Citrus Sinensis ID: 039955

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420

MPSLPPPYQHYHLKYHSCLKPKKPPLSLPSSSSSQRKTSLSSSSQRKTSSSSSSARTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDEPYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQANLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRPCNRRNVCFPLWSNTSVCDTLLLRCKRLFAAFGSTKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGNVIILAPNILSIEQAFGKTELVPCLMEKNTRSGGVAANTEADEDNGYVVSYVHDAKTGESKFLVTDAKSPHLDIEAVVKSTQSVPTGSHGLFVREIELRKLYKCKYPIT

cccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccEEEcccccccccccccccccccEEEEEEccccEEEEEEEEccccHHHHHHccccHHHHHHHccccccccccccccccEEEEEccEEEEEEcccccEEEEEcccccccccccccccccccccccccccccccccccccEEcccccccEEEEHHHHHcccEEEEEccccccEEEEEccccccccccEEEEcccccEEEEEcccccccccEEEEEEccHHHHHccccccccEEEEEEccccccccccccccccccEEEEEEccccccEEEEEEEEcccccccEEEEEEcccccccccccccccHHHHHHHHccccccc

cccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccccEEcccccccccccccccccEEEEccccccccccccccccEEEEEEEccccEEEEEEEEEcHHHHHHcccccccHHHHcccccccccccccccccEEEEEEccEEEEEEcccccEEEEEccccccccEEEcEEcccccccccEEEccccccccccEEEEccccccccccEEEEccEEEEEEEccccccEEEEEEccccccccEEEEEccccEEEEEEEcccccccEEEEEEcccccHHHHHHccccEEEEEEEEcccccEEEEEcccccccccEEEEccccccccEEEEEEcccccccEEEEEEEcccccccccEEEEEHHHHHHHHccccccc

mpslpppyqhyhlkyhsclkpkkpplslpsssssqrktslssssqrktssssssARTMIVNTINNLFNNLMmrnsnyklqpsldpkralsnnfapvdelpptqcqviqgslpscldepyhlfdgdamLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQANLISINNGFGLANASLSFLGDHLfaicegdlpyavrltsngdtdtktlgrhdfdvksgmnmtahpkkrpcnrrnvcfplwsntsvcDTLLLRCKRLFAAFgstkasrigviprcakdslqmrwfdvpgfnnihainewdeedgnviilapnILSIEQAfgktelvpclmekntrsggvaanteadedngyVVSYVHdaktgeskflvtdaksphldIEAVVKstqsvptgshglfVREIELRKLYKCKYPIT

MPSLPPPYQHYHLKYHSCLKPKKPPLslpsssssqrktslssssqrktssssssarTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDEPYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQANLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTsngdtdtktlgrhdfdvksgmnmtahpkkrpcnrrNVCFPLWSNTSVCDTLLLRCKRLFAAfgstkasrigvIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGNVIILAPNILSIEQAFGKTELVPCLMEKNTRSGGVaanteadedngYVVSYVHDAKTGESKFLVTDAKSPHLDIEAVvkstqsvptgshglfvreielrklykckypit

MPSLPPPYQHYHLKYHSClkpkkpplslpsssssqrktslssssqrktssssssARTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDEPYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQANLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRPCNRRNVCFPLWSNTSVCDTLLLRCKRLFAAFGSTKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGNVIILAPNILSIEQAFGKTELVPCLMEKNTRSGGVAANTEADEDNGYVVSYVHDAKTGESKFLVTDAKSPHLDIEAVVKSTQSVPTGSHGLFVREIELRKLYKCKYPIT

**********YHLKY******************************************MIVNTINNLFNNLMMR*************************LPPTQCQVIQGSLPSCLDEPYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQANLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSN*****************************CNRRNVCFPLWSNTSVCDTLLLRCKRLFAAFGSTKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGNVIILAPNILSIEQAFGKTELVPCLMEKN**************DNGYVVSYVHDAKTGESKFLVTDAKSPHLDIEAVVKSTQSVPTGSHGLFVREIELRKLYKCKY***

**********************************************************IVNTINNLFNNLMM********PSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDEPYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQANLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRPCNRRNVCFPLWSNTSVCDTLLLRCKRLFAAFGSTKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGNVIILAPNILSIEQAFGKTELVPCLMEKNTRSGGVAANTEADEDNGYVVSYVHDAKTGESKFLVTDAKSPHLDIEAVVKSTQSVPTGSHGLFVREIELRKLYK**YP**

MPSLPPPYQHYHLKYHSCLKPK*********************************RTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDEPYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQANLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRPCNRRNVCFPLWSNTSVCDTLLLRCKRLFAAFGSTKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGNVIILAPNILSIEQAFGKTELVPCLMEKNTRSGGVAANTEADEDNGYVVSYVHDAKTGESKFLVTDAKSPHLDIEAVVKSTQSVPTGSHGLFVREIELRKLYKCKYPIT

*************************************************SSSSSARTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDEPYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQANLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRPCNRRNVCFPLWSNTSVCDTLLLRCKRLFAAFGSTKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGNVIILAPNILSIEQAFGKTELVPCLMEKNTRSGGVAANTEADEDNGYVVSYVHDAKTGESKFLVTDAKSPHLDIEAVVKSTQSVPTGSHGLFVREIELRKLYKCKYPIT

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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
Query		420	2.2.26 [Sep-21-2011]
O49675		595	Probable carotenoid cleav	yes	no	0.764	0.539	0.374	1e-64
Q8LP17		541	Carotenoid 9,10(9',10')-c	N/A	no	0.545	0.423	0.307	2e-35
Q94IR2		543	Carotenoid 9,10(9',10')-c	N/A	no	0.545	0.421	0.285	4e-31
Q84KG5		546	Carotenoid 9,10(9',10')-c	N/A	no	0.647	0.498	0.269	5e-30
Q9C6Z1		589	Probable 9-cis-epoxycarot	no	no	0.638	0.455	0.277	1e-29
Q9M6E8		615	9-cis-epoxycarotenoid dio	N/A	no	0.583	0.398	0.28	2e-29
O65572		538	Carotenoid 9,10(9',10')-c	no	no	0.545	0.425	0.281	2e-29
O24592		604	9-cis-epoxycarotenoid dio	N/A	no	0.602	0.418	0.274	1e-26
O49505		583	9-cis-epoxycarotenoid dio	no	no	0.597	0.430	0.244	1e-24
Q9M9F5		657	9-cis-epoxycarotenoid dio	no	no	0.55	0.351	0.254	2e-24

>sp\|O49675\|CCD4_ARATH Probable carotenoid cleavage dioxygenase 4, chloroplastic OS=Arabidopsis thaliana GN=CCD4 PE=1 SV=1	Back alignment and function desciption

 Score =  247 bits (630), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 157/419 (37%), Positives = 216/419 (51%), Gaps = 98/419 (23%)

