Psyllid ID: psy2287

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-------27

MPLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYLGKIGAPKSQYVHSLDSLLQAYQQVAAG

ccccccEEccccccccccccccEEEEcccEEEccccccccccEEccccEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHcccccccccccHHHHHHHHHHHHcc

cccccEEEcccccccccccccccEEEEcccEccHHHHHHHHccccccccEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHEEEEEcEcccccHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHcccHHcccccccHHHHHHHHHHHHcc

mplpgisigeigsklgmntvnngylgfknvriprnnmlmKNAQVlkdgtyvkskndkltygTMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRrqsemkpgerepqildyktqQYKLFPAIATSYALRFSADWLWDIYNSVnadlekgnmgglpelhAMSCCLkavstsdsaTFIEVCRrscgghgymnssnfpntygMVTAAETYEGENTVLYLQTARFLIKAWNQLksggllssTVTYlgkigapksqYVHSLDSLLQAYQQVAAG

MPLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVAAAFLSKAVTIATRysavrrqsemkpgerepqildYKTQQYKLFPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYLGKIGAPKSQYVHSLDSLLQAYQQVAAG

*******IGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVAAAFLSKAVTIATRYSAV**************ILDYKTQQYKLFPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYLGKIGAPKSQYVHSLDSLLQAY******

MPLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTY*******LTYGTMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQS*****EREPQILDYKTQQYKLFPAIATSYALRFSADWLWDIYN*****************HAMSCCLKAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAW************VTYLGKIGAPKSQYVHSLDSLLQAYQQVAAG

MPLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVAAAFLSKAVTIATRYSAV***********EPQILDYKTQQYKLFPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYLGKIGAPKSQYVHSLDSLLQAYQQVAAG

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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		268	2.2.26 [Sep-21-2011]
Q7KML2		669	Probable peroxisomal acyl	yes	N/A	0.985	0.394	0.568	6e-88
Q5RC19		660	Peroxisomal acyl-coenzyme	yes	N/A	0.988	0.401	0.523	2e-77
Q3SZP5		660	Peroxisomal acyl-coenzyme	yes	N/A	0.988	0.401	0.523	2e-77
Q15067		660	Peroxisomal acyl-coenzyme	yes	N/A	0.988	0.401	0.519	2e-76
Q9Z1N0		661	Peroxisomal acyl-coenzyme	yes	N/A	0.988	0.400	0.519	3e-76
Q9R0H0		661	Peroxisomal acyl-coenzyme	yes	N/A	0.988	0.400	0.530	5e-76
P07872		661	Peroxisomal acyl-coenzyme	yes	N/A	0.988	0.400	0.527	6e-76
Q8HYL8		661	Peroxisomal acyl-coenzyme	N/A	N/A	0.988	0.400	0.505	2e-75
Q9ZQP2		664	Putative peroxisomal acyl	yes	N/A	0.899	0.362	0.479	2e-60
O65202		664	Peroxisomal acyl-coenzyme	no	N/A	0.985	0.397	0.444	6e-60

>sp\|Q7KML2\|ACOX1_DROME Probable peroxisomal acyl-coenzyme A oxidase 1 OS=Drosophila melanogaster GN=CG5009 PE=1 SV=1	Back alignment and function desciption

 Score =  323 bits (829), Expect = 6e-88,   Method: Compositional matrix adjust.
 Identities = 153/269 (56%), Positives = 204/269 (75%), Gaps = 5/269 (1%)

Query: 2   PLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYG 61
           P+PGI IG+IG+KLGM  VNNGYLG KNVR+P NNMLMKN QVL DGTYV  KN  LTYG
Sbjct: 230 PMPGIDIGDIGTKLGMKGVNNGYLGLKNVRVPLNNMLMKNQQVLPDGTYVAPKNSVLTYG 289

Query: 62  TMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAI 121
           TM+FVR +L+++ A + L+KA TIATRYSAVRRQS + P + EPQI+D+ TQQ KLFP I
Sbjct: 290 TMMFVRCALIRDTAQS-LAKASTIATRYSAVRRQSPIDPNQPEPQIMDHTTQQLKLFPQI 348

Query: 122 ATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRS 181
           A +   + + D +W++YN ++ ++E+GN+  LPE+HA+SCCLKA+ ++D+A  +E CR S
Sbjct: 349 AKAIVFKTTGDGIWNMYNVISGEIEQGNLDRLPEMHALSCCLKAICSADAAAGVETCRLS 408

Query: 182 CGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYL 241
           CGGHGYM+ SNFP  YGM TA  TYEGENTV+ LQTAR+L+K + Q  +G  L  TV+Y+
Sbjct: 409 CGGHGYMDCSNFPTIYGMTTAVCTYEGENTVMLLQTARYLVKVYGQALNGEKLVPTVSYI 468

Query: 242 GKIGAPKSQYVH---SLDSLLQAYQQVAA 267
                 ++++V+   SL S+++A+Q VAA
Sbjct: 469 SD-AINQTKFVNFDGSLRSIVKAFQFVAA 496

Drosophila melanogaster (taxid: 7227)
EC: 1EC: .EC: 3EC: .EC: 3EC: .EC: 6

>sp\|Q5RC19\|ACOX1_PONAB Peroxisomal acyl-coenzyme A oxidase 1 OS=Pongo abelii GN=ACOX1 PE=2 SV=2	Back alignment and function description

>sp\|Q3SZP5\|ACOX1_BOVIN Peroxisomal acyl-coenzyme A oxidase 1 OS=Bos taurus GN=ACOX1 PE=2 SV=1	Back alignment and function description

>sp\|Q15067\|ACOX1_HUMAN Peroxisomal acyl-coenzyme A oxidase 1 OS=Homo sapiens GN=ACOX1 PE=1 SV=3	Back alignment and function description

>sp\|Q9Z1N0\|ACOX1_CAVPO Peroxisomal acyl-coenzyme A oxidase 1 OS=Cavia porcellus GN=ACOX1 PE=2 SV=1	Back alignment and function description

>sp\|Q9R0H0\|ACOX1_MOUSE Peroxisomal acyl-coenzyme A oxidase 1 OS=Mus musculus GN=Acox1 PE=1 SV=5	Back alignment and function description

>sp\|P07872\|ACOX1_RAT Peroxisomal acyl-coenzyme A oxidase 1 OS=Rattus norvegicus GN=Acox1 PE=1 SV=1	Back alignment and function description

>sp\|Q8HYL8\|ACOX1_PHACI Peroxisomal acyl-coenzyme A oxidase 1 OS=Phascolarctos cinereus GN=ACOX1 PE=1 SV=2	Back alignment and function description

>sp\|Q9ZQP2\|ACO12_ARATH Putative peroxisomal acyl-coenzyme A oxidase 1.2 OS=Arabidopsis thaliana GN=ACX1.2 PE=2 SV=1	Back alignment and function description

>sp\|O65202\|ACOX1_ARATH Peroxisomal acyl-coenzyme A oxidase 1 OS=Arabidopsis thaliana GN=ACX1 PE=1 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		268
328717830		632	PREDICTED: probable peroxisomal acyl-coe	0.988	0.419	0.657	1e-101
307193504		666	Probable peroxisomal acyl-coenzyme A oxi	0.992	0.399	0.646	2e-98
307182739		666	Probable peroxisomal acyl-coenzyme A oxi	0.992	0.399	0.635	2e-97
332027665		666	Putative peroxisomal acyl-coenzyme A oxi	0.992	0.399	0.631	9e-97
322788135		624	hypothetical protein SINV_01615 [Solenop	0.992	0.426	0.631	1e-96
91082769		665	PREDICTED: similar to acyl-CoA oxidase [	0.981	0.395	0.651	2e-96
357610445		467	putative Acyl-coenzyme A oxidase 1, pero	0.996	0.571	0.618	2e-93
242025648		671	Acyl-coenzyme A oxidase 1, peroxisomal,	0.992	0.396	0.607	3e-93
328717825		671	PREDICTED: probable peroxisomal acyl-coe	0.992	0.396	0.602	4e-93
345496989		664	PREDICTED: probable peroxisomal acyl-coe	0.992	0.400	0.605	3e-92

>gi\|328717830\|ref\|XP_001944505.2\| PREDICTED: probable peroxisomal acyl-coenzyme A oxidase 1-like [Acyrthosiphon pisum]	Back alignment and taxonomy information

 Score =  373 bits (958), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 175/266 (65%), Positives = 211/266 (79%), Gaps = 1/266 (0%)

Query: 2   PLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYG 61
           P+PGI IGEIG KLGMN+ NNGYL F NVRIPR NMLMKNAQVLKDGTY KS NDKLTYG
Sbjct: 195 PMPGIKIGEIGGKLGMNSTNNGYLAFDNVRIPRMNMLMKNAQVLKDGTYKKSVNDKLTYG 254

Query: 62  TMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAI 121
           TMIFVRV +V+++ ++++SKA  IATRYS VRRQSE+KPG  EPQILDY+TQQYK+FPAI
Sbjct: 255 TMIFVRVVIVRDLVSSYISKAAIIATRYSCVRRQSELKPGAGEPQILDYQTQQYKIFPAI 314

Query: 122 ATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRS 181
           A S A +F+A WLWD+YN V + LE+G++  LPELHAM+CCLKAVST+D+A  +  CR +
Sbjct: 315 AISLAYKFAASWLWDVYNDVTSQLEQGDLERLPELHAMACCLKAVSTADAAVAVTTCRLA 374

