Citrus Sinensis ID: 042339

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90----
Protein Sequence
MCGDAALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNHGIRSEVFDVGLQTNILPLEGHDIGQFLGLESMEKEEAQAYQPAI
Secondary Structure (PSIPRED)
cccccccccccccccEEEcccccccccccccccccHHHHHHHHHHHHHHcccccccHHcccccccccccccccccccccccccHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccEEEcccccccEccHHHcccHHHHHHHHHHHHHHcccccccHHccccccccccccccccccccccccccHHHHHHccccc
Coil and Loop (DISEMBL)
mcgdaalptntpsipcvldprgsagicgdrllassseSAALSGWLLlsnhgirsevfdvglqtnilpleghdigqflgleSMEKEEAQAYQPAI
Flexible Loop (DISEMBL)
mcgdaalptntpsipcvLDPRGSAGICGDRLLASSSESAALSGWLLLSNHGIRSEVFDVGLQTNILPLEGHDIGQFLGLESMEKEEAQAYQPAI
Low Complexity Region (SEG)
MCGDAALPTNTPSIPCVLDPRGSAGICGDRllasssesaalsgwlllsNHGIRSEVFDVGLQTNILPLEGHDIGQFLGLESMEKEEAQAYQPAI
Disordered region (IsUnstruct)
**************PCVLDPRGSAGICGDRLLAS**ESAALSGWLLLSNHGIRSEVFDVGLQTNILPLEGHDIGQFLGL***************
Disordered Region (DISOPRED)
*******PTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSN**IRS*VFDVGLQTNILPLEGHDIG********************
Disordered Region (DISEMBL)
********TNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNHGIRSEVFDVGLQTNILPLEGHDIGQFLGLESMEK**********
Disordered Region (DISPRO)
*CGDAALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNHGIRSEVFDVGLQTNILPLEGHDIGQFLGLE**************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MCGDAALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNHGIRSEVFDVGLQTNILPLEGHDIGQFLGLESMEKEEAQAYQPAI
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	94
225463946	467	PREDICTED: uncharacterized protein LOC10	0.914	0.184	0.593	1e-20
296087896	518	unnamed protein product [Vitis vinifera]	0.914	0.166	0.593	1e-20
297828968	485	oxidoreductase [Arabidopsis lyrata subsp	0.925	0.179	0.578	2e-19
18396966	486	FAD/NAD(P)-binding oxidoreductase domain	0.925	0.179	0.568	8e-19
224130614	496	predicted protein [Populus trichocarpa]	0.914	0.173	0.583	2e-18
108862915	456	expressed protein [Oryza sativa Japonica	0.893	0.184	0.526	9e-17
115489414	497	Os12g0597400 [Oryza sativa Japonica Grou	0.893	0.169	0.526	1e-16
125537277	497	hypothetical protein OsI_38983 [Oryza sa	0.893	0.169	0.526	1e-16
148908141	175	unknown [Picea sitchensis]	0.957	0.514	0.494	1e-16
222617407	481	hypothetical protein OsJ_36748 [Oryza sa	0.893	0.174	0.526	1e-16

>gi|225463946|ref|XP_002268010.1| PREDICTED: uncharacterized protein LOC100241002 [Vitis vinifera]

 Score =  103 bits (258), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 57/96 (59%), Positives = 66/96 (68%), Gaps = 10/96 (10%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNH--------GIRSEV 56
           AALPTNTP IPC+ DP G AGICGD L+ SS E+A+LSG + L+NH        G R + 
Sbjct: 370 AALPTNTPGIPCIFDPHGRAGICGDWLMGSSLEAASLSG-MALANHIADYFQSGGARPDE 428

Query: 57  FDVGLQTNILPLEGHDIGQFLGLESMEK-EEAQAYQ 91
           F VGL     PLEGHDIGQF GL S E+ +EAQAYQ
Sbjct: 429 FAVGLHNEFHPLEGHDIGQFPGLGSKEQTDEAQAYQ 464

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296087896|emb|CBI35179.3| unnamed protein product [Vitis vinifera]

