSAIDDIYDVYGKIKELEPFTSAIE----SAIDKLPKYMKLCHRG 110
                RI L K +++ + IDD YDVYG ++ELE FT A+E    SAID+LP+YMK+  + 
Sbjct: 278 QYSLARIALAKTIALITVIDDTYDVYGTLEELELFTEAVERWDISAIDQLPEYMKIVFKA 337

Query: 111 LL------------------------EMKNVVKIYFFEAKWYHQNYVSSMKEYMTVAL 144
           LL                          K++VK Y  EAKW H+ YV + +EYM  AL
Sbjct: 338 LLNTVNEIEEELLKEGGSYVVPYLKEAWKDLVKAYLVEAKWAHEGYVPTFEEYMENAL 395

This CD includes a diverse group of monomeric plant terpene cyclases (Tspa-Tspf) that convert the acyclic isoprenoid diphosphates, geranyl diphosphate (GPP), farnesyl diphosphate (FPP), or geranylgeranyl diphosphate (GGPP) into cyclic monoterpenes, diterpenes, or sesquiterpenes, respectively; a few form acyclic species. Terpnoid cyclases are soluble enzymes localized to the cytosol (sesquiterpene synthases) or plastids (mono- and diterpene synthases). All monoterpene and diterpene synthases have restrict substrate specificity, however, some sesquiterpene synthases can accept both FPP and GPP. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions located on opposite walls. These residues mediate binding of prenyl diphosphates, via bridging Mg2+ ions (K+ preferred by gymnosperm cyclases), inducing conformational changes such that an N-terminal region forms a cap over the catalytic core. Loss of diphosphate from the enzyme-bound substrate (GPP, FPP, or GGPP) results in an allylic carbocation that electrophilically attacks a double bond further down the terpene chain to effect the first ring closure. Unlike monoterpene, sesquiterene, and macrocyclic diterpenes synthases, which undergo substrate ionization by diphosphate ester scission, Tpsc-like diterpene synthases catalyze cyclization reactions by an initial protonation step producing a copalyl diphosphate intermediate. These enzymes lack the aspartate-rich sequences mentioned above. Most diterpene synthases have an N-terminal, internal element (approx 210 aa) whose function is unknown. Length = 542
>gnl|CDD|202816 pfam03936, Terpene_synth_C, Terpene synthase family, metal binding domain Back     alignment and domain information
>gnl|CDD|173837 cd00868, Terpene_cyclase_C1, Terpene cyclases, Class 1 Back     alignment and domain information
>gnl|CDD|173832 cd00684, Terpene_cyclase_plant_C1, Plant Terpene Cyclases, Class 1 Back     alignment and domain information
>gnl|CDD|177811 PLN02150, PLN02150, terpene synthase/cyclase family protein Back     alignment and domain information
>gnl|CDD|177918 PLN02279, PLN02279, ent-kaur-16-ene synthase Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 192
PLN02279784 ent-kaur-16-ene synthase 100.0
cd00684542 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, C 100.0
PLN02592800 ent-copalyl diphosphate synthase 100.0
PF03936270 Terpene_synth_C: Terpene synthase family, metal bi 99.9
cd00868284 Terpene_cyclase_C1 Terpene cyclases, Class 1. Terp 99.76
PLN0215096 terpene synthase/cyclase family protein 99.62
cd00687303 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cycl 98.96
cd00385243 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzym 97.52
>PLN02279 ent-kaur-16-ene synthase Back     alignment and domain information 
Probab=100.00  E-value=3.6e-58  Score=443.21  Aligned_cols=184  Identities=27%  Similarity=0.414  Sum_probs=173.4

Q ss_pred             cccHhHHHHHHHhhHHHHHHhHHHHhHhhhh---ccCCCCCccchhhhHHHHHHHHH----------HHHHHHHHHHHHH
Q 045169            7 IYNETLLTFAKLASNKLQNLYQKELDDISRI---RLLYKLPFIRERIAKCYFWILGV----------RILTKVVSMTSAI   73 (192)
Q Consensus         7 ~~n~~lLelAKldFn~~Q~~hq~El~~lsrW---~~~~~l~f~Rdr~ve~yf~~~~~----------i~~aK~~~l~t~l   73 (192)
                      .+|+++|||||+|||+||++||+||++|+||   ...++|||+|||++|||||++|+          ++|||+++|+|++
T Consensus       450 ~~n~~lLeLAklDFN~~Qs~hq~EL~~l~rWwke~~L~~L~faRdr~ve~Yf~aaa~~fEPe~S~aRi~~aK~~~L~tvi  529 (784)
T PLN02279        450 ICNQDFLKLAVEDFNFCQSIHREELKQLERWIVENRLDKLKFARQKLAYCYFSAAATLFSPELSDARLSWAKNGVLTTVV  529 (784)
T ss_pred             cccHHHHHHHHHHHHHHHHHHHHHHHHhCeeHHhcCCccCCchhhHHHHHHHHHHHhhcCchhhHHHHHHHHHHHHHHHH
Confidence            4899999999999999999999999999999   33379999999999999999999          9999999999999


Q ss_pred             HHHhhhcCChhhhHHHHHHHH----H-HhhhCchhHHHHHHHHH------------------------HHHHHHHHHHHH
Q 045169           74 DDIYDVYGKIKELEPFTSAIE----S-AIDKLPKYMKLCHRGLL------------------------EMKNVVKIYFFE  124 (192)
Q Consensus        74 DD~~D~ygt~eEl~~ft~ai~----~-~~~~Lp~ymk~~f~~l~------------------------~~~~l~~~yl~E  124 (192)
                      ||+||+|||+|||++||+|||    + +++.+|+|||+||.+++                        +|++++++|++|
T Consensus       530 DD~fD~yGt~eEL~~ft~aVeRWD~~~~~~~lpeymki~f~aL~~t~nei~~~~~~~qGr~v~~~l~~aW~~ll~ayl~E  609 (784)
T PLN02279        530 DDFFDVGGSEEELENLIQLVEKWDVNGSPDFCSEQVEIIFSALRSTISEIGDKAFTWQGRNVTSHIIKIWLDLLKSMLTE  609 (784)
T ss_pred             HHHhhccCCHHHHHHHHHHHHHhccccchhhCcHHHHHHHHHHHHHHHHHHHHHHHHcCchHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999    4 56899999999999999                        899999999999