Query: 182 CGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYL 241
           CGGHGYMN SNFPN Y M +AAETYEGENTVL LQTAR+L+KA    KSG  L+ TV YL
Sbjct: 375 CGGHGYMNCSNFPNMYAMASAAETYEGENTVLLLQTARYLMKACQDAKSGLKLTETVLYL 434

Query: 242 GKIGAPKSQ-YVHSLDSLLQAYQQVA 266
               + + + ++  LD +  A+ QVA
Sbjct: 435 SNFKSLRRRNWITDLDCIGNAFLQVA 460

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi\|307193504\|gb\|EFN76281.1\| Probable peroxisomal acyl-coenzyme A oxidase 1 [Harpegnathos saltator]	Back alignment and taxonomy information

>gi\|307182739\|gb\|EFN69863.1\| Probable peroxisomal acyl-coenzyme A oxidase 1 [Camponotus floridanus]	Back alignment and taxonomy information

>gi\|332027665\|gb\|EGI67733.1\| Putative peroxisomal acyl-coenzyme A oxidase 1 [Acromyrmex echinatior]	Back alignment and taxonomy information

>gi\|322788135\|gb\|EFZ13917.1\| hypothetical protein SINV_01615 [Solenopsis invicta]	Back alignment and taxonomy information

>gi\|91082769\|ref\|XP_973660.1\| PREDICTED: similar to acyl-CoA oxidase [Tribolium castaneum] gi\|270015082\|gb\|EFA11530.1\| hypothetical protein TcasGA2_TC014245 [Tribolium castaneum]	Back alignment and taxonomy information

>gi\|357610445\|gb\|EHJ66979.1\| putative Acyl-coenzyme A oxidase 1, peroxisomal [Danaus plexippus]	Back alignment and taxonomy information

>gi\|242025648\|ref\|XP_002433236.1\| Acyl-coenzyme A oxidase 1, peroxisomal, putative [Pediculus humanus corporis] gi\|212518777\|gb\|EEB20498.1\| Acyl-coenzyme A oxidase 1, peroxisomal, putative [Pediculus humanus corporis]	Back alignment and taxonomy information

>gi\|328717825\|ref\|XP_001944543.2\| PREDICTED: probable peroxisomal acyl-coenzyme A oxidase 1-like [Acyrthosiphon pisum]	Back alignment and taxonomy information

>gi\|345496989\|ref\|XP_001599966.2\| PREDICTED: probable peroxisomal acyl-coenzyme A oxidase 1-like [Nasonia vitripennis]	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		268
FB\|FBgn0027572		669	CG5009 [Drosophila melanogaste	0.985	0.394	0.568	9.7e-80
ZFIN\|ZDB-GENE-041010-219		660	acox1 "acyl-Coenzyme A oxidase	0.902	0.366	0.563	1.1e-69
UNIPROTKB\|Q5RC19		660	ACOX1 "Peroxisomal acyl-coenzy	0.988	0.401	0.523	4.9e-69
UNIPROTKB\|Q3SZP5		660	ACOX1 "Peroxisomal acyl-coenzy	0.988	0.401	0.523	6.3e-69
UNIPROTKB\|F1RVZ1		578	ACOX1 "Acyl-coenzyme A oxidase	0.973	0.451	0.520	8e-69
UNIPROTKB\|Q9Z1N0		661	ACOX1 "Peroxisomal acyl-coenzy	0.925	0.375	0.554	8e-69
UNIPROTKB\|F1NY37		662	ACOX1 "Acyl-coenzyme A oxidase	0.936	0.379	0.539	1e-68
MGI\|MGI:1330812		661	Acox1 "acyl-Coenzyme A oxidase	0.988	0.400	0.530	2.1e-68
UNIPROTKB\|F5H0M0		592	ACOX1 "Acyl-coenzyme A oxidase	0.925	0.418	0.550	3.5e-68
UNIPROTKB\|Q15067		660	ACOX1 "Peroxisomal acyl-coenzy	0.925	0.375	0.550	3.5e-68

FB\|FBgn0027572 CG5009 [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

 Score = 801 (287.0 bits), Expect = 9.7e-80, P = 9.7e-80
 Identities = 153/269 (56%), Positives = 204/269 (75%)

Query:     2 PLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYG 61
             P+PGI IG+IG+KLGM  VNNGYLG KNVR+P NNMLMKN QVL DGTYV  KN  LTYG
Sbjct:   230 PMPGIDIGDIGTKLGMKGVNNGYLGLKNVRVPLNNMLMKNQQVLPDGTYVAPKNSVLTYG 289

Query:    62 TMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAI 121
             TM+FVR +L+++ A + L+KA TIATRYSAVRRQS + P + EPQI+D+ TQQ KLFP I
Sbjct:   290 TMMFVRCALIRDTAQS-LAKASTIATRYSAVRRQSPIDPNQPEPQIMDHTTQQLKLFPQI 348

Query:   122 ATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRS 181
             A +   + + D +W++YN ++ ++E+GN+  LPE+HA+SCCLKA+ ++D+A  +E CR S
Sbjct:   349 AKAIVFKTTGDGIWNMYNVISGEIEQGNLDRLPEMHALSCCLKAICSADAAAGVETCRLS 408

Query:   182 CGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYL 241
             CGGHGYM+ SNFP  YGM TA  TYEGENTV+ LQTAR+L+K + Q  +G  L  TV+Y+
Sbjct:   409 CGGHGYMDCSNFPTIYGMTTAVCTYEGENTVMLLQTARYLVKVYGQALNGEKLVPTVSYI 468

Query:   242 GKIGAPKSQYVH---SLDSLLQAYQQVAA 267
                   ++++V+   SL S+++A+Q VAA
Sbjct:   469 SD-AINQTKFVNFDGSLRSIVKAFQFVAA 496

GO:0016401 "palmitoyl-CoA oxidase activity" evidence=ISS

GO:0050660 "flavin adenine dinucleotide binding" evidence=IEA

GO:0006635 "fatty acid beta-oxidation" evidence=IEA

GO:0005777 "peroxisome" evidence=IEA

GO:0003995 "acyl-CoA dehydrogenase activity" evidence=IEA

ZFIN\|ZDB-GENE-041010-219 acox1 "acyl-Coenzyme A oxidase 1, palmitoyl" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5RC19 ACOX1 "Peroxisomal acyl-coenzyme A oxidase 1" [Pongo abelii (taxid:9601)]	Back alignment and assigned GO terms

UNIPROTKB\|Q3SZP5 ACOX1 "Peroxisomal acyl-coenzyme A oxidase 1" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|F1RVZ1 ACOX1 "Acyl-coenzyme A oxidase" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|Q9Z1N0 ACOX1 "Peroxisomal acyl-coenzyme A oxidase 1" [Cavia porcellus (taxid:10141)]	Back alignment and assigned GO terms

UNIPROTKB\|F1NY37 ACOX1 "Acyl-coenzyme A oxidase" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

MGI\|MGI:1330812 Acox1 "acyl-Coenzyme A oxidase 1, palmitoyl" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|F5H0M0 ACOX1 "Acyl-coenzyme A oxidase" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|Q15067 ACOX1 "Peroxisomal acyl-coenzyme A oxidase 1" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q15067	ACOX1_HUMAN	1, ., 3, ., 3, ., 6	0.5198	0.9888	0.4015	yes	N/A
Q9R0H0	ACOX1_MOUSE	1, ., 3, ., 3, ., 6	0.5306	0.9888	0.4009	yes	N/A
Q9Z1N0	ACOX1_CAVPO	1, ., 3, ., 3, ., 6	0.5198	0.9888	0.4009	yes	N/A
P07872	ACOX1_RAT	1, ., 3, ., 3, ., 6	0.5270	0.9888	0.4009	yes	N/A
Q5RC19	ACOX1_PONAB	1, ., 3, ., 3, ., 6	0.5234	0.9888	0.4015	yes	N/A
Q3SZP5	ACOX1_BOVIN	1, ., 3, ., 3, ., 6	0.5234	0.9888	0.4015	yes	N/A
Q7KML2	ACOX1_DROME	1, ., 3, ., 3, ., 6	0.5687	0.9850	0.3946	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	1.3.3	LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Alignment Graph	Length	Definition	E-value
Query		268
cd01150		610	cd01150, AXO, Peroxisomal acyl-CoA oxidase	1e-108
PLN02443		664	PLN02443, PLN02443, acyl-coenzyme A oxidase	2e-88
PTZ00460		646	PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provis	2e-52
PLN02636		686	PLN02636, PLN02636, acyl-coenzyme A oxidase	7e-48
PLN02312		680	PLN02312, PLN02312, acyl-CoA oxidase	2e-33
cd00567		327	cd00567, ACAD, Acyl-CoA dehydrogenase	1e-18
COG1960		393	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid meta	2e-07

>gnl\|CDD\|173839 cd01150, AXO, Peroxisomal acyl-CoA oxidase	Back alignment and domain information

 Score =  325 bits (834), Expect = e-108
 Identities = 110/230 (47%), Positives = 146/230 (63%), Gaps = 4/230 (1%)

Query: 2   PLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKND-KLTY 60
           PLPG+++G+IG K+G+N V+NG+L F+NVRIPR N+L +   V  DGTYV    D    Y
Sbjct: 219 PLPGVTVGDIGPKMGLNGVDNGFLQFRNVRIPRENLLNRFGDVSPDGTYVSPFKDPNKRY 278