Query: 13  LKYHSCLKPKKPPLSLPSSSSSQRKT--SLSSSSQRKTSSSSSSAR------TMIVNTIN 64
           L+ +S +  ++ P++ PS ++ +R    +L + +     SS    R      T +  T+ 
Sbjct: 31  LRINSAVVEERSPITNPSDNNDRRNKPKTLHNRTNHTLVSSPPKLRPEMTLATALFTTVE 90

Query: 65  NLFNNLMMRNSNYKLQPSLDPKRALSNNFAPV-DELPPTQCQVIQGSLPSCLDE------ 117
           ++ N  +   S    +PS+DPK  LS+NFAPV DELPPT C++I G+LP  L+       
Sbjct: 91  DVINTFIDPPS----RPSVDPKHVLSDNFAPVLDELPPTDCEIIHGTLPLSLNGAYIRNG 146

Query: 118 ---------PYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQA 168
                    PYHLFDGD MLH I+I  G+AT CSR VKTYKY +E       +  VFS  
Sbjct: 147 PNPQFLPRGPYHLFDGDGMLHAIKIHNGKATLCSRYVKTYKYNVEKQTGAPVMPNVFSGF 206

Query: 169 NLISIN-------------------NGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNG 209
           N ++ +                   NG GLAN SL+F  + LFA+ E DLPYAVRLT +G
Sbjct: 207 NGVTASVARGALTAARVLTGQYNPVNGIGLANTSLAFFSNRLFALGESDLPYAVRLTESG 266

Query: 210 DTDTKTLGRHDFDVKSGMNMTAHPKKRPCNRRNVCF------------------------ 245
           D +  T+GR+DFD K  M+MTAHPK  P       F                        
Sbjct: 267 DIE--TIGRYDFDGKLAMSMTAHPKTDPITGETFAFRYGPVPPFLTYFRFDSAGKKQRDV 324

Query: 246 PLWSNTS---VCDTLLLRCKRLFAAF---------------GS------TKASRIGVIPR 281
           P++S TS   + D  + +   +FA                 GS       K  R+GVIP+
Sbjct: 325 PIFSMTSPSFLHDFAITKRHAIFAEIQLGMRMNMLDLVLEGGSPVGTDNGKTPRLGVIPK 384

Query: 282 CAKDSLQMRWFDVPGFNNIHAINEWDEEDGN-VIILAPNILSIEQAFGKTELVPCLMEK 339
            A D  +M+WF+VPGFN IHAIN WDE+DGN V+++APNI+SIE    + +LV  L+EK
Sbjct: 385 YAGDESEMKWFEVPGFNIIHAINAWDEDDGNSVVLIAPNIMSIEHTLERMDLVHALVEK 443

May be involved in carotenoid cleavage.
Arabidopsis thaliana (taxid: 3702)
EC: 1EC: .EC: 1EC: 4EC: .EC: 9EC: 9EC: .EC: -

>sp\|Q8LP17\|CCD1_PEA Carotenoid 9,10(9',10')-cleavage dioxygenase 1 OS=Pisum sativum GN=CCD1 PE=2 SV=1	Back alignment and function description

>sp\|Q94IR2\|CCD1_PHAVU Carotenoid 9,10(9',10')-cleavage dioxygenase 1 OS=Phaseolus vulgaris GN=CCD1 PE=1 SV=1	Back alignment and function description

>sp\|Q84KG5\|CCD_CROSA Carotenoid 9,10(9',10')-cleavage dioxygenase OS=Crocus sativus GN=CCD PE=1 SV=1	Back alignment and function description

>sp\|Q9C6Z1\|NCED5_ARATH Probable 9-cis-epoxycarotenoid dioxygenase NCED5, chloroplastic OS=Arabidopsis thaliana GN=NCED5 PE=1 SV=1	Back alignment and function description

>sp\|Q9M6E8\|NCED1_PHAVU 9-cis-epoxycarotenoid dioxygenase NCED1, chloroplastic OS=Phaseolus vulgaris GN=NCED1 PE=2 SV=1	Back alignment and function description

>sp\|O65572\|CCD1_ARATH Carotenoid 9,10(9',10')-cleavage dioxygenase 1 OS=Arabidopsis thaliana GN=CCD1 PE=1 SV=2	Back alignment and function description

>sp\|O24592\|NCED1_MAIZE 9-cis-epoxycarotenoid dioxygenase 1, chloroplastic OS=Zea mays GN=VP14 PE=1 SV=2	Back alignment and function description

>sp\|O49505\|NCED2_ARATH 9-cis-epoxycarotenoid dioxygenase NCED2, chloroplastic OS=Arabidopsis thaliana GN=NCED2 PE=2 SV=1	Back alignment and function description

>sp\|Q9M9F5\|NCED9_ARATH 9-cis-epoxycarotenoid dioxygenase NCED9, chloroplastic OS=Arabidopsis thaliana GN=NCED9 PE=2 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
Query		420
83628262		603	carotenoid cleavage dioxygenase 4a [Citr	0.814	0.567	0.395	3e-70
224146522		589	predicted protein [Populus trichocarpa]	0.840	0.599	0.388	5e-70
224083508		507	predicted protein [Populus trichocarpa]	0.771	0.639	0.402	1e-69
164551334		588	carotenoid cleavage dioxygenase 4 [Rosa	0.828	0.591	0.355	9e-68
118488939		507	unknown [Populus trichocarpa x Populus d	0.771	0.639	0.400	1e-67
163881526		563	carotenoid cleavage dioxygenase 4 [Malus	0.811	0.605	0.373	4e-67
255557829		618	9-cis-epoxycarotenoid dioxygenase, putat	0.830	0.564	0.382	5e-67
164551336		609	carotenoid cleavage dioxygenase 4 [Osman	0.854	0.589	0.376	9e-67
225427587		589	PREDICTED: probable carotenoid cleavage	0.654	0.466	0.427	6e-65
387763756		589	carotenoid cleavage dioxygenase 4b [Viti	0.654	0.466	0.424	4e-64

>gi\|83628262\|gb\|ABC26011.1\| carotenoid cleavage dioxygenase 4a [Citrus clementina]	Back alignment and taxonomy information

 Score =  271 bits (694), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 172/435 (39%), Positives = 230/435 (52%), Gaps = 93/435 (21%)

Query: 41  SSSSQRKTSSSSSSARTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELP 100
           + SS      +  +  T+I+N  +++ NN +    +  L+ S+DP+  LS+NFAPVDELP
Sbjct: 76  TQSSYLPKKRAEPTIPTIILNACDDIINNFI----DPPLKYSVDPRHVLSDNFAPVDELP 131

Query: 101 PTQCQVIQGSLPSCLDE---------------PYHLFDGDAMLHCIRISQGQATFCSRCV 145
           PT+C+V+QGSLPSCLD                PYHLFDGD MLH I+IS+G+AT CSR V
Sbjct: 132 PTECEVVQGSLPSCLDGAYIRNGPNPQYLPRGPYHLFDGDGMLHSIKISRGRATLCSRYV 191