 Score =  103 bits (258), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 57/96 (59%), Positives = 66/96 (68%), Gaps = 10/96 (10%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNH--------GIRSEV 56
           AALPTNTP IPC+ DP G AGICGD L+ SS E+A+LSG + L+NH        G R + 
Sbjct: 370 AALPTNTPGIPCIFDPHGRAGICGDWLMGSSLEAASLSG-MALANHIADYFQSGGARPDE 428

Query: 57  FDVGLQTNILPLEGHDIGQFLGLESMEK-EEAQAYQ 91
           F VGL     PLEGHDIGQF GL S E+ +EAQAYQ
Sbjct: 429 FAVGLHNEFHPLEGHDIGQFPGLGSKEQTDEAQAYQ 464

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297828968|ref|XP_002882366.1| oxidoreductase [Arabidopsis lyrata subsp. lyrata] gi|297328206|gb|EFH58625.1| oxidoreductase [Arabidopsis lyrata subsp. lyrata]

 Score = 99.4 bits (246), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/95 (57%), Positives = 64/95 (67%), Gaps = 8/95 (8%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLL-------LSNHGIRSEVF 57
           AALP NTP++PC+ DP+G AGICGD LL S+ ESAALSG  L       L N     E F
Sbjct: 389 AALPKNTPAVPCIFDPQGRAGICGDWLLGSNLESAALSGAALGNHIAEFLQNGEANPEEF 448

Query: 58  DVGLQTNILPLEGHDIGQFLGLESM-EKEEAQAYQ 91
            +GL   + PL+GHDIGQF GL S+ EKEEA AYQ
Sbjct: 449 AIGLHDRLSPLDGHDIGQFPGLTSVGEKEEANAYQ 483

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18396966|ref|NP_566235.1| FAD/NAD(P)-binding oxidoreductase domain-containing protein [Arabidopsis thaliana] gi|6175169|gb|AAF04895.1|AC011437_10 unknown protein [Arabidopsis thaliana] gi|15215628|gb|AAK91359.1| AT3g04650/F7O18_13 [Arabidopsis thaliana] gi|28416461|gb|AAO42761.1| At3g04650/F7O18_13 [Arabidopsis thaliana] gi|332640593|gb|AEE74114.1| FAD/NAD(P)-binding oxidoreductase domain-containing protein [Arabidopsis thaliana]

 Score = 97.4 bits (241), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 54/95 (56%), Positives = 63/95 (66%), Gaps = 8/95 (8%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLL-------LSNHGIRSEVF 57
           AALP NTP++PC+ DP+G AGICGD LL S+ ESAA+SG  L       L N     E F
Sbjct: 390 AALPKNTPAVPCIFDPQGRAGICGDWLLGSNLESAAISGAALGNHIAEFLQNGEANPEEF 449

Query: 58  DVGLQTNILPLEGHDIGQFLGLESM-EKEEAQAYQ 91
            +GL   + PL GHDIGQF GL S+ EKEEA AYQ
Sbjct: 450 AIGLHDRLSPLAGHDIGQFPGLTSVGEKEEANAYQ 484

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130614|ref|XP_002328333.1| predicted protein [Populus trichocarpa] gi|222838048|gb|EEE76413.1| predicted protein [Populus trichocarpa]

 Score = 96.3 bits (238), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 56/96 (58%), Positives = 61/96 (63%), Gaps = 10/96 (10%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNH--------GIRSEV 56
           AALPTNTP IPC+ DP G AGICGD LL S+ ESAALSG + L+NH        G R E 
Sbjct: 399 AALPTNTPGIPCIFDPHGRAGICGDWLLGSNLESAALSG-MALANHIADYLRSGGARPEE 457

Query: 57  FDVGLQTNILPLEGHDIGQFLGLESME-KEEAQAYQ 91
           F +GL      LEGHDIGQF GLES       QAYQ
Sbjct: 458 FALGLNKEFQTLEGHDIGQFSGLESSTGASPIQAYQ 493

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|108862915|gb|ABG22072.1| expressed protein [Oryza sativa Japonica Group]

 Score = 90.9 bits (224), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 49/93 (52%), Positives = 61/93 (65%), Gaps = 9/93 (9%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNH--------GIRSEV 56
           AALP NTP +PC+ DP+G AGICGD L  SS E+A LSG + L+NH        G + E 
Sbjct: 359 AALPMNTPGVPCIFDPQGRAGICGDWLTGSSIEAAVLSG-MSLANHIADYFASSGEQPEE 417