Q ss_pred             HHHhcCCCccCHHHHHHHHH------------------------------------------------------------
Q 045169          125 AKWYHQNYVSSMKEYMTVAL------------------------------------------------------------  144 (192)
Q Consensus       125 akW~~~~~~Ps~eEYl~~~~------------------------------------------------------------  144 (192)
                      |+|+++||+||+||||+||.                                                            
T Consensus       610 AeW~~~g~vPT~eEYL~na~vS~~l~~i~l~~~~~~G~~l~eev~e~~~~~~L~~l~s~I~RLlNDI~S~e~E~~rG~~n  689 (784)
T PLN02279        610 AQWSSNKSTPTLDEYMTNAYVSFALGPIVLPALYLVGPKLSEEVVDSPELHKLYKLMSTCGRLLNDIRGFKRESKEGKLN  689 (784)
T ss_pred             HHHHhcCCCCCHHHHHhhchhhhhhHHHHHHHHHHhCCCCCHHHHhCcchhHHHHHHHHHHHHHHhccccHhHHhCCCcc
Confidence            99999999999999999987                                                            


Q ss_pred             --Hh---------------------------------H--------HHHHHHHHHHhhhhhhhcccCCCCCCCchhHHHH
Q 045169          145 --DC---------------------------------L--------HPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDF  181 (192)
Q Consensus       145 --ec---------------------------------l--------~~~~~~~~n~aR~~~~~Y~~~Dgft~~~~~lkd~  181 (192)
                        +|                                 |        ++|+++++|+||+++++|+++||||.+  +||++
T Consensus       690 sV~cYMke~~~gvSeEEAi~~i~~~Ie~~wKeLn~~~l~~~~~~vp~~~~~~~ln~aR~~~~~Y~~~Dgyt~~--~~k~~  767 (784)
T PLN02279        690 AVSLHMIHGNGNSTEEEAIESMKGLIESQRRELLRLVLQEKGSNVPRECKDLFWKMSKVLHLFYRKDDGFTSN--DMMSL  767 (784)
T ss_pred             eehhhhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHhhhhheeCCCCCChH--HHHHH
Confidence              11                                 1        899999999999999999999999964  69999


Q ss_pred             HHHhhhcccCC
Q 045169          182 VVSLLVNPMPL  192 (192)
Q Consensus       182 I~sll~ePv~i  192 (192)
                      |+++|++||++
T Consensus       768 i~~ll~ePi~l  778 (784)
T PLN02279        768 VKSVIYEPVSL  778 (784)
T ss_pred             HHHHhccCCcC
Confidence            99999999985

>cd00684 Terpene_cyclase_plant_C1 Plant Terpene Cyclases, Class 1 Back     alignment and domain information
>PLN02592 ent-copalyl diphosphate synthase Back     alignment and domain information
>PF03936 Terpene_synth_C: Terpene synthase family, metal binding domain; InterPro: IPR005630 Sequences containing this domain belong to the terpene synthase family Back     alignment and domain information
>cd00868 Terpene_cyclase_C1 Terpene cyclases, Class 1 Back     alignment and domain information
>PLN02150 terpene synthase/cyclase family protein Back     alignment and domain information
>cd00687 Terpene_cyclase_nonplant_C1 Non-plant Terpene Cyclases, Class 1 Back     alignment and domain information
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1 Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query192
1n1b_A549 Crystal Structure Of (+)-bornyl Diphosphate Synthas 4e-24
5eas_A 548 5-Epi-Aristolochene Synthase From Nicotiana Tabacum 3e-23
5eau_A 548 5-Epi-Aristolochene Synthase From Nicotiana Tabacum 3e-23
5eat_A 548 5-Epi-Aristolochene Synthase From Nicotiana Tabacum 3e-23
3m01_A 550 The Crystal Structure Of 5-Epi-Aristolochene Syntha 3e-23
4di5_A 535 Co-Crystal Structure Of Wt 5-Epi-Aristolochene Synt 3e-23
1hxc_A 548 Crystal Structure Of Teas C440w Length = 548 3e-23
3lz9_A 550 The Crystal Structure Of 5-Epi-Aristolochene Syntha 4e-23
3g4d_A 554 Crystal Structure Of (+)-Delta-Cadinene Synthase Fr 4e-23
3g4d_A554 Crystal Structure Of (+)-Delta-Cadinene Synthase Fr 2e-04
2j5c_A569 Rational Conversion Of Substrate And Product Specif 1e-22
1hx9_A 548 Crystal Structure Of Teas W273s Form 1 Length = 548 1e-21
1hxg_A 548 Crystal Structure Of Teas W273sC440W Length = 548 1e-21
2ong_A543 Crystal Structure Of Of Limonene Synthase With 2- F 5e-18
3n0f_A 555 Crystal Structure Of Isoprene Synthase From Grey Po 7e-17
3s9v_A 785 Abietadiene Synthase From Abies Grandis Length = 78 2e-13
3sae_A 817 Structure Of A Three-Domain Sesquiterpene Synthase: 2e-11
3p5p_A 764 Crystal Structure Of Taxadiene Synthase From Pacifi 8e-07
>pdb|1N1B|A Chain A, Crystal Structure Of (+)-bornyl Diphosphate Synthase From Sage Length = 549 Back     alignment and structure 
Iteration: 1