Query: 61  GTMIFVRVSLVKNV---AAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKL 117
           G M+  R      +   AA  L KA TIA RYSAVRRQ   KP + E QILDY+ QQY+L
Sbjct: 279 GAMLGTRSGGRVGLIYDAAMSLKKAATIAIRYSAVRRQFGPKPSDPEVQILDYQLQQYRL 338

Query: 118 FPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEV 177
           FP +A +YA  F+A  L ++Y+ +  +L +GN   L ELHA+S  LKAV+T  +A  I+ 
Sbjct: 339 FPQLAAAYAFHFAAKSLVEMYHEIIKELLQGNSELLAELHALSAGLKAVATWTAAQGIQE 398

Query: 178 CRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQ 227
           CR +CGGHGY+  +  P          TYEG+NTVL  QTA +L+K + Q
Sbjct: 399 CREACGGHGYLAMNRLPTLRDDNDPFCTYEGDNTVLLQQTANYLLKKYAQ 448

Peroxisomal acyl-CoA oxidases (AXO) catalyze the first set in the peroxisomal fatty acid beta-oxidation, the alpha,beta dehydrogenation of the corresponding trans-enoyl-CoA by FAD, which becomes reduced. In a second oxidative half-reaction, the reduced FAD is reoxidized by molecular oxygen. AXO is generally a homodimer, but it has been reported to form a different type of oligomer in yeast. There are several subtypes of AXO's, based on substrate specificity. Palmitoyl-CoA oxidase acts on straight-chain fatty acids and prostanoids; whereas, the closely related Trihydroxycoprostanoly-CoA oxidase has the greatest activity for 2-methyl branched side chains of bile precursors. Pristanoyl-CoA oxidase, acts on 2-methyl branched fatty acids. AXO has an additional domain, C-terminal to the region with similarity to acyl-CoA dehydrogenases, which is included in this alignment. Length = 610

>gnl\|CDD\|178062 PLN02443, PLN02443, acyl-coenzyme A oxidase	Back alignment and domain information

>gnl\|CDD\|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional	Back alignment and domain information

>gnl\|CDD\|215342 PLN02636, PLN02636, acyl-coenzyme A oxidase	Back alignment and domain information

>gnl\|CDD\|215178 PLN02312, PLN02312, acyl-CoA oxidase	Back alignment and domain information

>gnl\|CDD\|173838 cd00567, ACAD, Acyl-CoA dehydrogenase	Back alignment and domain information

>gnl\|CDD\|224871 COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		268
PTZ00460		646	acyl-CoA dehydrogenase; Provisional	100.0
PLN02636		686	acyl-coenzyme A oxidase	100.0
KOG0140\|consensus		408		100.0
PLN02312		680	acyl-CoA oxidase	100.0
PLN02443		664	acyl-coenzyme A oxidase	100.0
KOG0139\|consensus		398		100.0
cd01150		610	AXO Peroxisomal acyl-CoA oxidase. Peroxisomal acyl	100.0
KOG0141\|consensus		421		100.0
KOG0136\|consensus		670		100.0
KOG0135\|consensus		661		100.0
cd01151		386	GCD Glutaryl-CoA dehydrogenase. Glutaryl-CoA dehyd	100.0
PRK03354		380	crotonobetainyl-CoA dehydrogenase; Validated	100.0
cd01155		394	ACAD_FadE2 Acyl-CoA dehydrogenases similar to fadE	100.0
cd01162		375	IBD Isobutyryl-CoA dehydrogenase. Isobutyryl-CoA d	100.0
cd01157		378	MCAD Medium chain acyl-CoA dehydrogenase. MCADs ar	100.0
PRK12341		381	putative acyl-CoA dehydrogenase; Provisional	100.0
cd01161		409	VLCAD Very long chain acyl-CoA dehydrogenase. VLCA	100.0
PLN02526		412	acyl-coenzyme A oxidase	99.98
PLN02519		404	isovaleryl-CoA dehydrogenase	99.98
PTZ00461		410	isovaleryl-CoA dehydrogenase; Provisional	99.98
cd01160		372	LCAD Long chain acyl-CoA dehydrogenase. LCAD is an	99.98
TIGR03207		372	cyc_hxne_CoA_dh cyclohexanecarboxyl-CoA dehydrogen	99.98
cd01156		376	IVD Isovaleryl-CoA dehydrogenase. Isovaleryl-CoA d	99.97
COG1960		393	CaiA Acyl-CoA dehydrogenases [Lipid metabolism]	99.97
cd01158		373	SCAD_SBCAD Short chain acyl-CoA dehydrogenases and	99.97
PLN02876		822	acyl-CoA dehydrogenase	99.97
TIGR03203		378	pimD_small pimeloyl-CoA dehydrogenase, small subun	99.97
PRK09463		777	fadE acyl-CoA dehydrogenase; Reviewed	99.97
PRK11561		538	isovaleryl CoA dehydrogenase; Provisional	99.97
cd01159		370	NcnH Naphthocyclinone hydroxylase. Naphthocyclinon	99.96
cd01154		418	AidB Proteins involved in DNA damage response, sim	99.96
cd00567		327	ACAD Acyl-CoA dehydrogenase. Both mitochondrial ac	99.96
PRK13026		774	acyl-CoA dehydrogenase; Reviewed	99.96
cd01153		407	ACAD_fadE5 Putative acyl-CoA dehydrogenases simila	99.96
cd01163		377	DszC Dibenzothiophene (DBT) desulfurization enzyme	99.96
PTZ00456		622	acyl-CoA dehydrogenase; Provisional	99.95
KOG0137\|consensus		634		99.95
cd01152		380	ACAD_fadE6_17_26 Putative acyl-CoA dehydrogenases	99.95
TIGR03204		395	pimC_large pimeloyl-CoA dehydrogenase, large subun	99.94
KOG0138\|consensus		432		99.92
PF00441		150	Acyl-CoA_dh_1: Acyl-CoA dehydrogenase, C-terminal	99.91
KOG1469\|consensus		392		99.87
PTZ00457		520	acyl-CoA dehydrogenase; Provisional	99.81
PF08028		134	Acyl-CoA_dh_2: Acyl-CoA dehydrogenase, C-terminal	99.75
TIGR02309		477	HpaB-1 4-hydroxyphenylacetate 3-monooxygenase, oxy	99.6
COG2368		493	Aromatic ring hydroxylase [Secondary metabolites b	97.45
TIGR02310		519	HpaB-2 4-hydroxyphenylacetate 3-monooxygenase, oxy	97.13
PF03241		205	HpaB: 4-hydroxyphenylacetate 3-hydroxylase C termi	91.26

>PTZ00460 acyl-CoA dehydrogenase; Provisional	Back alignment and domain information

Probab=100.00  E-value=4.3e-38  Score=299.48  Aligned_cols=261  Identities=31%  Similarity=0.514  Sum_probs=213.2

Q ss_pred             CCCCeEEcccCCCCCCCCCCceEEEecceecCccccccccCccCCCCceeecCCcccchhhhhHHHHHHHHHHHHHHHHH
Q psy2287           2 PLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYGTMIFVRVSLVKNVAAAFLSK   81 (268)
Q Consensus         2 ~~pGvti~~~~~~~G~rgt~s~~v~fddV~VP~~~~lg~~~~~~~~g~g~~~~~~~l~~~~~~~~R~~laa~~~~~g~~~   81 (268)
                      ++|||+++++++++|+++.+++.+.||||+||++++||+++.++++|...+.....+.+..|...|+.+++.  +.|+++
T Consensus       212 ~~pGV~vg~~~~k~G~~~~dng~l~Fd~VrVP~~nlLg~~~~v~~~G~~~~~g~~~~~~~~l~~~R~~iaa~--~~g~a~  289 (646)
T PTZ00460        212 PLQGVEVGDIGPKMGYAVKDNGFLSFDHYRIPLDSLLARYIKVSEDGQVERQGNPKVSYASMMYMRNLIIDQ--YPRFAA  289 (646)
T ss_pred             CCCCeEEeccccccCcCCCCceEEEeceEEECHHHhCCcccccCCCCccccCCcHHHHHHHHHHHHHHHHHH--HHHHHH
Confidence            579999999999999999999999999999999999998877777775322111122334445559999888  555554


Q ss_pred             -HHHHHHHhhhccccCCCCCCCCCccccchHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCChhhHHHHH
Q psy2287          82 -AVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMS  160 (268)
Q Consensus        82 -al~~a~~~~~~R~~~g~~~~~~~~~l~~~~~vq~~la~~~a~~~a~ra~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~  160 (268)
                       |++++++|+..|++||. +++++.||+++|.+|++|+++.+.+++++.+.+++...+++.....+.++....++.+..+
T Consensus       290 ~Al~iAvrYa~~R~QFg~-~~~~E~pI~~yQ~~Q~rLa~~la~~~A~r~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~a  368 (646)
T PTZ00460        290 QALTVAIRYSIYRQQFTN-DNKQENSVLEYQTQQQKLLPLLAEFYACIFGGLKIKELVDDNFNRVQKNDFSLLQLTHAIL  368 (646)
T ss_pred             HHHHHHHHHHHccccCCC-CCCCCCcHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccCccchhhhHHHHH
Confidence             99999999999999983 2233569999999999999999999999999998888776654433333322234467889