Query: 146 KTYKYTIENTHELLSLQLVFSQANLISIN-------------------NGFGLANASLSF 186
           +TYKYTIEN      L  VFS  N ++ +                   NG GLAN +L+F
Sbjct: 192 RTYKYTIENEAGSPILPNVFSGFNGLTASAARGALSAARLLAGQFNPVNGIGLANTNLAF 251

Query: 187 LGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRPCNRRNVCF- 245
            G+ L+A+ E DLPYA+RLT NGD +  T+GRHDFD K  M+MTAHPK          F 
Sbjct: 252 FGNRLYALGESDLPYAIRLTPNGDIE--TIGRHDFDGKLAMSMTAHPKLDSDTGEAFAFR 309

Query: 246 -----------------------PLWSNTSVCDTLLLRCKRLFAAF-------------- 268
                                  P++S T           + +A F              
Sbjct: 310 YGPVPPFLTYFRFDANGKKQPNVPIFSMTRPSFLHDFAITKKYAVFVDIQIGMNPMEMIF 369

Query: 269 --GS------TKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGN-VIILAPN 319
             GS       K  RIG+IPR A D  QMRWF+VPGFN IHAIN WDEEDGN V+++APN
Sbjct: 370 GGGSPVGADPAKVCRIGIIPRYATDESQMRWFEVPGFNIIHAINAWDEEDGNAVVMVAPN 429

Query: 320 ILSIEQAFGKTELVPCLMEK---NTRSGGVAANTEADEDNGY-VVSYVHDAKTGESKFLV 375
           ILS+E    +T+LV  L+EK   + R+G V     +  +  + V++  + AK  +S+++ 
Sbjct: 430 ILSVEHTLDRTDLVHALVEKVRIDLRTGIVTRRPMSARNLDFGVINPAYMAK--KSRYVY 487

Query: 376 TDAKSPHLDIEAVVK 390
                P   I  VVK
Sbjct: 488 AAVGDPMPKISGVVK 502

Source: Citrus clementina

Species: Citrus clementina

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224146522\|ref\|XP_002326037.1\| predicted protein [Populus trichocarpa] gi\|222862912\|gb\|EEF00419.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224083508\|ref\|XP_002307055.1\| predicted protein [Populus trichocarpa] gi\|222856504\|gb\|EEE94051.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|164551334\|gb\|ABY60886.1\| carotenoid cleavage dioxygenase 4 [Rosa x damascena]	Back alignment and taxonomy information

>gi\|118488939\|gb\|ABK96278.1\| unknown [Populus trichocarpa x Populus deltoides]	Back alignment and taxonomy information

>gi\|163881526\|gb\|ABY47995.1\| carotenoid cleavage dioxygenase 4 [Malus x domestica]	Back alignment and taxonomy information

>gi\|255557829\|ref\|XP_002519944.1\| 9-cis-epoxycarotenoid dioxygenase, putative [Ricinus communis] gi\|223540990\|gb\|EEF42548.1\| 9-cis-epoxycarotenoid dioxygenase, putative [Ricinus communis]	Back alignment and taxonomy information

>gi\|164551336\|gb\|ABY60887.1\| carotenoid cleavage dioxygenase 4 [Osmanthus fragrans]	Back alignment and taxonomy information

>gi\|225427587\|ref\|XP_002270161.1\| PREDICTED: probable carotenoid cleavage dioxygenase 4, chloroplastic [Vitis vinifera]	Back alignment and taxonomy information

>gi\|387763756\|gb\|AFJ94676.1\| carotenoid cleavage dioxygenase 4b [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
Query		420
TAIR\|locus:2134796		595	NCED4 "nine-cis-epoxycarotenoi	0.309	0.218	0.406	3.2e-74
TAIR\|locus:2202492		589	NCED5 "nine-cis-epoxycarotenoi	0.185	0.132	0.439	3.2e-32
TAIR\|locus:2091652		599	NCED3 "nine-cis-epoxycarotenoi	0.178	0.125	0.430	7.1e-29
TAIR\|locus:2087418		538	CCD1 "carotenoid cleavage diox	0.364	0.284	0.298	3.9e-28
TAIR\|locus:2093751		577	NCED6 "nine-cis-epoxycarotenoi	0.178	0.129	0.379	3.1e-23
TAIR\|locus:2124489		583	NCED2 "nine-cis-epoxycarotenoi	0.407	0.293	0.252	4.7e-20
TAIR\|locus:2032085		657	NCED9 "nine-cis-epoxycarotenoi	0.278	0.178	0.325	1.9e-18
ASPGD\|ASPL0000067272		555	AN7062 [Emericella nidulans (t	0.297	0.225	0.292	2.5e-05
UNIPROTKB\|O06785		501	MT0683 "Carotenoid cleavage ox	0.252	0.211	0.297	0.00019

TAIR\|locus:2134796 NCED4 "nine-cis-epoxycarotenoid dioxygenase 4" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 253 (94.1 bits), Expect = 3.2e-74, Sum P(4) = 3.2e-74
 Identities = 61/150 (40%), Positives = 82/150 (54%)

Query:    57 TMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPV-DELPPTQCQVIQGSLPSCL 115
             T +  T+ ++ N  +   S    +PS+DPK  LS+NFAPV DELPPT C++I G+LP  L
Sbjct:    83 TALFTTVEDVINTFIDPPS----RPSVDPKHVLSDNFAPVLDELPPTDCEIIHGTLPLSL 138

Query:   116 DE---------------PYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLS 160
             +                PYHLFDGD MLH I+I  G+AT CSR VKTYKY +E       
Sbjct:   139 NGAYIRNGPNPQFLPRGPYHLFDGDGMLHAIKIHNGKATLCSRYVKTYKYNVEKQTGAPV 198

Query:   161 LQLVFSQANLISINNGFGLANASLSFLGDH 190
             +  VFS  N ++ +   G   A+    G +
Sbjct:   199 MPNVFSGFNGVTASVARGALTAARVLTGQY 228

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0010287 "plastoglobule" evidence=IDA

GO:0009718 "anthocyanin-containing compound biosynthetic process" evidence=RCA

TAIR\|locus:2202492 NCED5 "nine-cis-epoxycarotenoid dioxygenase 5" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2091652 NCED3 "nine-cis-epoxycarotenoid dioxygenase 3" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2087418 CCD1 "carotenoid cleavage dioxygenase 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2093751 NCED6 "nine-cis-epoxycarotenoid dioxygenase 6" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2124489 NCED2 "nine-cis-epoxycarotenoid dioxygenase 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2032085 NCED9 "nine-cis-epoxycarotenoid dioxygenase 9" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000067272 AN7062 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

UNIPROTKB\|O06785 MT0683 "Carotenoid cleavage oxygenase" [Mycobacterium tuberculosis (taxid:1773)]	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 Level	EC number	Confidence of Prediction
3rd Layer	1.14.99	LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	fgenesh4_pm.C_LG_V000037	hypothetical protein (507 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