 Score =  107 bits (267), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 70/222 (31%), Positives = 109/222 (49%), Gaps = 51/222 (22%)
Query: 9   NETLLTFAKLASNKLQNLYQKELDDISRI--RLLY--KLPFIRERIAKCYFWILGV---- 60
           N  +   AKL  N +Q  +Q+EL D+SR   RL +  KLPF+R+R+ + +FW +G+    
Sbjct: 223 NPLIFELAKLNFNIIQATHQQELKDLSRWWSRLCFPEKLPFVRDRLVESFFWAVGMFEPH 282
Query: 61  ------RILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIE----SAIDKLPKYMKLCHRG 110
                 ++   ++ + + IDDIYDVYG + ELE FT   +     +I +LP YM+LC+ G
Sbjct: 283 QHGYQRKMAATIIVLATVIDDIYDVYGTLDELELFTDTFKRWDTESITRLPYYMQLCYWG 342
Query: 111 LL------------------------EMKNVVKIYFFEAKWYHQNYVSSMKEYMTVAL-- 144
           +                          + ++V+ YF EAKWYH  Y  S+ EY+ +A   
Sbjct: 343 VHNYISDAAYDILKEHGFFCLQYLRKSVVDLVEAYFHEAKWYHSGYTPSLDEYLNIAKIS 402
Query: 145 ----DCLHPILMGILNLTH---AIDVIYKYEDGYTHVGIVLK 179
                 + P      N +H    ID +Y+Y D     GI+L+
Sbjct: 403 VASPAIISPTYFTFANASHDTAVIDSLYQYHDILCLAGIILR 444
>pdb|5EAS|A Chain A, 5-Epi-Aristolochene Synthase From Nicotiana Tabacum Length = 548 Back     alignment and structure
>pdb|5EAU|A Chain A, 5-Epi-Aristolochene Synthase From Nicotiana Tabacum Length = 548 Back     alignment and structure
>pdb|5EAT|A Chain A, 5-Epi-Aristolochene Synthase From Nicotiana Tabacum With Substrate Analog Farnesyl Hydroxyphosphonate Length = 548 Back     alignment and structure
>pdb|3M01|A Chain A, The Crystal Structure Of 5-Epi-Aristolochene Synthase Complexed With (2-Trans,6-Trans)-2-Fluorofarnesyl Diphosphate Length = 550 Back     alignment and structure
>pdb|4DI5|A Chain A, Co-Crystal Structure Of Wt 5-Epi-Aristolochene Synthase From Nicotiana Tobaccum With Geraniline Length = 535 Back     alignment and structure
>pdb|1HXC|A Chain A, Crystal Structure Of Teas C440w Length = 548 Back     alignment and structure
>pdb|3LZ9|A Chain A, The Crystal Structure Of 5-Epi-Aristolochene Synthase M4 Mut Complexed With (2-Trans,6-Trans)-2-Fluorofarnesyl Diphospha Length = 550 Back     alignment and structure
>pdb|3G4D|A Chain A, Crystal Structure Of (+)-Delta-Cadinene Synthase From Gossypium Arboreum And Evolutionary Divergence Of Metal Binding Motifs For Catalysis Length = 554 Back     alignment and structure
>pdb|3G4D|A Chain A, Crystal Structure Of (+)-Delta-Cadinene Synthase From Gossypium Arboreum And Evolutionary Divergence Of Metal Binding Motifs For Catalysis Length = 554 Back     alignment and structure
>pdb|2J5C|A Chain A, Rational Conversion Of Substrate And Product Specificity In A Monoterpene Synthase. Structural Insights Into The Molecular Basis Of Rapid Evolution. Length = 569 Back     alignment and structure
>pdb|1HX9|A Chain A, Crystal Structure Of Teas W273s Form 1 Length = 548 Back     alignment and structure
>pdb|1HXG|A Chain A, Crystal Structure Of Teas W273sC440W Length = 548 Back     alignment and structure
>pdb|2ONG|A Chain A, Crystal Structure Of Of Limonene Synthase With 2- Fluorogeranyl Diphosphate (Fgpp). Length = 543 Back     alignment and structure
>pdb|3N0F|A Chain A, Crystal Structure Of Isoprene Synthase From Grey Poplar Leaves (Populus X Canescens) Length = 555 Back     alignment and structure
>pdb|3S9V|A Chain A, Abietadiene Synthase From Abies Grandis Length = 785 Back     alignment and structure
>pdb|3SAE|A Chain A, Structure Of A Three-Domain Sesquiterpene Synthase: A Prospective Target For Advanced Biofuels Production Length = 817 Back     alignment and structure
>pdb|3P5P|A Chain A, Crystal Structure Of Taxadiene Synthase From Pacific Yew (Taxus Brevifolia) In Complex With Mg2+ And 13-Aza-13,14-Dihydrocopalyl Diphosphate Length = 764 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query192
3m00_A550 Aristolochene synthase; plant terpenoid cyclase, l 7e-26
3m00_A550 Aristolochene synthase; plant terpenoid cyclase, l 1e-08
2j5c_A569 1,8-cineole synthase; terpene synthases, 1, monote 1e-24
2j5c_A569 1,8-cineole synthase; terpene synthases, 1, monote 3e-07
3sdr_A 817 Alpha-bisabolene synthase; lyase, terpene synthase 2e-24
3sdr_A817 Alpha-bisabolene synthase; lyase, terpene synthase 5e-11
3s9v_A785 Abietadiene synthase, chloroplastic; alpha bundle/ 2e-24
3s9v_A785 Abietadiene synthase, chloroplastic; alpha bundle/ 1e-07
3n0f_A 555 Isoprene synthase; terpene cyclase fold, hemiterpe 5e-24
3n0f_A555 Isoprene synthase; terpene cyclase fold, hemiterpe 4e-09
3g4d_A 554 (+)-delta-cadinene synthase isozyme XC1; cyclase, 9e-24
3g4d_A554 (+)-delta-cadinene synthase isozyme XC1; cyclase, 3e-10
3p5p_A 764 Taxadiene synthase; class I and II terpene cyclase 3e-23
3p5p_A764 Taxadiene synthase; class I and II terpene cyclase 3e-10
1n1b_A 549 (+)-bornyl diphosphate synthase; terpene synthase 3e-23
1n1b_A549 (+)-bornyl diphosphate synthase; terpene synthase 2e-08
2ong_A543 4S-limonene synthase; monoterpene synthase, monote 2e-20
2ong_A543 4S-limonene synthase; monoterpene synthase, monote 2e-09
3pya_A727 ENT-copalyl diphosphate synthase, chloroplastic; c 4e-18
3kb9_A 382 EPI-isozizaene synthase; terpenoid cyclase, alpha- 5e-05
1ps1_A 337 Pentalenene synthase; antibiotic biosynthesis, ses 5e-05
>3m00_A Aristolochene synthase; plant terpenoid cyclase, lyase binding domain, (2-CIS, 6-trans)-2-fluorofarnesyl diphospha magnesium, metal-binding; HET: 2CF; 2.10A {Nicotiana tabacum} PDB: 3lz9_A* 3m02_A* 3m01_A* 5eau_A* 1hxa_A* 1hx9_A* 1hxc_A* 5eas_A 1hxg_A 4di5_A* 5eat_A* Length = 550 Back     alignment and structure
 Score =  102 bits (255), Expect = 7e-26
 Identities = 64/216 (29%), Positives = 97/216 (44%), Gaps = 49/216 (22%)