Q ss_pred             hHHHHHHHHHHHHHHHHHHHHcCcccccccCChhhhhhhccccccccchhHHHHHHHHHHHHHHHHHhhcC-CCccccch
Q psy2287         161 CCLKAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSG-GLLSSTVT  239 (268)
Q Consensus       161 ~~aK~~a~~~a~~~~~~~~~~~Gg~g~~~~~~l~r~~rDa~~~~i~~Gt~~v~~~~ia~~ll~~~~~~~~~-~~~~~~~~  239 (268)
                      +++|.++++.+.++++.|+|+|||+||+.+++++++|||++...++||+++|++.+||+.+++.+.+..++ +++.++++
T Consensus       369 s~aK~~~t~~a~~~~~~~~q~~GG~Gy~~~~~l~~~~rda~~~~t~eG~n~vl~~~iar~ll~~~~~~~~~~~~~~~~~~  448 (646)
T PTZ00460        369 SAAKANYTYFVSNCAEWCRLSCGGHGYAHYSGLPAIYFDMSPNITLEGENQIMYLQLARYLLKQLQHAVQKPEKVPEYFN  448 (646)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhCCccccccCcHHHHHHHhccceeecCcHHHHHHHHHHHHHHHHHHhhcCCCcchhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999887765 46667999


Q ss_pred             hccccCCCCccccCCHHHHHHHHHHHh
Q psy2287         240 YLGKIGAPKSQYVHSLDSLLQAYQQVA  266 (268)
Q Consensus       240 ~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (268)
                      ||+..+..... ..+.++++++|+.++
T Consensus       449 ~l~~~~~~~~~-~~~~~~~~~~~~~~~  474 (646)
T PTZ00460        449 FLSHITEKLAD-QTTIESLGQLLGLNC  474 (646)
T ss_pred             HHHHhhhhccc-cCChHHHHHHhHHHH
Confidence            99876533333 567788888888664

>PLN02636 acyl-coenzyme A oxidase	Back alignment and domain information

>KOG0140\|consensus	Back alignment and domain information

>PLN02312 acyl-CoA oxidase	Back alignment and domain information

>PLN02443 acyl-coenzyme A oxidase	Back alignment and domain information

>KOG0139\|consensus	Back alignment and domain information

>cd01150 AXO Peroxisomal acyl-CoA oxidase	Back alignment and domain information

>KOG0141\|consensus	Back alignment and domain information

>KOG0136\|consensus	Back alignment and domain information

>KOG0135\|consensus	Back alignment and domain information

>cd01151 GCD Glutaryl-CoA dehydrogenase	Back alignment and domain information

>PRK03354 crotonobetainyl-CoA dehydrogenase; Validated	Back alignment and domain information

>cd01155 ACAD_FadE2 Acyl-CoA dehydrogenases similar to fadE2	Back alignment and domain information

>cd01162 IBD Isobutyryl-CoA dehydrogenase	Back alignment and domain information

>cd01157 MCAD Medium chain acyl-CoA dehydrogenase	Back alignment and domain information

>PRK12341 putative acyl-CoA dehydrogenase; Provisional	Back alignment and domain information

>cd01161 VLCAD Very long chain acyl-CoA dehydrogenase	Back alignment and domain information

>PLN02526 acyl-coenzyme A oxidase	Back alignment and domain information

>PLN02519 isovaleryl-CoA dehydrogenase	Back alignment and domain information

>PTZ00461 isovaleryl-CoA dehydrogenase; Provisional	Back alignment and domain information

>cd01160 LCAD Long chain acyl-CoA dehydrogenase	Back alignment and domain information

>TIGR03207 cyc_hxne_CoA_dh cyclohexanecarboxyl-CoA dehydrogenase	Back alignment and domain information

>cd01156 IVD Isovaleryl-CoA dehydrogenase	Back alignment and domain information

>COG1960 CaiA Acyl-CoA dehydrogenases [Lipid metabolism]	Back alignment and domain information

>cd01158 SCAD_SBCAD Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases	Back alignment and domain information

>PLN02876 acyl-CoA dehydrogenase	Back alignment and domain information

>TIGR03203 pimD_small pimeloyl-CoA dehydrogenase, small subunit	Back alignment and domain information

>PRK09463 fadE acyl-CoA dehydrogenase; Reviewed	Back alignment and domain information

>PRK11561 isovaleryl CoA dehydrogenase; Provisional	Back alignment and domain information

>cd01159 NcnH Naphthocyclinone hydroxylase	Back alignment and domain information

>cd01154 AidB Proteins involved in DNA damage response, similar to the AidB gene product	Back alignment and domain information

>cd00567 ACAD Acyl-CoA dehydrogenase	Back alignment and domain information

>PRK13026 acyl-CoA dehydrogenase; Reviewed	Back alignment and domain information

>cd01153 ACAD_fadE5 Putative acyl-CoA dehydrogenases similar to fadE5	Back alignment and domain information

>cd01163 DszC Dibenzothiophene (DBT) desulfurization enzyme C	Back alignment and domain information

>PTZ00456 acyl-CoA dehydrogenase; Provisional	Back alignment and domain information

>KOG0137\|consensus	Back alignment and domain information

>cd01152 ACAD_fadE6_17_26 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	Back alignment and domain information

>TIGR03204 pimC_large pimeloyl-CoA dehydrogenase, large subunit	Back alignment and domain information

>KOG0138\|consensus	Back alignment and domain information

>PF00441 Acyl-CoA_dh_1: Acyl-CoA dehydrogenase, C-terminal domain; InterPro: IPR006090 Mammalian Co-A dehydrogenases (1	Back alignment and domain information

>KOG1469\|consensus	Back alignment and domain information

>PTZ00457 acyl-CoA dehydrogenase; Provisional	Back alignment and domain information

>PF08028 Acyl-CoA_dh_2: Acyl-CoA dehydrogenase, C-terminal domain; InterPro: IPR013107 Acyl Co-A dehydrogenases (1	Back alignment and domain information

>TIGR02309 HpaB-1 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component	Back alignment and domain information

>COG2368 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]	Back alignment and domain information

>TIGR02310 HpaB-2 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component	Back alignment and domain information

>PF03241 HpaB: 4-hydroxyphenylacetate 3-hydroxylase C terminal; InterPro: IPR024719 This C-terminal domain is found in HpaB, which encodes part of the 4-hydroxyphenylacetate 3-hydroxylase from Escherichia coli []	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		268
1is2_A		661	Crystal Structure Of Peroxisomal Acyl-coa Oxidase-i		6e-77
2fon_A		683	X-Ray Crystal Structure Of Leacx1, An Acyl-Coa Oxid		8e-64
1w07_A		659	Arabidopsis Thaliana Acyl-Coa Oxidase 1 Length = 65		5e-61

>pdb|1IS2|A Chain A, Crystal Structure Of Peroxisomal Acyl-coa Oxidase-ii From Rat Liver Length = 661

Back alignment and structure

Iteration: 1

Score = 283 bits (725), Expect = 6e-77, Method: Compositional matrix adjust. Identities = 146/277 (52%), Positives = 190/277 (68%), Gaps = 12/277 (4%) Query: 2 PLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTYG 61 PLPGI++G+IG K G ++NGYL N RIPR NMLMK AQV DGTYVK ++KLTYG Sbjct: 217 PLPGITVGDIGPKFGYEEMDNGYLKMDNYRIPRENMLMKYAQVKPDGTYVKPLSNKLTYG 276 Query: 62 TMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAI 121 TM+FVR LV N AA LSKA TIA RYSAVRRQSE+K E EPQILD++TQQYKLFP + Sbjct: 277 TMVFVRSFLVGN-AAQSLSKACTIAIRYSAVRRQSEIKQSEPEPQILDFQTQQYKLFPLL 335 Query: 122 ATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRS 181 AT+YA F ++ + Y +N + +G++ LPELHA++ LKA +T + IE CR + Sbjct: 336 ATAYAFHFVGRYMKETYLRINESIGQGDLSELPELHALTAGLKAFTTWTANAGIEECRMA 395 Query: 182 CGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYL 241 CGGHGY +SS PN Y T A T+EGENTV+ LQTARFL+K ++Q++SG L+ V+YL Sbjct: 396 CGGHGYSHSSGIPNIYVTFTPACTFEGENTVMMLQTARFLMKIYDQVRSGKLVGGMVSYL 455 Query: 242 GKIGAPKSQY-----------VHSLDSLLQAYQQVAA 267 + + + Q ++SL+ L +AY+ AA Sbjct: 456 NDLPSQRIQPQQVAVWPTMVDINSLEGLTEAYKLRAA 492

PyMOL of 1is2

>pdb|2FON|A Chain A, X-Ray Crystal Structure Of Leacx1, An Acyl-Coa Oxidase From Lycopersicon Esculentum (Tomato) Length = 683

Back alignment and structure

>pdb|1W07|A Chain A, Arabidopsis Thaliana Acyl-Coa Oxidase 1 Length = 659

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		268
2ddh_A		661	Acyl-COA oxidase; beta barrel, alpha UP-DOWN bundl	1e-104
1w07_A		659	Acyl-COA oxidase; oxidoreductase, peroxisomal beta	5e-98
3sf6_A		403	Glutaryl-COA dehydrogenase; ssgcid, NIH, niaid, SB	3e-04
2ix5_A		436	Acyl-coenzyme A oxidase 4, peroxisomal; FAD, ACX4,	4e-04
1siq_A		392	GCD, glutaryl-COA dehydrogenase; acyl-COA dehydrog	5e-04
3swo_A		399	Glutaryl-COA dehydrogenase; ssgcid, glutaryl-COA d	5e-04
2uxw_A		607	VERY-long-chain specific acyl-COA dehydrogenase; f	5e-04
2eba_A		385	Putative glutaryl-COA dehydrogenase; thermus therm	6e-04
3ii9_A		396	Glutaryl-COA dehydrogenase; slipchip, microfluidic	7e-04