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
Query		420
pfam03055		469	pfam03055, RPE65, Retinal pigment epithelial membr	5e-39
PLN02258		590	PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygen	7e-34
PLN02491		545	PLN02491, PLN02491, carotenoid 9,10(9',10')-cleava	6e-33
COG3670		490	COG3670, COG3670, Lignostilbene-alpha,beta-dioxyge	2e-13
pfam03055		469	pfam03055, RPE65, Retinal pigment epithelial membr	3e-10
PLN02258		590	PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygen	3e-10
PLN02491		545	PLN02491, PLN02491, carotenoid 9,10(9',10')-cleava	5e-09
COG3670		490	COG3670, COG3670, Lignostilbene-alpha,beta-dioxyge	3e-06
PLN02258		590	PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygen	7e-05
COG3670		490	COG3670, COG3670, Lignostilbene-alpha,beta-dioxyge	0.001

>gnl\|CDD\|217340 pfam03055, RPE65, Retinal pigment epithelial membrane protein	Back alignment and domain information

 Score =  145 bits (369), Expect = 5e-39
 Identities = 85/359 (23%), Positives = 120/359 (33%), Gaps = 100/359 (27%)

Query: 92  NFAPV-DELPPTQCQVIQGSLPSCLD----------------EPYHLFDGDAMLHCIRIS 134
           NFAPV +ELP  +   ++G +P+ L+                  +H FDGD MLH  R  
Sbjct: 1   NFAPVREELPDAEDLEVEGEIPADLNGTLYRNGPGPLERGGFRYHHWFDGDGMLHAFRFE 60

Query: 135 QGQATFCSRCVKTYKYTIENTHELLSLQLVFSQAN--------LISINNGFGLANASLSF 186
            G+ T+ +R V+T  Y  E           F                     +AN ++ +
Sbjct: 61  DGRVTYRNRFVRTEGYKAERAAGRRLYPGEFGTLKPDPCKNIFPRVPGKLKNVANTNVVY 120

Query: 187 LGDHLFAICEGDLPYAVRLTSNGDTDT-KTLGRHDFD--VKSGMNMTAHPK--------- 234
            G  L A+ E  LPY +      D +T +TLGR+DF   +K G   TAHPK         
Sbjct: 121 HGGRLLALWEAGLPYRL------DPETLETLGRYDFGGKLKPGPPFTAHPKVDPVTGELV 174

Query: 235 --------------------------KRPCNRRNVC--------------FPLWSNTSVC 254
                                     + P                     FP      V 
Sbjct: 175 NFGLSLGPKPPYLTYYEVDADGKLVREVPIFSLPGPSMIHDFAITENYVIFPDLP--LVF 232

Query: 255 DTLLLRCKRLFAAFGS--TKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGN 312
           D L L              K +R GVIPR    S  +RWF+ P     H  N W EE G 
Sbjct: 233 DPLRLLLGGRADPLRWDPEKPTRFGVIPRRGGKSD-VRWFEAPPCFVFHTANAW-EEGGE 290

Query: 313 VIILAPNILSIEQAFGKTELVPCLMEKNTRSGGVAANTEADEDNGYVVSYVHDAKTGES 371
           +++ A         +   + +      N R    A      +    +  +  D KTG  
Sbjct: 291 IVLDACR-------YDDPDFLDPFYLDNLRPDAFA----DKKPRSRLTRWRLDLKTGGD 338

This family represents a retinal pigment epithelial membrane receptor which is abundantly expressed in retinal pigment epithelium, and binds plasma retinal binding protein. The family also includes the sequence related neoxanthin cleavage enzyme in plants and lignostilbene-alpha,beta-dioxygenase in bacteria. Length = 469

>gnl\|CDD\|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED	Back alignment and domain information

>gnl\|CDD\|215271 PLN02491, PLN02491, carotenoid 9,10(9',10')-cleavage dioxygenase	Back alignment and domain information

>gnl\|CDD\|226196 COG3670, COG3670, Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]	Back alignment and domain information

>gnl\|CDD\|217340 pfam03055, RPE65, Retinal pigment epithelial membrane protein	Back alignment and domain information

>gnl\|CDD\|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED	Back alignment and domain information

>gnl\|CDD\|215271 PLN02491, PLN02491, carotenoid 9,10(9',10')-cleavage dioxygenase	Back alignment and domain information

>gnl\|CDD\|226196 COG3670, COG3670, Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]	Back alignment and domain information

>gnl\|CDD\|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED	Back alignment and domain information

>gnl\|CDD\|226196 COG3670, COG3670, Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		420
PLN02258		590	9-cis-epoxycarotenoid dioxygenase NCED	100.0
PLN02491		545	carotenoid 9,10(9',10')-cleavage dioxygenase	100.0
COG3670		490	Lignostilbene-alpha,beta-dioxygenase and related e	100.0
PF03055		486	RPE65: Retinal pigment epithelial membrane protein	100.0
PLN02969		610	9-cis-epoxycarotenoid dioxygenase	100.0
KOG1285		582	consensus Beta, beta-carotene 15,15'-dioxygenase a	100.0
KOG1285		582	consensus Beta, beta-carotene 15,15'-dioxygenase a	99.89

>PLN02258 9-cis-epoxycarotenoid dioxygenase NCED	Back alignment and domain information

Probab=100.00  E-value=4.1e-99  Score=804.80  Aligned_cols=361  Identities=31%  Similarity=0.572  Sum_probs=312.5

Q ss_pred             CCCccCCCCchhhHHHHHHHHHHHHHhHhhhccCCCCCCCCCcchhcccCCcCCCcCCCCccceeeecCCCCCCC-----
Q 039955           43 SSQRKTSSSSSSARTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDE-----  117 (420)
Q Consensus        43 ~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~pl~~~~dp~~~l~g~fapv~E~~~~~~~~V~G~IP~~L~G-----  117 (420)
                      ....++|+..|++|+++||++|+.|++++  |+.+||+++.||+++|+|||+|+.|..+..++.|+|+||+||+|     
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~g~faPv~ee~~~~~l~V~G~IP~~L~Gty~RN  148 (590)
T PLN02258         71 TTQTPQLNPLQRAAAAALDAVESALVSHL--ERQHPLPKTADPAVQIAGNFAPVPEQPVRHNLPVTGRIPDCIDGVYVRN  148 (590)
T ss_pred             cCCccccCcchhhHHHHHHHHHHHHhhhc--cccCCCCCCCCcceeccCCCcCccccCCcccceEEeeCCCCCCeEEEEe
Confidence            34567899999999999999999999987  67999999999999999999999666667789999999999999     