Query: 3   KCKKIYNETLLTFAKLASNKLQNLYQKELDDISRI----RLLYKLPFIRERIAKCYFWIL 58
             ++  N  LL FAKL  N LQ L+++EL  +SR       +  LP+ R+R+ +CYFW L
Sbjct: 218 DKEQSKNNVLLRFAKLDFNLLQMLHKQELAQVSRWWKDLDFVTTLPYARDRVVECYFWTL 277

Query: 59  GV----------RILTKVVSMTSAIDDIYDVYGKIKELEPFTSAI----ESAIDKLPKYM 104
           GV           +L K +SM S +DD +D YG +KELE +T AI     + ID+LP YM
Sbjct: 278 GVYFEPQYSQARVMLVKTISMISIVDDTFDAYGTVKELEAYTDAIQRWDINEIDRLPDYM 337

Query: 105 KLCHRGLL------------------------EMKNVVKIYFFEAKWYHQNYVSSMKEYM 140
           K+ ++ +L                         MK +V+ Y  E+ W+ + Y   + EY+
Sbjct: 338 KISYKAILDLYKDYEKELSSAGRSHIVCHAIERMKEIVRNYNVESTWFIEGYTPPVSEYL 397

Query: 141 TVALD-------CLHPILMGILNLTHAIDVIYKYED 169
           + AL             L          + + K   
Sbjct: 398 SNALATTTYYLLATTSYLGMKSATEQDFEWLSKNPK 433
>3m00_A Aristolochene synthase; plant terpenoid cyclase, lyase binding domain, (2-CIS, 6-trans)-2-fluorofarnesyl diphospha magnesium, metal-binding; HET: 2CF; 2.10A {Nicotiana tabacum} PDB: 3lz9_A* 3m02_A* 3m01_A* 5eau_A* 1hxa_A* 1hx9_A* 1hxc_A* 5eas_A 1hxg_A 4di5_A* 5eat_A* Length = 550 Back     alignment and structure
>2j5c_A 1,8-cineole synthase; terpene synthases, 1, monoterpene, lyase; 1.95A {Salvia fruticosa} Length = 569 Back     alignment and structure
>2j5c_A 1,8-cineole synthase; terpene synthases, 1, monoterpene, lyase; 1.95A {Salvia fruticosa} Length = 569 Back     alignment and structure
>3sdr_A Alpha-bisabolene synthase; lyase, terpene synthase; HET: 210; 1.86A {Abies grandis} PDB: 3sdq_A 3sae_A* 3sdt_A* 3sdu_A* 3sdv_A* Length = 817 Back     alignment and structure
>3sdr_A Alpha-bisabolene synthase; lyase, terpene synthase; HET: 210; 1.86A {Abies grandis} PDB: 3sdq_A 3sae_A* 3sdt_A* 3sdu_A* 3sdv_A* Length = 817 Back     alignment and structure
>3s9v_A Abietadiene synthase, chloroplastic; alpha bundle/barrel, lyase, isomerase; 2.30A {Abies grandis} Length = 785 Back     alignment and structure
>3s9v_A Abietadiene synthase, chloroplastic; alpha bundle/barrel, lyase, isomerase; 2.30A {Abies grandis} Length = 785 Back     alignment and structure
>3n0f_A Isoprene synthase; terpene cyclase fold, hemiterpene synthase, DDXXD motif, NSE motif, lyase; 2.70A {Populus tremula x populus alba} PDB: 3n0g_A* Length = 555 Back     alignment and structure
>3n0f_A Isoprene synthase; terpene cyclase fold, hemiterpene synthase, DDXXD motif, NSE motif, lyase; 2.70A {Populus tremula x populus alba} PDB: 3n0g_A* Length = 555 Back     alignment and structure
>3g4d_A (+)-delta-cadinene synthase isozyme XC1; cyclase, lyase, magnesium, metal-binding; 2.40A {Gossypium arboreum} PDB: 3g4f_A* Length = 554 Back     alignment and structure
>3g4d_A (+)-delta-cadinene synthase isozyme XC1; cyclase, lyase, magnesium, metal-binding; 2.40A {Gossypium arboreum} PDB: 3g4f_A* Length = 554 Back     alignment and structure
>3p5p_A Taxadiene synthase; class I and II terpene cyclase fold, diterpene cyclase, DDXX NSE/DTE motif, 3-azacopalyl diphosphate; HET: A3C; 1.82A {Taxus brevifolia} PDB: 3p5r_A* Length = 764 Back     alignment and structure
>3p5p_A Taxadiene synthase; class I and II terpene cyclase fold, diterpene cyclase, DDXX NSE/DTE motif, 3-azacopalyl diphosphate; HET: A3C; 1.82A {Taxus brevifolia} PDB: 3p5r_A* Length = 764 Back     alignment and structure
>1n1b_A (+)-bornyl diphosphate synthase; terpene synthase fold, isomerase; 2.00A {Salvia officinalis} SCOP: a.102.4.1 a.128.1.3 PDB: 1n1z_A* 1n20_A* 1n21_A* 1n22_A* 1n23_A* 1n24_A* Length = 549 Back     alignment and structure
>1n1b_A (+)-bornyl diphosphate synthase; terpene synthase fold, isomerase; 2.00A {Salvia officinalis} SCOP: a.102.4.1 a.128.1.3 PDB: 1n1z_A* 1n20_A* 1n21_A* 1n22_A* 1n23_A* 1n24_A* Length = 549 Back     alignment and structure
>2ong_A 4S-limonene synthase; monoterpene synthase, monoterpene cyclase, geranyl diphosphate, 2 fluorogeranyl diphosphate linalyl diphosphate; HET: FPG BTB; 2.70A {Mentha spicata} PDB: 2onh_A* Length = 543 Back     alignment and structure
>2ong_A 4S-limonene synthase; monoterpene synthase, monoterpene cyclase, geranyl diphosphate, 2 fluorogeranyl diphosphate linalyl diphosphate; HET: FPG BTB; 2.70A {Mentha spicata} PDB: 2onh_A* Length = 543 Back     alignment and structure
>3pya_A ENT-copalyl diphosphate synthase, chloroplastic; class I and II terpene cyclase fold, class II diterpene CYCL DXXDD motif; HET: AG8 1PE; 2.25A {Arabidopsis thaliana} PDB: 3pyb_A* Length = 727 Back     alignment and structure
>3kb9_A EPI-isozizaene synthase; terpenoid cyclase, alpha-helical fold, farnesyl diphosphate, metal-binding, lyase, magnesium; HET: BTM; 1.60A {Streptomyces coelicolor} PDB: 3kbk_A 3lgk_A 3lg5_A* Length = 382 Back     alignment and structure
>1ps1_A Pentalenene synthase; antibiotic biosynthesis, sesquiterpene cyclase, lyase; 2.60A {Streptomyces SP} SCOP: a.128.1.4 PDB: 1hm7_A 1hm4_A Length = 337 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query192
3g4d_A554 (+)-delta-cadinene synthase isozyme XC1; cyclase, 100.0
3m00_A550 Aristolochene synthase; plant terpenoid cyclase, l 100.0
3n0f_A555 Isoprene synthase; terpene cyclase fold, hemiterpe 100.0
3sdr_A817 Alpha-bisabolene synthase; lyase, terpene synthase 100.0
3s9v_A785 Abietadiene synthase, chloroplastic; alpha bundle/ 100.0
3p5p_A764 Taxadiene synthase; class I and II terpene cyclase 100.0
2ong_A543 4S-limonene synthase; monoterpene synthase, monote 100.0
1n1b_A549 (+)-bornyl diphosphate synthase; terpene synthase 100.0
2j5c_A569 1,8-cineole synthase; terpene synthases, 1, monote 100.0
3pya_A727 ENT-copalyl diphosphate synthase, chloroplastic; c 100.0
1di1_A300 Aristolochene synthase; sesquiterpene cyclase, iso 99.87
1ps1_A337 Pentalenene synthase; antibiotic biosynthesis, ses 99.87
3bny_A320 Aristolochene synthase; sesquiterpene cyclase, iso 99.85
3kb9_A 382 EPI-isozizaene synthase; terpenoid cyclase, alpha- 99.77
3v1v_A433 2-MIB synthase, 2-methylisoborneol synthase; class 98.46
>3g4d_A (+)-delta-cadinene synthase isozyme XC1; cyclase, lyase, magnesium, metal-binding; 2.40A {Gossypium arboreum} PDB: 3g4f_A* Back     alignment and structure
Probab=100.00  E-value=1.8e-65  Score=478.19  Aligned_cols=189  Identities=46%  Similarity=0.758  Sum_probs=175.6