>2ddh_A Acyl-COA oxidase; beta barrel, alpha UP-DOWN bundle, oxidoreductase; HET: FAD HXD; 2.07A {Rattus norvegicus} SCOP: a.29.3.2 a.29.3.2 e.6.1.2 PDB: 1is2_A* Length = 661	Back alignment and structure

 Score =  315 bits (808), Expect = e-104
 Identities = 146/278 (52%), Positives = 190/278 (68%), Gaps = 12/278 (4%)

Query: 1   MPLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYVKSKNDKLTY 60
            PLPGI++G+IG K G   ++NGYL   N RIPR NMLMK AQV  DGTYVK  ++KLTY
Sbjct: 216 KPLPGITVGDIGPKFGYEEMDNGYLKMDNYRIPRENMLMKYAQVKPDGTYVKPLSNKLTY 275

Query: 61  GTMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPA 120
           GTM+FVR  LV N AA  LSKA TIA RYSAVRRQSE+K  E EPQILD++TQQYKLFP 
Sbjct: 276 GTMVFVRSFLVGN-AAQSLSKACTIAIRYSAVRRQSEIKQSEPEPQILDFQTQQYKLFPL 334

Query: 121 IATSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRR 180
           +AT+YA  F   ++ + Y  +N  + +G++  LPELHA++  LKA +T  +   IE CR 
Sbjct: 335 LATAYAFHFVGRYMKETYLRINESIGQGDLSELPELHALTAGLKAFTTWTANAGIEECRM 394

Query: 181 SCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTY 240
           +CGGHGY +SS  PN Y   T A T+EGENTV+ LQTARFL+K ++Q++SG L+   V+Y
Sbjct: 395 ACGGHGYSHSSGIPNIYVTFTPACTFEGENTVMMLQTARFLMKIYDQVRSGKLVGGMVSY 454

Query: 241 LGKIGAPKSQY-----------VHSLDSLLQAYQQVAA 267
           L  + + + Q            ++SL+ L +AY+  AA
Sbjct: 455 LNDLPSQRIQPQQVAVWPTMVDINSLEGLTEAYKLRAA 492

PyMOL of 2ddh

>1w07_A Acyl-COA oxidase; oxidoreductase, peroxisomal beta-oxidation, FAD cofactor; HET: FAD; 2.0A {Arabidopsis thaliana} SCOP: a.29.3.2 a.29.3.2 e.6.1.2 PDB: 2fon_A* Length = 659	Back alignment and structure

>3sf6_A Glutaryl-COA dehydrogenase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, structu genomics; HET: FDA; 1.70A {Mycobacterium smegmatis} Length = 403	Back alignment and structure

>2ix5_A Acyl-coenzyme A oxidase 4, peroxisomal; FAD, ACX4, flavin, peroxisome, glyoxysome, fatty acid metabo lipid metabolism, acyl-COA oxidase; HET: CAA FAD; 2.7A {Arabidopsis thaliana} PDB: 2ix6_A* Length = 436	Back alignment and structure

>1siq_A GCD, glutaryl-COA dehydrogenase; acyl-COA dehydrogenase, decarboxylation, flavin protein, oxidoreductase; HET: FAD; 2.10A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1 PDB: 2r0n_A* 1sir_A* 2r0m_A* Length = 392	Back alignment and structure

>3swo_A Glutaryl-COA dehydrogenase; ssgcid, glutaryl-COA dehdrogenase, mycobacerium smegmatis, S genomics; HET: FDA; 1.45A {Mycobacterium smegmatis} Length = 399	Back alignment and structure

>2uxw_A VERY-long-chain specific acyl-COA dehydrogenase; fatty acid metabolism, transit peptide, disease mutation, LI metabolism, coenzyme A dehydrogenase; HET: FAD TH3; 1.45A {Homo sapiens} PDB: 3b96_A* Length = 607	Back alignment and structure

>2eba_A Putative glutaryl-COA dehydrogenase; thermus thermophilius, FAD, STRU genomics, NPPSFA; HET: FAD; 2.21A {Thermus thermophilus} Length = 385	Back alignment and structure

>3ii9_A Glutaryl-COA dehydrogenase; slipchip, microfluidics, screening, optimization, protein crystallization, structural genomics; HET: PGE PG4; 1.74A {Burkholderia pseudomallei 1710B} PDB: 3eon_A* 3eom_A* 3gqt_A* 3gnc_A* 3d6b_A Length = 396	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		268
2ddh_A		661	Acyl-COA oxidase; beta barrel, alpha UP-DOWN bundl	100.0
1w07_A		659	Acyl-COA oxidase; oxidoreductase, peroxisomal beta	100.0
2jif_A		404	Short/branched chain specific acyl-COA dehydrogen;	100.0
1egd_A		396	Medium chain acyl-COA dehydrogenase; flavoprotein,	100.0
2dvl_A		372	Acyl-COA dehydrogenase; structural genomics, NPPSF	100.0
3pfd_A		393	Acyl-COA dehydrogenase; structural genomics, seatt	100.0
1ukw_A		379	Acyl-COA dehydrogenase; oxidoreductase, riken stru	100.0
2vig_A		391	Short-chain specific acyl-COA dehydrogenase,; fatt	100.0
2d29_A		387	Acyl-COA dehydrogenase; structural genomics, NPPSF	100.0
4hr3_A		415	Putative acyl-COA dehydrogenase; ssgcid, seattle s	100.0
1ivh_A		394	Isovaleryl-COA dehydrogenase; oxidoreductase, acyl	100.0
1r2j_A		366	Protein FKBI; polyketide synthase, polyketide, acy	100.0
3owa_A		597	Acyl-COA dehydrogenase; structural genomics, cente	100.0
1buc_A		383	Butyryl-COA dehydrogenase; acyl-COA dehydrogenase	100.0
3swo_A		399	Glutaryl-COA dehydrogenase; ssgcid, glutaryl-COA d	100.0
1rx0_A		393	Acyl-COA dehydrogenase family member 8, mitochondr	100.0
3sf6_A		403	Glutaryl-COA dehydrogenase; ssgcid, NIH, niaid, SB	100.0
3r7k_A		403	Probable acyl COA dehydrogenase; ssgcid, structura	100.0
3nf4_A		387	Acyl-COA dehydrogenase; seattle structural genomic	100.0
2pg0_A		385	Acyl-COA dehydrogenase; GK1316, geobacillus kausto	100.0
3ii9_A		396	Glutaryl-COA dehydrogenase; slipchip, microfluidic	100.0
2wbi_A		428	Acyl-COA dehydrogenase family member 11; human, ph	100.0
3p4t_A		403	Putative acyl-COA dehydrogenase; ssgcid, structura	100.0
2eba_A		385	Putative glutaryl-COA dehydrogenase; thermus therm	100.0
2ix5_A		436	Acyl-coenzyme A oxidase 4, peroxisomal; FAD, ACX4,	100.0
3mpi_A		397	Glutaryl-COA dehydrogenase; alpha-beta fold, oxido	100.0
1siq_A		392	GCD, glutaryl-COA dehydrogenase; acyl-COA dehydrog	100.0
2z1q_A		577	Acyl-COA dehydrogenase; FAD, structural genomics,	100.0
3mkh_A		438	Nitroalkane oxidase; oxidoreductase flavoenzyme, a	100.0
2uxw_A		607	VERY-long-chain specific acyl-COA dehydrogenase; f	100.0
3mxl_A		395	Nitrososynthase; flavin monooxygenase, acyl-COA de	99.97
2jbr_A		422	P-hydroxyphenylacetate hydroxylase C2 oxygenase C;	99.97
2or0_A		414	Hydroxylase; APC7385, rhodococcus SP. RHA1, struct	99.97
2rfq_A		394	3-HSA hydroxylase, oxygenase; rhodococcus SP. RHA1	99.97
2c12_A		439	Nitroalkane oxidase; oxidoreductase, flavoenzyme,	99.97
3m9v_A		439	FAD-dependent oxidoreductase; KIJD3, fatty acyl-CO	99.97
3djl_A		541	Protein AIDB; alpha helix, beta-barrel, FAD, flavo	99.96
2yyk_A		481	4-hydroxyphenylacetate-3-hydroxylase; structurome,	99.83
1u8v_A		490	Gamma-aminobutyrate metabolism dehydratase/isomera	99.8
3hwc_A		515	Chlorophenol-4-monooxygenase component 2; beta bar	99.64
4g5e_A		517	2,4,6-trichlorophenol 4-monooxygenase; oxidoreduct	99.58
3owa_A		597	Acyl-COA dehydrogenase; structural genomics, cente	87.1

>2ddh_A Acyl-COA oxidase; beta barrel, alpha UP-DOWN bundle, oxidoreductase; HET: FAD HXD; 2.07A {Rattus norvegicus} SCOP: a.29.3.2 a.29.3.2 e.6.1.2 PDB: 1is2_A*	Back alignment and structure

Probab=100.00  E-value=7.6e-39  Score=306.56  Aligned_cols=259  Identities=52%  Similarity=0.824  Sum_probs=210.5