Q ss_pred             ----------CCCccCCCCcEEEEEEeCCcEEEEEeecccHHHHHHHHcCCcccccccccc------------------c
Q 039955          118 ----------PYHLFDGDAMLHCIRISQGQATFCSRCVKTYKYTIENTHELLSLQLVFSQA------------------N  169 (420)
Q Consensus       118 ----------~~HwFDGDGMlha~~f~~G~v~Y~~RyV~T~~~~~E~~agr~~f~~~~~~~------------------g  169 (420)
                                ++||||||||||+|+|+||+|+|+||||||++|++|+++||++|++.+++.                  +
T Consensus       149 GPnp~f~p~~~~H~FDGDGMvhav~f~dG~a~y~~RfVrT~~~~~E~~agr~l~~~~~g~~~~~~g~~r~~~~~~r~~~~  228 (590)
T PLN02258        149 GANPLFEPVAGHHLFDGDGMVHAVRIGNGSASYACRFTETNRLVQERALGRPVFPKAIGELHGHSGIARLMLFYARGLFG  228 (590)
T ss_pred             CCCCCCCCCCCCccccCCceEEEEEECCCeEEEEeeeecchhHHHHHhcCCcccccccccccccccccccchhhcccccc
Confidence                      679999999999999999999999999999999999999999998744431                  2


Q ss_pred             ccccCCCCCccceEEEEeCCeEEEEeeCCccEEEccCCCCCCcccccccccCCcCCCCCCcccccccCCCC------cee
Q 039955          170 LISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRPCNR------RNV  243 (420)
Q Consensus       170 ~~~~~~~~~~ANT~v~~~~grLlAl~E~~~Py~id~~~~~d~TLeTlG~~d~~g~l~~~ftAHPK~DP~tG------y~v  243 (420)
                      .++..+++|+|||||++|+||||||||+|+||+||+++++  ||||+|++||+|+|..+||||||+||.||      |++
T Consensus       229 ~~d~~~~~~~ANT~vv~~~grLlAL~E~g~Py~l~~d~~~--TLeT~G~~df~g~l~~~ftAHPKvDP~TGel~~f~y~~  306 (590)
T PLN02258        229 LVDASRGTGVANAGLVYFNGRLLAMSEDDLPYQVRITGDG--DLETVGRYDFDGQLDSSMIAHPKVDPVTGELFALSYDV  306 (590)
T ss_pred             ccccccccCCCceeEEEECCEEEEEEcCCCceEecCCCCC--CcccCcccccCCccCcccccCceEcCCCCeEEEEEEec
Confidence            2333456799999999999999999999999999987666  49999999999999889999999999999      321


Q ss_pred             ----------E-----------EeCCCcceeeeeeeeecccceEEe--------------c-------CCCCeEEEEEeC
Q 039955          244 ----------C-----------FPLWSNTSVCDTLLLRCKRLFAAF--------------G-------STKASRIGVIPR  281 (420)
Q Consensus       244 ----------~-----------i~l~~p~~iHDfaiT~~~eny~V~--------------G-------~~~~tr~gVipR  281 (420)
                                +           |++++++||||||||   |||+||              |       +++++|||||||
T Consensus       307 ~~~p~l~~~~~d~~G~~~~~~~i~lp~p~~~HDFaiT---enY~Vf~d~Pl~~~~~~~~~g~~~~~~d~~~~srfgVipR  383 (590)
T PLN02258        307 VKKPYLKYFRFSPDGEKSPDVEIPLDQPTMMHDFAIT---ENFVVIPDQQVVFKLSEMIRGGSPVVYDKNKTSRFGVLPK  383 (590)
T ss_pred             cCCCcEEEEEECCCCCEEeeEEeeCCCCccccceecc---CceEEEEccCceEcHHHHhhCCCceEECCCCCcEEEEEEC
Confidence                      1           788999999999999   999999              2       899999999999


Q ss_pred             CCCCCCceEEEecCCceeEeecceeecCC-CeEEEEecccCCccc-----------ccccc--ccCCcc-----E-----
Q 039955          282 CAKDSLQMRWFDVPGFNNIHAINEWDEED-GNVIILAPNILSIEQ-----------AFGKT--ELVPCL-----M-----  337 (420)
Q Consensus       282 ~~~~~~~v~wfe~p~~f~fH~~NA~Ee~d-g~IVvd~~~~~~~~~-----------~l~r~--dl~~~~-----l-----  337 (420)
                      ++++.++++||++|+||+||++|||||++ ++||+|+|++.+++.           .|.||  ++.++.     +     
T Consensus       384 ~~~~~~~irwfe~p~~f~fH~~NA~Ee~~~~~VVvd~~~~~~~~~~~~~~~~~~~~~L~r~ridl~tg~~~~~~l~~~~~  463 (590)
T PLN02258        384 NATDASEIQWVEVPDCFCFHLWNAWEEPETDEVVVIGSCMTPPDSIFNESDESLRSVLSEIRLNLRTGESTRRPIISGEQ  463 (590)
T ss_pred             CCCCCCceEEEecCCcEEEecccccccCCCCeEEEEEecccChhhhcccccccccceEEEEEEECCCCceeeeEeecCCC
Confidence            98766789999999999999999999853 689999998776432           23343  222111     0     


Q ss_pred             ----------------------------------EEE-cccC-------------C----cCCCCCCC-CCCcEEEEEEE
Q 039955          338 ----------------------------------EKN-TRSG-------------G----VAANTEAD-EDNGYVVSYVH  364 (420)
Q Consensus       338 ----------------------------------~~~-l~tG-------------G----vPr~~~~~-EDDG~lls~v~  364 (420)
                                                        .++ +.+|             |    |||+++.+ |||||||++||
T Consensus       464 ~~~EFP~In~~~~Grk~Ry~Y~~~~~~~~~~~givK~Dl~tg~~~~~~~g~g~~~gEPvFVPr~~~~~~EDDGylls~V~  543 (590)
T PLN02258        464 VNLEAGMVNRNLLGRKTRYAYLAIAEPWPKVSGFAKVDLSTGEVKKYIYGEGRYGGEPFFVPRGSGSEAEDDGYILAFVH  543 (590)
T ss_pred             cccccceECHHHCCCccceEEEeccCCCCCCCeEEEEECCCCcEEEEECCCCccccCCEeccCCCCCcccCCcEEEEEEE
Confidence                                              001 2333             1    59998774 99999999999


Q ss_pred             eCCCCceEEEEEeCCCCCCCeeEEEEcCCcCCCCCCcccccchhHhhh
Q 039955          365 DAKTGESKFLVTDAKSPHLDIEAVVKSTQSVPTGSHGLFVREIELRKL  412 (420)
Q Consensus       365 d~~~~~S~l~VlDA~~~~~~pVArv~LP~rVP~GFHG~fv~~~~l~~~  412 (420)
                      |+++++|+|+||||++|  ++||||+||+||||||||+|++++||++|
T Consensus       544 d~~~~~SeL~IlDA~~l--~~VArv~LP~rVP~GFHG~wv~~~~l~~q  589 (590)
T PLN02258        544 DEEKGKSELQVVNAVNL--ELEATVKLPSRVPYGFHGTFISAEDLLKQ  589 (590)
T ss_pred             ECCCCceEEEEEeCCCC--cccEEEECCCCCCCcccccccCHHHHhhc
Confidence            99999999999999999  57999999999999999999999999988