Q ss_pred             ccccccHhHHHHHHHhhHHHHHHhHHHHhHhhhh----ccCCCCCccchhhhHHHHHHHHH----------HHHHHHHHH
Q 045169            4 CKKIYNETLLTFAKLASNKLQNLYQKELDDISRI----RLLYKLPFIRERIAKCYFWILGV----------RILTKVVSM   69 (192)
Q Consensus         4 ~~~~~n~~lLelAKldFn~~Q~~hq~El~~lsrW----~~~~~l~f~Rdr~ve~yf~~~~~----------i~~aK~~~l   69 (192)
                      .++.+|++||||||+|||+||++||+||++++||    ++.++|||+|||+||||||++|+          +++||++++
T Consensus       223 ~~~~~n~~lLelAkldFn~~Q~~hq~El~~l~rWwk~~~l~~~L~faRdr~ve~yfw~~~~~feP~~s~~R~~~aK~~~l  302 (554)
T 3g4d_A          223 DIESHNKALLEFAKIDFNMLQFLHRKELSEICRWWKDLDFQRKLPYARDRVVEGYFWISGVYFEPQYSLGRKMLTKVIAM  302 (554)
T ss_dssp             SSTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHCTTCCCCHHHHHHHHHHHCCSGGGHHHHHHHHHHHHH
T ss_pred             cCccccHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCcccCCchHHHHHHHHHHHHHhhCCccccHHHHHHHHHHHH
Confidence            3567899999999999999999999999999999    66689999999999999999999          999999999


Q ss_pred             HHHHHHHhhhcCChhhhHHHHHHHH----HHhhhCchhHHHHHHHHH------------------------HHHHHHHHH
Q 045169           70 TSAIDDIYDVYGKIKELEPFTSAIE----SAIDKLPKYMKLCHRGLL------------------------EMKNVVKIY  121 (192)
Q Consensus        70 ~t~lDD~~D~ygt~eEl~~ft~ai~----~~~~~Lp~ymk~~f~~l~------------------------~~~~l~~~y  121 (192)
                      +|++||+||+|||+|||++||+||+    +++++||+|||+||.+++                        +|++++++|
T Consensus       303 ~tviDD~yD~ygTleEl~~ft~ai~RWD~~~~~~LPeymK~~f~al~~~~~e~~~~~~~~~~~~~~~ylk~~w~~l~~ay  382 (554)
T 3g4d_A          303 ASIVDDTYDSYATYEELIPYTNAIERWDIKCIDEIPEYMKPSYKALLDVYEEMVQLVAEHGRQYRVEYAKNAMIRLAQSY  382 (554)
T ss_dssp             HHHHHHHHTSSCCHHHHHHHHHHHHHCCGGGGGGSCGGGHHHHHHHHHHHHHHHHHHGGGTCTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCHHHHHHHHHHHHhcCccccccCcHHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999    899999999999999999                        799999999