Q ss_pred             CCCCeEEcccCCCCCCCCCCceEEEecceecCccccccccCccCCCCcee-----ecCCcccchhhhhHHHHHHHHHHHH
Q psy2287           2 PLPGISIGEIGSKLGMNTVNNGYLGFKNVRIPRNNMLMKNAQVLKDGTYV-----KSKNDKLTYGTMIFVRVSLVKNVAA   76 (268)
Q Consensus         2 ~~pGvti~~~~~~~G~rgt~s~~v~fddV~VP~~~~lg~~~~~~~~g~g~-----~~~~~~l~~~~~~~~R~~laa~~~~   76 (268)
                      +.|||+|.++|+++|++++++++|.||||+||++++||..+.+.++|.+.     ......+..+     |+.+++.  +
T Consensus       217 ~~pGV~v~~~~~k~Gl~g~~~~~v~Fd~VrVP~~~lLg~~~~v~~~G~~~~~~~~~~~~~~l~~~-----R~~iaa~--~  289 (661)
T 2ddh_A          217 PLPGITVGDIGPKFGYEEMDNGYLKMDNYRIPRENMLMKYAQVKPDGTYVKPLSNKLTYGTMVFV-----RSFLVGN--A  289 (661)
T ss_dssp             BCTTEEEEECCCCSSCTTCCCEEEEESSEEEEGGGBCCSSCEECTTCCEECCC--------CHHH-----HHHHHHH--H
T ss_pred             CCCCeEEecCcccccCCCCcceEEEeccEEECHHHhcCcccccCCCCceeccchHHHHHHHHHHH-----HHHHHHH--H
Confidence            48999999999999999999999999999999999999765555567664     3333334445     9999988  5


Q ss_pred             HHHHH-HHHHHHHhhhccccCCCCCCCCCccccchHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCChhh
Q psy2287          77 AFLSK-AVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAIATSYALRFSADWLWDIYNSVNADLEKGNMGGLPE  155 (268)
Q Consensus        77 ~g~~~-al~~a~~~~~~R~~~g~~~~~~~~~l~~~~~vq~~la~~~a~~~a~ra~~~~~~~~~~~~~~~~~~g~~~~~~~  155 (268)
                      +|+++ +++.+++|++.|++||..+++.+.|++++|.+|++|+++.+.+++++++++++.+.+++..+..+.++....++
T Consensus       290 ~G~a~~al~~a~~ya~~R~qfg~~~~~~e~~i~~~q~vq~rLa~~~a~~~aar~~~~~aa~~~~~~~~~~~~g~~~~~~~  369 (661)
T 2ddh_A          290 AQSLSKACTIAIRYSAVRRQSEIKQSEPEPQILDFQTQQYKLFPLLATAYAFHFVGRYMKETYLRINESIGQGDLSELPE  369 (661)
T ss_dssp             HHHHHHHHHHHHHHHHHCBCSCSSTTSCCCBGGGSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC----------CCHHH
T ss_pred             HHHHHHHHHHHHHHHhhCcccCCCCCCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhhhh
Confidence            66655 99999999999999984333333489999999999999999999999999998887765554444555433345


Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHcCcccccccCChhhhhhhccccccccchhHHHHHHHHHHHHHHHHHhhcCCCcc
Q psy2287         156 LHAMSCCLKAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLS  235 (268)
Q Consensus       156 ~~~~~~~aK~~a~~~a~~~~~~~~~~~Gg~g~~~~~~l~r~~rDa~~~~i~~Gt~~v~~~~ia~~ll~~~~~~~~~~~~~  235 (268)
                      ....++++|.++++.+.++++.|+++|||.||..+++++++|||+++.++++|++++++.++|+.+++.+++..++++..
T Consensus       370 ~~~~aa~aK~~at~~a~~~~~~a~q~~GG~G~~~~~~l~r~~rda~~~~~~eG~~~vl~~~iar~lL~~~~~~~~~~~~~  449 (661)
T 2ddh_A          370 LHALTAGLKAFTTWTANAGIEECRMACGGHGYSHSSGIPNIYVTFTPACTFEGENTVMMLQTARFLMKIYDQVRSGKLVG  449 (661)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHSGGGSHHHHHHHHGGGGTSSSCHHHHHHHHHHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCcccccccCcHHHHHHhcceeeEecCchHHHHHHHHHHHHHHHHHhhcCCCCc
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999988888778


Q ss_pred             ccchhccccCC-----------CCccccCCHHHHHHHHHHHhc
Q psy2287         236 STVTYLGKIGA-----------PKSQYVHSLDSLLQAYQQVAA  267 (268)
Q Consensus       236 ~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~  267 (268)
                      ++++||+.+..           .....+.||+.++++|+.++.
T Consensus       450 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~  492 (661)
T 2ddh_A          450 GMVSYLNDLPSQRIQPQQVAVWPTMVDINSLEGLTEAYKLRAA  492 (661)
T ss_dssp             GGGGGGGGCCC--------------CCTTSHHHHHHHHHHHHH
T ss_pred             hHHHHHHhhhhhhccccccccccchhhhCCHHHHHHHHHHHHH
Confidence            89999997531           113458899999999998864

PyMOL of 2ddh

>1w07_A Acyl-COA oxidase; oxidoreductase, peroxisomal beta-oxidation, FAD cofactor; HET: FAD; 2.0A {Arabidopsis thaliana} SCOP: a.29.3.2 a.29.3.2 e.6.1.2 PDB: 2fon_A*	Back alignment and structure

>2jif_A Short/branched chain specific acyl-COA dehydrogen; mitochondrion, oxidoreductase, transit peptide, fatty acid metabolism, FAD, flavoprotein; HET: FAD COS; 2.0A {Homo sapiens}	Back alignment and structure

>1egd_A Medium chain acyl-COA dehydrogenase; flavoprotein, electron transfer; HET: FAD; 2.40A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1 PDB: 1egc_A* 1ege_A* 1t9g_A* 2a1t_A* 1udy_A* 3mdd_A* 3mde_A*	Back alignment and structure

>2dvl_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national project on protein STR and functional analyses; HET: FAD; 2.50A {Thermus thermophilus}	Back alignment and structure

>3pfd_A Acyl-COA dehydrogenase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; HET: FDA; 2.10A {Mycobacterium thermoresistibile}	Back alignment and structure

>1ukw_A Acyl-COA dehydrogenase; oxidoreductase, riken structural genomics/proteomics initiative, RSGI, structural genomics; HET: FAD; 2.40A {Thermus thermophilus} SCOP: a.29.3.1 e.6.1.1	Back alignment and structure

>2vig_A Short-chain specific acyl-COA dehydrogenase,; fatty acid metabolism, FAD, polymorphism, flavoprotein, mitochondrion, disease mutation; HET: FAD COS; 1.9A {Homo sapiens} PDB: 1jqi_A*	Back alignment and structure

>2d29_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national project protein structural and functional analyses; HET: FAD; 1.65A {Thermus thermophilus} SCOP: a.29.3.1 e.6.1.1 PDB: 1ws9_A 2cx9_A*	Back alignment and structure

>4hr3_A Putative acyl-COA dehydrogenase; ssgcid, seattle structural genomics center for infectious DI niaid; HET: FAD; 1.80A {Mycobacterium abscessus}	Back alignment and structure

>1ivh_A Isovaleryl-COA dehydrogenase; oxidoreductase, acyl-COA dehydrogenase, flavoprotein, isovaleric acidemia; HET: FAD COS; 2.60A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1	Back alignment and structure

>1r2j_A Protein FKBI; polyketide synthase, polyketide, acyl-COA dehydrogenase, , aldehyde dehydrogenase, oxidoreductase; HET: FAD; 2.10A {Streptomyces hygroscopicus} SCOP: a.29.3.1 e.6.1.1	Back alignment and structure

>3owa_A Acyl-COA dehydrogenase; structural genomics, center for structural genomics of infec diseases, csgid, alpha-structure, beta-barrel; HET: MSE FAD 1PE; 1.97A {Bacillus anthracis}	Back alignment and structure

>1buc_A Butyryl-COA dehydrogenase; acyl-COA dehydrogenase short-chain acyl-COA dehydrogenase, flavoprotein, oxidoreductase; HET: CAA FAD; 2.50A {Megasphaera elsdenii} SCOP: a.29.3.1 e.6.1.1	Back alignment and structure

>3swo_A Glutaryl-COA dehydrogenase; ssgcid, glutaryl-COA dehdrogenase, mycobacerium smegmatis, S genomics; HET: FDA; 1.45A {Mycobacterium smegmatis}	Back alignment and structure

>1rx0_A Acyl-COA dehydrogenase family member 8, mitochondrial; flavoprotein, coenzyme A, oxidoreductase; HET: FAD 2MC; 1.77A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1	Back alignment and structure

>3sf6_A Glutaryl-COA dehydrogenase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, structu genomics; HET: FDA; 1.70A {Mycobacterium smegmatis}	Back alignment and structure

>3r7k_A Probable acyl COA dehydrogenase; ssgcid, structural genomics, seattle structural genomics CEN infectious disease, oxidoreductase; HET: FDA; 2.50A {Mycobacterium abscessus}	Back alignment and structure

>3nf4_A Acyl-COA dehydrogenase; seattle structural genomics center for infectious disease, S FAD, FADH, tuberculosis, oxidoredu; HET: FAD; 2.35A {Mycobacterium thermoresistibile}	Back alignment and structure

>2pg0_A Acyl-COA dehydrogenase; GK1316, geobacillus kaustophilus HTA structural genomics, PSI, protein structure initiative; HET: FAD; 1.80A {Geobacillus kaustophilus}	Back alignment and structure