>PLN02491 carotenoid 9,10(9',10')-cleavage dioxygenase	Back alignment and domain information

>COG3670 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]	Back alignment and domain information

>PF03055 RPE65: Retinal pigment epithelial membrane protein; InterPro: IPR004294 Carotenoids such as beta-carotene, lycopene, lutein and beta-cryptoxanthine are produced in plants and certain bacteria, algae and fungi, where they function as accessory photosynthetic pigments and as scavengers of oxygen radicals for photoprotection	Back alignment and domain information

>PLN02969 9-cis-epoxycarotenoid dioxygenase	Back alignment and domain information

>KOG1285 consensus Beta, beta-carotene 15,15'-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport and catabolism]	Back alignment and domain information

>KOG1285 consensus Beta, beta-carotene 15,15'-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport and catabolism]	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
Query		420
3npe_A		529	Structure Of Vp14 In Complex With Oxygen Length = 5		1e-27
3npe_A		529	Structure Of Vp14 In Complex With Oxygen Length = 5		3e-06
2biw_A		490	Crystal Structure Of Apocarotenoid Cleavage Oxygena		2e-05

>pdb|3NPE|A Chain A, Structure Of Vp14 In Complex With Oxygen Length = 529

Back alignment and structure

Iteration: 1

Score = 120 bits (302), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 92/335 (27%), Positives = 140/335 (41%), Gaps = 82/335 (24%) Query: 77 YKLQPSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDEPY---------------HL 121 + L + DP ++ NFAPV E PP + G +P +D Y HL Sbjct: 36 HGLPSTADPAVQIAGNFAPVGERPPVHELPVSGRIPPFIDGVYARNGANPCFDPVAGHHL 95 Query: 122 FDGDAMLHCIRISQGQA-TFCSRCVKTYKYTIENT----------------HELLSLQLV 164 FDGD M+H +RI G A ++ R +T + E + L L Sbjct: 96 FDGDGMVHALRIRNGAAESYACRFTETARLRQERAIGRPVFPKAIGELHGHSGIARLALF 155 Query: 165 FSQA--NLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFD 222 +++A L+ + G G+ANA L + L A+ E DLPY VR+ +GD + T+GR+DFD Sbjct: 156 YARAACGLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVADDGDLE--TVGRYDFD 213 Query: 223 VKSGMNMTAHPK----------------KRP-----------CNRRNVCFPLWSNTSVCD 255 + G M AHPK KRP +V PL T + D Sbjct: 214 GQLGCAMIAHPKLDPATGELHALSYDVIKRPYLKYFYFRPDGTKSDDVEIPLEQPTMIHD 273 Query: 256 -------------TLLLRCKRLF-----AAFGSTKASRIGVIPRCAKDSLQMRWFDVPGF 297 ++ + + + + K SR GV+P+ A D+ +M W DVP Sbjct: 274 FAITENLVVVPDHQVVFKLQEMLRGGSPVVLDAAKTSRFGVLPKHAADASEMAWVDVPDC 333 Query: 298 NNIHAINEW-DEEDGNVIILAPNILSIEQAFGKTE 331 H N W DE G V+++ + + F +++ Sbjct: 334 FCFHLWNAWEDEATGEVVVIGSCMTPADSIFNESD 368

PyMOL of 3npe

>pdb|3NPE|A Chain A, Structure Of Vp14 In Complex With Oxygen Length = 529

Back alignment and structure

>pdb|2BIW|A Chain A, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From Synechocystis, Native Enzyme Length = 490

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
Query		420
3npe_A		529	9-CIS-epoxycarotenoid dioxygenase 1, chloroplasti;	7e-41
3npe_A		529	9-CIS-epoxycarotenoid dioxygenase 1, chloroplasti;	3e-10
3kvc_A		533	Retinoid isomerohydrolase; 7-bladed beta-propeller	1e-27
3kvc_A		533	Retinoid isomerohydrolase; 7-bladed beta-propeller	3e-07
3kvc_A		533	Retinoid isomerohydrolase; 7-bladed beta-propeller	6e-05
2biw_A		490	Apocarotenoid-cleaving oxygenase; non-heme iron, c	3e-26
2biw_A		490	Apocarotenoid-cleaving oxygenase; non-heme iron, c	8e-10

>3npe_A 9-CIS-epoxycarotenoid dioxygenase 1, chloroplasti; seven blade beta propeller, abscisic acid, non iron, oxidoreductase; 3.20A {Zea mays} Length = 529	Back alignment and structure

 Score =  151 bits (382), Expect = 7e-41
 Identities = 97/437 (22%), Positives = 158/437 (36%), Gaps = 91/437 (20%)

Query: 41  SSSSQRKTSSSSSSARTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELP 100
           +   +++ +    +A   +         N++ R     L  + DP   ++ NFAPV E P
Sbjct: 2   AEGGKKQLNLFQRAAAAALDAFEEGFVANVLERPHG--LPSTADPAVQIAGNFAPVGERP 59

Query: 101 PTQCQVIQGSLPSCLD---------------EPYHLFDGDAMLHCIRISQGQA-TFCSRC 144
           P     + G +P  +D                 +HLFDGD M+H +RI  G A ++  R 
Sbjct: 60  PVHELPVSGRIPPFIDGVYARNGANPCFDPVAGHHLFDGDGMVHALRIRNGAAESYACRF 119

Query: 145 VKTYKYTIENTH------------------ELLSLQLVFSQANLISINNGFGLANASLSF 186
            +T +   E                       L+L    +   L+  + G G+ANA L +
Sbjct: 120 TETARLRQERAIGRPVFPKAIGELHGHSGIARLALFYARAACGLVDPSAGTGVANAGLVY 179

Query: 187 LGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRP--------- 237
               L A+ E DLPY VR+  +GD +  T+GR+DFD + G  M AHPK  P         
Sbjct: 180 FNGRLLAMSEDDLPYHVRVADDGDLE--TVGRYDFDGQLGCAMIAHPKLDPATGELHALS 237

Query: 238 ------------------CNRRNVCFPLWSNTSVCDTLLLRCKRLFA------------- 266
                                 +V  PL   T + D  +     +               
Sbjct: 238 YDVIKRPYLKYFYFRPDGTKSDDVEIPLEQPTMIHDFAITENLVVVPDHQVVFKLQEMLR 297

Query: 267 -----AFGSTKASRIGVIPRCAKDSLQMRWFDVPGFNNIHAINEWDEEDGNVIILA---- 317
                   + K SR GV+P+ A D+ +M W DVP     H  N W++E    +++     
Sbjct: 298 GGSPVVLDAAKTSRFGVLPKHAADASEMAWVDVPDCFCFHLWNAWEDEATGEVVVIGSCM 357