Q ss_pred             HHHHHHhcCCCccCHHHHHHHHH---------------------------------------------------------
Q 045169          122 FFEAKWYHQNYVSSMKEYMTVAL---------------------------------------------------------  144 (192)
Q Consensus       122 l~EakW~~~~~~Ps~eEYl~~~~---------------------------------------------------------  144 (192)
                      ++||||+++||+||+||||+||.                                                         
T Consensus       383 l~EAkW~~~gyvPT~EEYl~na~vSsg~~~l~~~~~~~mg~~lt~e~~e~~~~~p~i~~~~~~I~RL~NDI~S~k~E~~r  462 (554)
T 3g4d_A          383 LVEAKWTLQNYKPSFEEFKANALPTCGYAMLAITSFVGMGDIVTPETFKWAASDPKIIQASTIICRFMDDVAEHKFKHRR  462 (554)
T ss_dssp             HHHHHHHHTTCCCCHHHHHHHHGGGSCHHHHHHHHHHTSCTTSCHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHCC----
T ss_pred             HHHHHHHhcCCCCCHHHHHhccceeehHHHHHHHHHHhcCCCCCHHHHHhccccHHHHHHHHHHHHHhcccchhhhhhcc
Confidence            99999999999999999999998                                                         


Q ss_pred             -------Hh-------------------------------H------HHHHHHHHHHhhhhhhhcccCCCCCCCchhHHH
Q 045169          145 -------DC-------------------------------L------HPILMGILNLTHAIDVIYKYEDGYTHVGIVLKD  180 (192)
Q Consensus       145 -------ec-------------------------------l------~~~~~~~~n~aR~~~~~Y~~~Dgft~~~~~lkd  180 (192)
                             +|                               |      +||+++++|+||+++++|++|||||.|+..+|+
T Consensus       463 G~van~V~cYMke~GvSeEeA~~~i~~~Ie~~wK~lN~e~l~~~~~p~~~~~~~~NlaR~~~~~Y~~~Dg~t~~~~~~k~  542 (554)
T 3g4d_A          463 EDDCSAIECYMEEYGVTAQEAYDVFNKHVESAWKDLNQEFLKPTEMPTEVLNRSLNLARVMDVLYREGDGYTYVGKAAKG  542 (554)
T ss_dssp             --CCCHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHHSSSCSSCHHHHHHHHHHHHHHHHHSCC-----CCCHHHHH
T ss_pred             CCccHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCccHHHHH
Confidence                   22                               2      799999999999999999999999999878999


Q ss_pred             HHHHhhhcccCC
Q 045169          181 FVVSLLVNPMPL  192 (192)
Q Consensus       181 ~I~sll~ePv~i  192 (192)
                      +|++||++|||+
T Consensus       543 ~i~~ll~~Pi~l  554 (554)
T 3g4d_A          543 GITSLLIEPIAL  554 (554)
T ss_dssp             HHHHHHTCCCCC
T ss_pred             HHHHHhcCCCCC
Confidence            999999999986
>3m00_A Aristolochene synthase; plant terpenoid cyclase, lyase binding domain, (2-CIS, 6-trans)-2-fluorofarnesyl diphospha magnesium, metal-binding; HET: 2CF; 2.10A {Nicotiana tabacum} PDB: 3lz9_A* 3m02_A* 3m01_A* 5eau_A* 1hxa_A* 1hx9_A* 1hxc_A* 5eas_A 1hxg_A 4di5_A* 5eat_A* Back     alignment and structure
>3n0f_A Isoprene synthase; terpene cyclase fold, hemiterpene synthase, DDXXD motif, NSE motif, lyase; 2.70A {Populus tremula x populus alba} PDB: 3n0g_A* Back     alignment and structure
>3sdr_A Alpha-bisabolene synthase; lyase, terpene synthase; HET: 210; 1.86A {Abies grandis} PDB: 3sdq_A 3sae_A* 3sdt_A* 3sdu_A* 3sdv_A* Back     alignment and structure
>3s9v_A Abietadiene synthase, chloroplastic; alpha bundle/barrel, lyase, isomerase; 2.30A {Abies grandis} Back     alignment and structure
>3p5p_A Taxadiene synthase; class I and II terpene cyclase fold, diterpene cyclase, DDXX NSE/DTE motif, 3-azacopalyl diphosphate; HET: A3C; 1.82A {Taxus brevifolia} PDB: 3p5r_A* Back     alignment and structure
>2ong_A 4S-limonene synthase; monoterpene synthase, monoterpene cyclase, geranyl diphosphate, 2 fluorogeranyl diphosphate linalyl diphosphate; HET: FPG BTB; 2.70A {Mentha spicata} PDB: 2onh_A* Back     alignment and structure
>1n1b_A (+)-bornyl diphosphate synthase; terpene synthase fold, isomerase; 2.00A {Salvia officinalis} SCOP: a.102.4.1 a.128.1.3 PDB: 1n1z_A* 1n20_A* 1n21_A* 1n22_A* 1n23_A* 1n24_A* Back     alignment and structure
>2j5c_A 1,8-cineole synthase; terpene synthases, 1, monoterpene, lyase; 1.95A {Salvia fruticosa} Back     alignment and structure
>3pya_A ENT-copalyl diphosphate synthase, chloroplastic; class I and II terpene cyclase fold, class II diterpene CYCL DXXDD motif; HET: AG8 1PE; 2.25A {Arabidopsis thaliana} PDB: 3pyb_A* Back     alignment and structure
>1di1_A Aristolochene synthase; sesquiterpene cyclase, isoprenoid biosynthesis, lyase; 2.50A {Penicillium roqueforti} SCOP: a.128.1.4 PDB: 1dgp_A Back     alignment and structure
>1ps1_A Pentalenene synthase; antibiotic biosynthesis, sesquiterpene cyclase, lyase; 2.60A {Streptomyces SP} SCOP: a.128.1.4 PDB: 1hm7_A 1hm4_A Back     alignment and structure
>3bny_A Aristolochene synthase; sesquiterpene cyclase, isoprenoid, farnesyl diphosphate, magnesium, cyclization, lyase; HET: FPF; 1.89A {Aspergillus terreus} PDB: 2e4o_A 2oa6_A* 3bnx_A* 3cke_A* Back     alignment and structure
>3kb9_A EPI-isozizaene synthase; terpenoid cyclase, alpha-helical fold, farnesyl diphosphate, metal-binding, lyase, magnesium; HET: BTM; 1.60A {Streptomyces coelicolor} PDB: 3kbk_A 3lgk_A 3lg5_A* Back     alignment and structure
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid cyclase fold, DDXXXXD motif, NDXXSXXXE MOT methylisoborneol biosynthesis; HET: GST; 1.80A {Streptomyces coelicolor} PDB: 3v1x_A* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 192
d1n1ba2328 a.128.1.3 (A:271-598) (+)-bornyl diphosphate synth 1e-36
d1n1ba2328 a.128.1.3 (A:271-598) (+)-bornyl diphosphate synth 3e-08
d5easa2328 a.128.1.3 (A:221-548) 5-Epi-aristolochene synthase 6e-35
d5easa2328 a.128.1.3 (A:221-548) 5-Epi-aristolochene synthase 4e-08
d1ps1a_311 a.128.1.4 (A:) Pentalenene synthase {Streptomyces 2e-10
d1di1a_300 a.128.1.4 (A:) Aristolochene synthase {Fungus (Pen 6e-10
>d1n1ba2 a.128.1.3 (A:271-598) (+)-bornyl diphosphate synthase {Garden sage (Salvia officinalis) [TaxId: 38868]} Length = 328 Back     information, alignment and structure