>3ii9_A Glutaryl-COA dehydrogenase; slipchip, microfluidics, screening, optimization, protein crystallization, structural genomics; HET: PGE PG4; 1.74A {Burkholderia pseudomallei 1710B} PDB: 3eon_A* 3eom_A* 3gqt_A* 3gnc_A* 3d6b_A	Back alignment and structure

>2wbi_A Acyl-COA dehydrogenase family member 11; human, phosphoprotein, oxidoreducta; HET: FAD; 2.80A {Homo sapiens}	Back alignment and structure

>3p4t_A Putative acyl-COA dehydrogenase; ssgcid, structural genomics, seattle structural genomics CEN infectious disease, oxidoreductase; HET: FAO; 1.70A {Mycobacterium smegmatis} PDB: 3oib_A*	Back alignment and structure

>2eba_A Putative glutaryl-COA dehydrogenase; thermus thermophilius, FAD, STRU genomics, NPPSFA; HET: FAD; 2.21A {Thermus thermophilus}	Back alignment and structure

>2ix5_A Acyl-coenzyme A oxidase 4, peroxisomal; FAD, ACX4, flavin, peroxisome, glyoxysome, fatty acid metabo lipid metabolism, acyl-COA oxidase; HET: CAA FAD; 2.7A {Arabidopsis thaliana} PDB: 2ix6_A*	Back alignment and structure

>3mpi_A Glutaryl-COA dehydrogenase; alpha-beta fold, oxidoreductase; HET: FAD GRA; 2.05A {Desulfococcus multivorans} PDB: 3mpj_A*	Back alignment and structure

>1siq_A GCD, glutaryl-COA dehydrogenase; acyl-COA dehydrogenase, decarboxylation, flavin protein, oxidoreductase; HET: FAD; 2.10A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1 PDB: 2r0n_A* 1sir_A* 2r0m_A*	Back alignment and structure

>2z1q_A Acyl-COA dehydrogenase; FAD, structural genomics, NPPSFA, Na project on protein structural and functional analyses; HET: FAD; 2.30A {Thermus thermophilus}	Back alignment and structure

>3mkh_A Nitroalkane oxidase; oxidoreductase flavoenzyme, acyl-COA dehydrogen flavoprotein, oxidoreductase; HET: FAD; 2.00A {Podospora anserina}	Back alignment and structure

>2uxw_A VERY-long-chain specific acyl-COA dehydrogenase; fatty acid metabolism, transit peptide, disease mutation, LI metabolism, coenzyme A dehydrogenase; HET: FAD TH3; 1.45A {Homo sapiens} PDB: 3b96_A*	Back alignment and structure

>3mxl_A Nitrososynthase; flavin monooxygenase, acyl-COA dehydrogenas oxidoreductase; 3.15A {Micromonospora carbonacea}	Back alignment and structure

>2jbr_A P-hydroxyphenylacetate hydroxylase C2 oxygenase C; flavoenzyme hydroxylase, oxidoreductase; 2.3A {Acinetobacter baumannii} PDB: 2jbs_A* 2jbt_A*	Back alignment and structure

>2or0_A Hydroxylase; APC7385, rhodococcus SP. RHA1, structu genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; HET: MSE; 2.10A {Rhodococcus SP}	Back alignment and structure

>2rfq_A 3-HSA hydroxylase, oxygenase; rhodococcus SP. RHA1, structural genomics protein structure initiative, midwest center for structural genomics, MCSG; HET: 1PS; 1.65A {Rhodococcus SP} PDB: 3aff_A 3afe_A	Back alignment and structure

>2c12_A Nitroalkane oxidase; oxidoreductase, flavoenzyme, acyl-COA dehydrogenase, long cell EDGE, FAD, inhibitor, flavoprotein; HET: SPM FAD PE4; 2.07A {Fusarium oxysporum} SCOP: a.29.3.1 e.6.1.1 PDB: 2c0u_A* 2zaf_A* 2reh_A* 3d9g_A* 3d9f_A* 3d9d_A* 3d9e_A* 3fcj_A*	Back alignment and structure

>3m9v_A FAD-dependent oxidoreductase; KIJD3, fatty acyl-COA dehydrogenase family, kijanose, kijani FAD, flavoprotein; HET: TYD; 2.05A {Actinomadura kijaniata}	Back alignment and structure

>3djl_A Protein AIDB; alpha helix, beta-barrel, FAD, flavoprotein, oxidoreductase; HET: FAD; 1.70A {Escherichia coli} PDB: 3u33_A*	Back alignment and structure

>2yyk_A 4-hydroxyphenylacetate-3-hydroxylase; structurome, riken spring-8 center, oxygnase component, 4- hydroxyphenylacetate 3-monooxygenase; 1.60A {Thermus thermophilus} PDB: 2yyl_A* 2yym_A* 2yyi_A* 2yyg_A* 2yyj_A*	Back alignment and structure

>1u8v_A Gamma-aminobutyrate metabolism dehydratase/isomerase; ALFA-helixes, beta-strands, lyase; HET: FAD; 1.60A {Clostridium aminobutyricum} SCOP: a.29.3.1 e.6.1.1	Back alignment and structure

>3hwc_A Chlorophenol-4-monooxygenase component 2; beta barrel, helix bundle, oxidoreductase; 2.50A {Burkholderia cepacia}	Back alignment and structure

>4g5e_A 2,4,6-trichlorophenol 4-monooxygenase; oxidoreductase; 2.50A {Cupriavidus necator JMP134}	Back alignment and structure

>3owa_A Acyl-COA dehydrogenase; structural genomics, center for structural genomics of infec diseases, csgid, alpha-structure, beta-barrel; HET: MSE FAD 1PE; 1.97A {Bacillus anthracis}	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		268
d2ddha1		183	a.29.3.2 (A:278-460) Peroxisomal acyl-CoA oxidase-	1e-41
d1w07a1		189	a.29.3.2 (A:273-461) Acyl-coenzyme A oxidase 1, do	2e-40
d2ddha3		267	e.6.1.2 (A:1-267) Peroxisomal acyl-CoA oxidase-II,	3e-18
d1w07a3		271	e.6.1.2 (A:2-272) Acyl-coenzyme A oxidase 1, domai	1e-15
d1siqa2		236	e.6.1.1 (A:3-238) Glutaryl-CoA dehydrogenase GCDH	7e-08
d1jqia2		231	e.6.1.1 (A:4-234) Butyryl-CoA dehydrogenase, NM do	4e-07
d1buca2		232	e.6.1.1 (A:1-232) Butyryl-CoA dehydrogenase, NM do	5e-07
d3mdea2		231	e.6.1.1 (A:11-241) Medium chain acyl-CoA dehydroge	9e-07
d2d29a2		233	e.6.1.1 (A:2-234) Acyl-CoA dehydrogenase {Thermus	1e-06
d1rx0a2		231	e.6.1.1 (A:10-240) Isobutyryl-CoA dehydrogenase {H	2e-06
d1r2ja2		210	e.6.1.1 (A:3-212) Protein FkbI {Streptomyces hygro	2e-06
d1ukwa2		227	e.6.1.1 (A:32-258) Medium chain acyl-CoA dehydroge	4e-06
d1ivha2		236	e.6.1.1 (A:6-241) Isovaleryl-coa dehydrogenase, NM	4e-06
d2c12a2		259	e.6.1.1 (A:2-260) Nitroalkane oxidase {Fusarium ox	9e-06

>d2ddha1 a.29.3.2 (A:278-460) Peroxisomal acyl-CoA oxidase-II, domains 3 and 4 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 183	Back information, alignment and structure


class: All alpha proteins
fold: Bromodomain-like
superfamily: Acyl-CoA dehydrogenase C-terminal domain-like
family: acyl-CoA oxidase C-terminal domains
domain: Peroxisomal acyl-CoA oxidase-II, domains 3 and 4
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  139 bits (350), Expect = 1e-41
 Identities = 99/182 (54%), Positives = 129/182 (70%), Gaps = 1/182 (0%)

Query: 63  MIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAIA 122
           M+FVR  LV N AA  LSKA TIA RYSAVRRQSE+K  E EPQILD++TQQYKLFP +A
Sbjct: 1   MVFVRSFLVGN-AAQSLSKACTIAIRYSAVRRQSEIKQSEPEPQILDFQTQQYKLFPLLA 59

Query: 123 TSYALRFSADWLWDIYNSVNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSC 182
           T+YA  F   ++ + Y  +N  + +G++  LPELHA++  LKA +T  +   IE CR +C
Sbjct: 60  TAYAFHFVGRYMKETYLRINESIGQGDLSELPELHALTAGLKAFTTWTANAGIEECRMAC 119

Query: 183 GGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARFLIKAWNQLKSGGLLSSTVTYLG 242
           GGHGY +SS  PN Y   T A T+EGENTV+ LQTARFL+K ++Q++SG L+   V+YL 
Sbjct: 120 GGHGYSHSSGIPNIYVTFTPACTFEGENTVMMLQTARFLMKIYDQVRSGKLVGGMVSYLN 179

Query: 243 KI 244
            +
Sbjct: 180 DL 181

PyMOL of d2ddha1

>d1w07a1 a.29.3.2 (A:273-461) Acyl-coenzyme A oxidase 1, domains 3 and 4 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 189	Back information, alignment and structure

>d2ddha3 e.6.1.2 (A:1-267) Peroxisomal acyl-CoA oxidase-II, domains 1 and 2 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 267	Back information, alignment and structure