Query: 318 -PNILSIEQAFGKTELVPCLMEKNTRSGGVAANTEADEDNGYVVSY--VHDAKTG-ESKF 373
            P      ++  + E V   +  + R+G               +    V+    G E+++
Sbjct: 358 TPADSIFNESDERLESVLTEIRLDARTGRSTRRAVLPPSQQVNLEVGMVNRNLLGRETRY 417

Query: 374 LVTDAKSPHLDIEAVVK 390
                  P   +    K
Sbjct: 418 AYLAVAEPWPKVSGFAK 434

PyMOL of 3npe

>3npe_A 9-CIS-epoxycarotenoid dioxygenase 1, chloroplasti; seven blade beta propeller, abscisic acid, non iron, oxidoreductase; 3.20A {Zea mays} Length = 529	Back alignment and structure

>3kvc_A Retinoid isomerohydrolase; 7-bladed beta-propeller, monotopic membrane protein, sensory transduction, vision, isomerase, non-heme iron protein; 1.90A {Bos taurus} PDB: 3fsn_A Length = 533	Back alignment and structure

>3kvc_A Retinoid isomerohydrolase; 7-bladed beta-propeller, monotopic membrane protein, sensory transduction, vision, isomerase, non-heme iron protein; 1.90A {Bos taurus} PDB: 3fsn_A Length = 533	Back alignment and structure

>3kvc_A Retinoid isomerohydrolase; 7-bladed beta-propeller, monotopic membrane protein, sensory transduction, vision, isomerase, non-heme iron protein; 1.90A {Bos taurus} PDB: 3fsn_A Length = 533	Back alignment and structure

>2biw_A Apocarotenoid-cleaving oxygenase; non-heme iron, carotenoid cleavage, retinal forma oxidoreductase, dioxygenase; HET: 3ON; 2.39A {Synechocystis SP} PDB: 2bix_A* Length = 490	Back alignment and structure

>2biw_A Apocarotenoid-cleaving oxygenase; non-heme iron, carotenoid cleavage, retinal forma oxidoreductase, dioxygenase; HET: 3ON; 2.39A {Synechocystis SP} PDB: 2bix_A* Length = 490	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		420
3npe_A		529	9-CIS-epoxycarotenoid dioxygenase 1, chloroplasti;	100.0
2biw_A		490	Apocarotenoid-cleaving oxygenase; non-heme iron, c	100.0
3kvc_A		533	Retinoid isomerohydrolase; 7-bladed beta-propeller	100.0

>3npe_A 9-CIS-epoxycarotenoid dioxygenase 1, chloroplasti; seven blade beta propeller, abscisic acid, non iron, oxidoreductase; 3.20A {Zea mays}	Back alignment and structure

Probab=100.00  E-value=2.9e-96  Score=776.25  Aligned_cols=364  Identities=32%  Similarity=0.557  Sum_probs=306.8

Q ss_pred             CCCccCCCCchhhHHHHHHHHHHHHHhHhhhccCCCCCCCCCcchhcccCCcCCCcCCCCccceeeecCCCCCCC-----
Q 039955           43 SSQRKTSSSSSSARTMIVNTINNLFNNLMMRNSNYKLQPSLDPKRALSNNFAPVDELPPTQCQVIQGSLPSCLDE-----  117 (420)
Q Consensus        43 ~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~pl~~~~dp~~~l~g~fapv~E~~~~~~~~V~G~IP~~L~G-----  117 (420)
                      .+++++||+.|++++++||++|++|++++. ++++||++++||..+|+|||+||.|.+....+.|+|+||+||+|     
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~g~fapv~ee~~~~~l~V~G~IP~~L~Gt~~RN   81 (529)
T 3npe_A            3 EGGKKQLNLFQRAAAAALDAFEEGFVANVL-ERPHGLPSTADPAVQIAGNFAPVGERPPVHELPVSGRIPPFIDGVYARN   81 (529)
T ss_dssp             -----CCCSHHHHHHHHHHHHHHHTCCCCC-CTTSCCCTTTCHHHHTSGGGSCCCCEEEEESCCEEECCCTTCEEEEEEC
T ss_pred             CcCcCCCChhHHHHHHHHHHHHHHHHhhhc-cccCCCCCCCCccchhccCcccccccCCcccceEeecCCccCCceEEEe
Confidence            357899999999999999999998887631 46899999999999999999999666666678899999999998     


Q ss_pred             ----------CCCccCCCCcEEEEEEeCCcE-EEEEeecccHHHHHHHHcCCccccccccc------------------c
Q 039955          118 ----------PYHLFDGDAMLHCIRISQGQA-TFCSRCVKTYKYTIENTHELLSLQLVFSQ------------------A  168 (420)
Q Consensus       118 ----------~~HwFDGDGMlha~~f~~G~v-~Y~~RyV~T~~~~~E~~agr~~f~~~~~~------------------~  168 (420)
                                ++||||||||||+|+|+||+| +|+||||||++|++|+++|+++|++.+++                  .
T Consensus        82 GpnP~f~~~~~~HwFDGdGmlh~~~f~~G~a~~y~nRfVrT~~~~~e~~agr~~~~~~~~~~~~~~~~~r~~~~~~~~~~  161 (529)
T 3npe_A           82 GANPCFDPVAGHHLFDGDGMVHALRIRNGAAESYACRFTETARLRQERAIGRPVFPKAIGELHGHSGIARLALFYARAAC  161 (529)
T ss_dssp             CBCCSSCCSSCCCGGGSCBEEEEEEEETTEEEEEEEEECCCHHHHHHHHHTSCCSCCTTTTTTSSTHHHHHHHHHHHHHT
T ss_pred             cCCcCcCCcCCCccCCCCceEEEEEECCCccceEEEeEecCHHHHHHHHcCCcccccccccccccchhhhhhhhhhhccc
Confidence                      569999999999999999999 99999999999999999999999875543                  1


Q ss_pred             cccccCCCCCccceEEEEeCCeEEEEeeCCccEEEccCCCCCCcccccccccCCcCCCCCCcccccccCCCC------ce
Q 039955          169 NLISINNGFGLANASLSFLGDHLFAICEGDLPYAVRLTSNGDTDTKTLGRHDFDVKSGMNMTAHPKKRPCNR------RN  242 (420)
Q Consensus       169 g~~~~~~~~~~ANT~v~~~~grLlAl~E~~~Py~id~~~~~d~TLeTlG~~d~~g~l~~~ftAHPK~DP~tG------y~  242 (420)
                      ++++..+++|+|||||++|+||||||||++.||++++++++  ||||+|++||+|+|..+||||||+||.||      |+
T Consensus       162 ~~~~~~~~~~~ANtnvv~~~g~llAl~E~g~Py~~~idp~~--tLeT~G~~d~~g~l~~~~tAHPk~Dp~TGel~~f~y~  239 (529)
T 3npe_A          162 GLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVADDG--DLETVGRYDFDGQLGCAMIAHPKLDPATGELHALSYD  239 (529)
T ss_dssp             TSCCGGGCCCCCCSCEEEETTEEEECCTTSCCEEEEECTTS--CEEEEEECCGGGCCCSCCCSCCEECTTTCCEEEEECC
T ss_pred             ccccccccCCCCeEEEEEECCEEEEEEcCCCceEEecCCCC--CcceeeeeccCCccCCcccccCcCCCCCCcEEEEEee
Confidence            22333346789999999999999999999999999766544  59999999999999999999999999999      22