class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Terpenoid cyclase C-terminal domain
domain: (+)-bornyl diphosphate synthase
species: Garden sage (Salvia officinalis) [TaxId: 38868]

 Score =  127 bits (321), Expect = 1e-36
 Identities = 68/222 (30%), Positives = 107/222 (48%), Gaps = 51/222 (22%)

Query: 9   NETLLTFAKLASNKLQNLYQKELDDISR----IRLLYKLPFIRERIAKCYFWILGV---- 60
           N  +   AKL  N +Q  +Q+EL D+SR    +    KLPF+R+R+ + +FW +G+    
Sbjct: 2   NPLIFELAKLNFNIIQATHQQELKDLSRWWSRLCFPEKLPFVRDRLVESFFWAVGMFEPH 61

Query: 61  ------RILTKVVSMTSAIDDIYDVYGKIKELEPFTSAIE----SAIDKLPKYMKLCHRG 110
                 ++   ++ + + IDDIYDVYG + ELE FT   +     +I +LP YM+LC+ G
Sbjct: 62  QHGYQRKMAATIIVLATVIDDIYDVYGTLDELELFTDTFKRWDTESITRLPYYMQLCYWG 121

Query: 111 LL------------------------EMKNVVKIYFFEAKWYHQNYVSSMKEYMTVAL-- 144
           +                          + ++V+ YF EAKWYH  Y  S+ EY+ +A   
Sbjct: 122 VHNYISDAAYDILKEHGFFCLQYLRKSVVDLVEAYFHEAKWYHSGYTPSLDEYLNIAKIS 181

Query: 145 ----DCLHPILMGILNLTH---AIDVIYKYEDGYTHVGIVLK 179
                 + P      N +H    ID +Y+Y D     GI+L+
Sbjct: 182 VASPAIISPTYFTFANASHDTAVIDSLYQYHDILCLAGIILR 223
>d1n1ba2 a.128.1.3 (A:271-598) (+)-bornyl diphosphate synthase {Garden sage (Salvia officinalis) [TaxId: 38868]} Length = 328 Back     information, alignment and structure
>d5easa2 a.128.1.3 (A:221-548) 5-Epi-aristolochene synthase {Tobacco (Nicotiana tabacum) [TaxId: 4097]} Length = 328 Back     information, alignment and structure
>d5easa2 a.128.1.3 (A:221-548) 5-Epi-aristolochene synthase {Tobacco (Nicotiana tabacum) [TaxId: 4097]} Length = 328 Back     information, alignment and structure
>d1ps1a_ a.128.1.4 (A:) Pentalenene synthase {Streptomyces sp., UC5319 [TaxId: 1931]} Length = 311 Back     information, alignment and structure
>d1di1a_ a.128.1.4 (A:) Aristolochene synthase {Fungus (Penicillium roqueforti) [TaxId: 5082]} Length = 300 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query192
d1n1ba2328 (+)-bornyl diphosphate synthase {Garden sage (Salv 100.0
d5easa2328 5-Epi-aristolochene synthase {Tobacco (Nicotiana t 100.0
d1ps1a_311 Pentalenene synthase {Streptomyces sp., UC5319 [Ta 99.14
d1di1a_300 Aristolochene synthase {Fungus (Penicillium roquef 98.33
>d1n1ba2 a.128.1.3 (A:271-598) (+)-bornyl diphosphate synthase {Garden sage (Salvia officinalis) [TaxId: 38868]} Back     information, alignment and structure
class: All alpha proteins
fold: Terpenoid synthases
superfamily: Terpenoid synthases
family: Terpenoid cyclase C-terminal domain
domain: (+)-bornyl diphosphate synthase
species: Garden sage (Salvia officinalis) [TaxId: 38868]

Probab=100.00  E-value=8.2e-68  Score=465.31  Aligned_cols=184  Identities=36%  Similarity=0.728  Sum_probs=173.3