>d1w07a3 e.6.1.2 (A:2-272) Acyl-coenzyme A oxidase 1, domains 1 and 2 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 271	Back information, alignment and structure

>d1siqa2 e.6.1.1 (A:3-238) Glutaryl-CoA dehydrogenase GCDH {Human (Homo sapiens) [TaxId: 9606]} Length = 236	Back information, alignment and structure

>d1jqia2 e.6.1.1 (A:4-234) Butyryl-CoA dehydrogenase, NM domains {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 231	Back information, alignment and structure

>d1buca2 e.6.1.1 (A:1-232) Butyryl-CoA dehydrogenase, NM domains {Megasphaera elsdenii [TaxId: 907]} Length = 232	Back information, alignment and structure

>d3mdea2 e.6.1.1 (A:11-241) Medium chain acyl-CoA dehydrogenase, NM domains {Pig (Sus scrofa) [TaxId: 9823]} Length = 231	Back information, alignment and structure

>d2d29a2 e.6.1.1 (A:2-234) Acyl-CoA dehydrogenase {Thermus thermophilus [TaxId: 274]} Length = 233	Back information, alignment and structure

>d1rx0a2 e.6.1.1 (A:10-240) Isobutyryl-CoA dehydrogenase {Human (Homo sapiens) [TaxId: 9606]} Length = 231	Back information, alignment and structure

>d1r2ja2 e.6.1.1 (A:3-212) Protein FkbI {Streptomyces hygroscopicus [TaxId: 1912]} Length = 210	Back information, alignment and structure

>d1ukwa2 e.6.1.1 (A:32-258) Medium chain acyl-CoA dehydrogenase, NM domains {Thermus thermophilus [TaxId: 274]} Length = 227	Back information, alignment and structure

>d1ivha2 e.6.1.1 (A:6-241) Isovaleryl-coa dehydrogenase, NM domains {Human (Homo sapiens) [TaxId: 9606]} Length = 236	Back information, alignment and structure

>d2c12a2 e.6.1.1 (A:2-260) Nitroalkane oxidase {Fusarium oxysporum [TaxId: 5507]} Length = 259	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
Query		268
d1w07a1		189	Acyl-coenzyme A oxidase 1, domains 3 and 4 {Thale	100.0
d2ddha1		183	Peroxisomal acyl-CoA oxidase-II, domains 3 and 4 {	100.0
d1jqia1		153	Butyryl-CoA dehydrogenase, C-domain {Rat (Rattus n	99.96
d1siqa1		154	Glutaryl-CoA dehydrogenase GCDH {Human (Homo sapie	99.95
d3mdea1		154	Medium chain acyl-CoA dehydrogenase, C-domain {Pig	99.95
d1ivha1		151	Isovaleryl-CoA dehydrogenase, C-domain {Human (Hom	99.95
d1r2ja1		153	Protein FkbI {Streptomyces hygroscopicus [TaxId: 1	99.95
d2d29a1		153	Acyl-CoA dehydrogenase {Thermus thermophilus [TaxI	99.95
d1rx0a1		153	Isobutyryl-CoA dehydrogenase {Human (Homo sapiens)	99.95
d1ukwa1		152	Medium chain acyl-CoA dehydrogenase, C-domain {The	99.95
d1buca1		151	Butyryl-CoA dehydrogenase, C-domain {Megasphaera e	99.94
d2c12a1		170	Nitroalkane oxidase {Fusarium oxysporum [TaxId: 55	99.94
d1u8va1		215	4-hydroxybutyryl-CoA dehydratase AbfD, C-terminal	88.75

>d1w07a1 a.29.3.2 (A:273-461) Acyl-coenzyme A oxidase 1, domains 3 and 4 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}	Back information, alignment and structure

class: All alpha proteins
fold: Bromodomain-like
superfamily: Acyl-CoA dehydrogenase C-terminal domain-like
family: acyl-CoA oxidase C-terminal domains
domain: Acyl-coenzyme A oxidase 1, domains 3 and 4
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=100.00  E-value=1.7e-33  Score=228.38  Aligned_cols=182  Identities=47%  Similarity=0.782  Sum_probs=162.4

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCCCCCCCCccccchHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q psy2287          61 GTMIFVRVSLVKNVAAAFLSKAVTIATRYSAVRRQSEMKPGEREPQILDYKTQQYKLFPAIATSYALRFSADWLWDIYNS  140 (268)
Q Consensus        61 ~~~~~~R~~laa~~~~~g~~~al~~a~~~~~~R~~~g~~~~~~~~~l~~~~~vq~~la~~~a~~~a~ra~~~~~~~~~~~  140 (268)
                      ++|...|+.+++.+ .+++++|++++++|++.|++||+..++.++||++||.+|++|+++.+.+++++++++++.+.+++
T Consensus         7 ~~m~~~R~~ia~~a-~g~~~~al~iA~~Ya~~R~qfG~~~~~~~~pI~~~q~vq~~La~~~a~~~a~~~~~~~~~~~~~~   85 (189)
T d1w07a1           7 GTMVYVRQTIVADA-SNALSRAVCIATRYSAVRRQFGAHNGGIETQVIDYKTQQNRLFPLLASAYAFRFVGEWLKWLYTD   85 (189)
T ss_dssp             TTTTHHHHHHHHHH-HHHHHHHHHHHHHHHHHCBCSCC---CCCCBGGGSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhHhccccCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444599999995 66666799999999999999986444445799999999999999999999999999999998888


Q ss_pred             HHHhhhcCCCCChhhHHHHHhHHHHHHHHHHHHHHHHHHHHcCcccccccCChhhhhhhccccccccchhHHHHHHHHHH
Q psy2287         141 VNADLEKGNMGGLPELHAMSCCLKAVSTSDSATFIEVCRRSCGGHGYMNSSNFPNTYGMVTAAETYEGENTVLYLQTARF  220 (268)
Q Consensus       141 ~~~~~~~g~~~~~~~~~~~~~~aK~~a~~~a~~~~~~~~~~~Gg~g~~~~~~l~r~~rDa~~~~i~~Gt~~v~~~~ia~~  220 (268)
                      .....+.++.+..++....++++|.++++.+.+++++|+|+|||.||+++++++|+|||++++.|+||||+|+..+|+|.
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~a~~K~~at~~a~~~~~~a~qi~GG~Gy~~~~~i~r~~rD~~~~~i~EGtn~Vl~~~iar~  165 (189)
T d1w07a1          86 VTERLAASDFATLPEAHACTAGLKSLTTTATADGIEECRKLCGGHGYLWCSGLPELFAVYVPACTYEGDNVVLQLQVARF  165 (189)
T ss_dssp             HHHHTTTTCCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGGGBGGGSHHHHHHHHGGGGTTTSCHHHHHHHHHHH
T ss_pred             HHHhhhhhhhhhhhhhhHhHHHHHHHHHHHHHHHHHHHHHHhcCeeeCCCChHHHHHhcCcccceecCHHHHHHHHHHHH
Confidence            87777777766666677889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCccccchhccc
Q psy2287         221 LIKAWNQLKSGGLLSSTVTYLGK  243 (268)
Q Consensus       221 ll~~~~~~~~~~~~~~~~~~~~~  243 (268)
                      +++.+.+..+++.+.+++.||++
T Consensus       166 llk~~~~~~~g~~~~~~~~~l~~  188 (189)
T d1w07a1         166 LMKTVAQLGSGKVPVGTTAYMGR  188 (189)
T ss_dssp             HHHHHTTTTTSCCCCGGGGGGGG
T ss_pred             HHHHHHHhhCCCCCcHHHHHhhc
Confidence            99999999999988899999974

PyMOL of d1w07a1

>d2ddha1 a.29.3.2 (A:278-460) Peroxisomal acyl-CoA oxidase-II, domains 3 and 4 {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1jqia1 a.29.3.1 (A:235-387) Butyryl-CoA dehydrogenase, C-domain {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure

>d1siqa1 a.29.3.1 (A:239-392) Glutaryl-CoA dehydrogenase GCDH {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d3mdea1 a.29.3.1 (A:242-395) Medium chain acyl-CoA dehydrogenase, C-domain {Pig (Sus scrofa) [TaxId: 9823]}	Back information, alignment and structure

>d1ivha1 a.29.3.1 (A:242-392) Isovaleryl-CoA dehydrogenase, C-domain {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1r2ja1 a.29.3.1 (A:213-365) Protein FkbI {Streptomyces hygroscopicus [TaxId: 1912]}	Back information, alignment and structure

>d2d29a1 a.29.3.1 (A:235-387) Acyl-CoA dehydrogenase {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1rx0a1 a.29.3.1 (A:241-393) Isobutyryl-CoA dehydrogenase {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1ukwa1 a.29.3.1 (A:259-410) Medium chain acyl-CoA dehydrogenase, C-domain {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d1buca1 a.29.3.1 (A:233-383) Butyryl-CoA dehydrogenase, C-domain {Megasphaera elsdenii [TaxId: 907]}	Back information, alignment and structure

>d2c12a1 a.29.3.1 (A:261-430) Nitroalkane oxidase {Fusarium oxysporum [TaxId: 5507]}	Back information, alignment and structure

>d1u8va1 a.29.3.1 (A:276-490) 4-hydroxybutyryl-CoA dehydratase AbfD, C-terminal domain {Clostridium aminobutyricum [TaxId: 33953]}	Back information, alignment and structure