Q ss_pred             e----------E-----------EeCCCcceeeeeeeeecccceEEe--------------c-------CCCCeEEEEEe
Q 039955          243 V----------C-----------FPLWSNTSVCDTLLLRCKRLFAAF--------------G-------STKASRIGVIP  280 (420)
Q Consensus       243 v----------~-----------i~l~~p~~iHDfaiT~~~eny~V~--------------G-------~~~~tr~gVip  280 (420)
                      +          +           |+++.|+||||||||   |||+||              |       +++++||||||
T Consensus       240 ~~~~p~~~~~~~~~~G~~~~~~~i~~~~p~~~HDFaiT---enyvVf~~~Pl~~~~~~~~~g~~~~~~~p~~~tr~~Vip  316 (529)
T 3npe_A          240 VIKRPYLKYFYFRPDGTKSDDVEIPLEQPTMIHDFAIT---ENLVVVPDHQVVFKLQEMLRGGSPVVLDAAKTSRFGVLP  316 (529)
T ss_dssp             SSSSCCCEEEEECTTCCBCCCEECCCSSCBCCCCCEEC---SSEEEEEECSEEECGGGGTTTCCSEEECTTSCCEEEEEE
T ss_pred             cCCCCcEEEEEECCCCCEEEEEEEeCCCCceEeeEEec---CCeEEEEeCCeEEcHHHHhCCCCceEECCCCCcEEEEEE
Confidence            1          1           677899999999999   999999              2       89999999999


Q ss_pred             CCCCCCCceEEEecCCceeEeecceeecCC-CeEEEEecccCCcc-----------cccccc--ccCCc-----------
Q 039955          281 RCAKDSLQMRWFDVPGFNNIHAINEWDEED-GNVIILAPNILSIE-----------QAFGKT--ELVPC-----------  335 (420)
Q Consensus       281 R~~~~~~~v~wfe~p~~f~fH~~NA~Ee~d-g~IVvd~~~~~~~~-----------~~l~r~--dl~~~-----------  335 (420)
                      |++++.+.|+||++|+||+||++|||||++ |+||||.|++.+.+           +.|.|+  ++.++           
T Consensus       317 R~~~~~~~vrw~e~~~~f~fH~~NA~Ee~~~~~ivv~~~~~~~~~~~~~~~~~~~~~~l~r~rl~l~~g~~~~~~l~~~~  396 (529)
T 3npe_A          317 KHAADASEMAWVDVPDCFCFHLWNAWEDEATGEVVVIGSCMTPADSIFNESDERLESVLTEIRLDARTGRSTRRAVLPPS  396 (529)
T ss_dssp             TTCSSGGGCEEEECTTCEEEEEEEEEEETTTTEEEEEEEEECCCCCSCCSSSSCCCCEEEEEEECTTTCCEEEEESSCSS
T ss_pred             CCCCCCCceEEEEcCCEEEEEecccEecCCCCeEEEEEecccCchhhhhccchhhccceEEEEEcCCCCCEEeEEecccc
Confidence            998766789999999999999999999864 68998888764422           122333  21111           


Q ss_pred             -----c-----------------------------EEEE-cccC-------------C----cCCCC----CCCCCCcEE
Q 039955          336 -----L-----------------------------MEKN-TRSG-------------G----VAANT----EADEDNGYV  359 (420)
Q Consensus       336 -----~-----------------------------l~~~-l~tG-------------G----vPr~~----~~~EDDG~l  359 (420)
                           .                             |.++ +.||             |    |||++    +++||||||
T Consensus       397 ~~~~~EfP~In~~~~Gr~~Ry~Y~~~~~~~~~~~~l~K~D~~tg~~~~~~~g~~~~~~EPvFVPrp~~~~~~~~EDDG~l  476 (529)
T 3npe_A          397 QQVNLEVGMVNRNLLGRETRYAYLAVAEPWPKVSGFAKVDLSTGELTKFEYGEGRFGGEPCFVPMDPAAAHPRGEDDGYV  476 (529)
T ss_dssp             SCCCEEEEEECGGGTTSCCSEEEEEECCSTTSCCEEEEEETTTCCEEEEECCTTBCCCCCEEEECCSCSSSSCCTTCEEE
T ss_pred             cCccccCceEChhHcCCccceEEEeccCCCCCcceEEEEecCCCceEEEEcCCCccccCCEeeeCCCCCCCCCCCCCcEE
Confidence                 0                             1111 3333             1    59998    889999999


Q ss_pred             EEEEEeCCCCceEEEEEeCCCCCCCeeEEEEcCCcCCCCCCcccccchhHhhhhc
Q 039955          360 VSYVHDAKTGESKFLVTDAKSPHLDIEAVVKSTQSVPTGSHGLFVREIELRKLYK  414 (420)
Q Consensus       360 ls~v~d~~~~~S~l~VlDA~~~~~~pVArv~LP~rVP~GFHG~fv~~~~l~~~~~  414 (420)
                      |++|+|+.+++|+|+||||++|  ++||||+||+||||||||+|++++||++|++
T Consensus       477 Ls~V~d~~~~~S~LlILDA~~l--~~vArv~LP~rvP~GfHG~wv~~~~l~~q~~  529 (529)
T 3npe_A          477 LTFVHDERAGTSELLVVNAADM--RLEATVQLPSRVPFGFHGTFITGQELEAQAA  529 (529)
T ss_dssp             EEEEEBSSCCCEEEEEEETTTT--EEEEEEEESSCCCCCSCEEEEEHHHHTTCCC
T ss_pred             EEEEEECCCCcEEEEEEeCCCC--ccceEEECCCCCCCCccccccCHHHhhhhhC
Confidence            9999999999999999999999  6799999999999999999999999999863

PyMOL of 3npe

>2biw_A Apocarotenoid-cleaving oxygenase; non-heme iron, carotenoid cleavage, retinal forma oxidoreductase, dioxygenase; HET: 3ON; 2.39A {Synechocystis SP} PDB: 2bix_A*	Back alignment and structure

>3kvc_A Retinoid isomerohydrolase; 7-bladed beta-propeller, monotopic membrane protein, sensory transduction, vision, isomerase, non-heme iron protein; 1.90A {Bos taurus} PDB: 3fsn_A 4f2z_A 4f30_A 4f3a_A 4f3d_A	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00