Q ss_pred             ccHhHHHHHHHhhHHHHHHhHHHHhHhhhh----ccCCCCCccchhhhHHHHHHHHH----------HHHHHHHHHHHHH
Q 045169            8 YNETLLTFAKLASNKLQNLYQKELDDISRI----RLLYKLPFIRERIAKCYFWILGV----------RILTKVVSMTSAI   73 (192)
Q Consensus         8 ~n~~lLelAKldFn~~Q~~hq~El~~lsrW----~~~~~l~f~Rdr~ve~yf~~~~~----------i~~aK~~~l~t~l   73 (192)
                      +|++||||||+|||+||++||+||++|+||    ++.++|||+|||++|||||++|+          ++|||+++|++++
T Consensus         1 ~N~~lLelAKlDFn~~Q~~hq~El~~l~rWwk~~~l~~~l~faRdr~ve~Yfwa~~~~feP~~s~~Ri~~aK~~~l~~ii   80 (328)
T d1n1ba2           1 MNPLIFELAKLNFNIIQATHQQELKDLSRWWSRLCFPEKLPFVRDRLVESFFWAVGMFEPHQHGYQRKMAATIIVLATVI   80 (328)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHCTTSCCCHHHHHHHHHHHCCSTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhHHHhHHHHHHHHHHHHHHHHHhCCcccCCchHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHHHHHhh
Confidence            599999999999999999999999999999    66688999999999999999999          9999999999999


Q ss_pred             HHHhhhcCChhhhHHHHHHHH----HHhhhCchhHHHHHHHHH------------------------HHHHHHHHHHHHH
Q 045169           74 DDIYDVYGKIKELEPFTSAIE----SAIDKLPKYMKLCHRGLL------------------------EMKNVVKIYFFEA  125 (192)
Q Consensus        74 DD~~D~ygt~eEl~~ft~ai~----~~~~~Lp~ymk~~f~~l~------------------------~~~~l~~~yl~Ea  125 (192)
                      ||+||+|||+|||++||+||+    ++++.||+|||.||.+++                        +|++++++|++||
T Consensus        81 DD~yD~ygt~eEl~~ft~ai~rWd~~~~~~lp~ymk~~~~~l~~~~~e~~~~~~~~~g~~~~~~lk~~w~~l~~ayl~Ea  160 (328)
T d1n1ba2          81 DDIYDVYGTLDELELFTDTFKRWDTESITRLPYYMQLCYWGVHNYISDAAYDILKEHGFFCLQYLRKSVVDLVEAYFHEA  160 (328)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHTCSSGGGGSCHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHhcccCCHHHHHHHHHHHHhcCCcccccCcchHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999    799999999999999999                        8999999999999


Q ss_pred             HHhcCCCccCHHHHHHHHH-------------------------------------------------------------
Q 045169          126 KWYHQNYVSSMKEYMTVAL-------------------------------------------------------------  144 (192)
Q Consensus       126 kW~~~~~~Ps~eEYl~~~~-------------------------------------------------------------  144 (192)
                      ||.++||+||+||||+||.                                                             
T Consensus       161 kW~~~g~vPt~eEYl~~~~vS~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~i~RL~nDi~~~~~E~~rg~~  240 (328)
T d1n1ba2         161 KWYHSGYTPSLDEYLNIAKISVASPAIISPTYFTFANASHDTAVIDSLYQYHDILCLAGIILRLPDDLGTSYFELARGDV  240 (328)
T ss_dssp             HHHHHTCCCCHHHHHHHHHHHTCHHHHHHHHHTTSTTCCCCHHHHHHHHTTCHHHHHHHHHHHHHHHHC---------CC
T ss_pred             HHHhcCCCCCHHHHHhhceehhhHHHHHHHHHHhCCCccchHHHHHHHhccHHHHHHHHHHHHHHhhhhhHHHHHhcCCc
Confidence            9999999999999999998                                                             


Q ss_pred             ----Hh-------------------------------H------HHHHHHHHHHhhhhhhhcccCCCCCCCchhHHHHHH
Q 045169          145 ----DC-------------------------------L------HPILMGILNLTHAIDVIYKYEDGYTHVGIVLKDFVV  183 (192)
Q Consensus       145 ----ec-------------------------------l------~~~~~~~~n~aR~~~~~Y~~~Dgft~~~~~lkd~I~  183 (192)
                          +|                               +      ++++++++|+||+++++|++|||||+|++.+|++|+
T Consensus       241 ~s~v~cymke~~~s~eeA~~~i~~~ie~~wk~ln~e~l~~~~vp~~~~~~~ln~aR~~~~~Y~~~Dgyt~~~~~~k~~I~  320 (328)
T d1n1ba2         241 PKTIQCYMKETNASEEEAVEHVKFLIREAWKDMNTAIAAGYPFPDGMVAGAANIGRVAQFIYLHGDGFGVQHSKTYEHIA  320 (328)
T ss_dssp             CCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHTCCSSCHHHHHHHHHHHHHHHHHTTTSCCC----CHHHHHHH
T ss_pred             chHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCCcHHHHHHHH
Confidence                22                               1      899999999999999999999999999878999999


Q ss_pred             HhhhcccC
Q 045169          184 SLLVNPMP  191 (192)
Q Consensus       184 sll~ePv~  191 (192)
                      +||+|||.
T Consensus       321 ~ll~ePvs  328 (328)
T d1n1ba2         321 GLLFEPYA  328 (328)
T ss_dssp             HHHTSCCC
T ss_pred             HHhccCCC
Confidence            99999984
>d5easa2 a.128.1.3 (A:221-548) 5-Epi-aristolochene synthase {Tobacco (Nicotiana tabacum) [TaxId: 4097]} Back     information, alignment and structure
>d1ps1a_ a.128.1.4 (A:) Pentalenene synthase {Streptomyces sp., UC5319 [TaxId: 1931]} Back     information, alignment and structure
>d1di1a_ a.128.1.4 (A:) Aristolochene synthase {Fungus (Penicillium roqueforti) [TaxId: 5082]} Back     information, alignment and structure