Query: 57  FDVGLQTNILPLEGHDIGQFLGLESMEKEEAQA 89
           F +GL  N+  +EGHDIGQF GLES +   A+A
Sbjct: 418 FAIGLHENLSQVEGHDIGQFPGLESQKPHVAEA 450

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115489414|ref|NP_001067194.1| Os12g0597400 [Oryza sativa Japonica Group] gi|77556443|gb|ABA99239.1| expressed protein [Oryza sativa Japonica Group] gi|113649701|dbj|BAF30213.1| Os12g0597400 [Oryza sativa Japonica Group] gi|215701342|dbj|BAG92766.1| unnamed protein product [Oryza sativa Japonica Group]

 Score = 90.5 bits (223), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 49/93 (52%), Positives = 61/93 (65%), Gaps = 9/93 (9%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNH--------GIRSEV 56
           AALP NTP +PC+ DP+G AGICGD L  SS E+A LSG + L+NH        G + E 
Sbjct: 400 AALPMNTPGVPCIFDPQGRAGICGDWLTGSSIEAAVLSG-MSLANHIADYFASSGEQPEE 458

Query: 57  FDVGLQTNILPLEGHDIGQFLGLESMEKEEAQA 89
           F +GL  N+  +EGHDIGQF GLES +   A+A
Sbjct: 459 FAIGLHENLSQVEGHDIGQFPGLESQKPHVAEA 491

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125537277|gb|EAY83765.1| hypothetical protein OsI_38983 [Oryza sativa Indica Group]

 Score = 90.5 bits (223), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 49/93 (52%), Positives = 61/93 (65%), Gaps = 9/93 (9%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNH--------GIRSEV 56
           AALP NTP +PC+ DP+G AGICGD L  SS E+A LSG + L+NH        G + E 
Sbjct: 400 AALPMNTPGVPCIFDPQGRAGICGDWLTGSSIEAAVLSG-MSLANHIADYFASSGEQPEE 458

Query: 57  FDVGLQTNILPLEGHDIGQFLGLESMEKEEAQA 89
           F +GL  N+  +EGHDIGQF GLES +   A+A
Sbjct: 459 FAIGLHENLSQVEGHDIGQFPGLESQKPHVAEA 491

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148908141|gb|ABR17186.1| unknown [Picea sitchensis]

 Score = 90.5 bits (223), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/97 (49%), Positives = 62/97 (63%), Gaps = 7/97 (7%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLL-------SNHGIRSEVF 57
           AALPTNTP IPC+ DP G AGICGD LL SS E+AALSG  L        ++ G   + F
Sbjct: 78  AALPTNTPDIPCIFDPYGRAGICGDWLLGSSLEAAALSGMALAHQIADYCASGGSNPDEF 137

Query: 58  DVGLQTNILPLEGHDIGQFLGLESMEKEEAQAYQPAI 94
            +GL     P+ GHDIGQF G E ++K+++ + +PA 
Sbjct: 138 GMGLHKEFTPIGGHDIGQFPGSELLKKQDSVSSEPAF 174

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222617407|gb|EEE53539.1| hypothetical protein OsJ_36748 [Oryza sativa Japonica Group]

 Score = 90.1 bits (222), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 49/93 (52%), Positives = 61/93 (65%), Gaps = 9/93 (9%)

Query: 5   AALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSNH--------GIRSEV 56
           AALP NTP +PC+ DP+G AGICGD L  SS E+A LSG + L+NH        G + E 
Sbjct: 384 AALPMNTPGVPCIFDPQGRAGICGDWLTGSSIEAAVLSG-MSLANHIADYFASSGEQPEE 442

Query: 57  FDVGLQTNILPLEGHDIGQFLGLESMEKEEAQA 89
           F +GL  N+  +EGHDIGQF GLES +   A+A
Sbjct: 443 FAIGLHENLSQVEGHDIGQFPGLESQKPHVAEA 475

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	94
TAIR|locus:2084903	486	AT3G04650 [Arabidopsis thalian	0.925	0.179	0.452	1.8e-14

TAIR|locus:2084903 AT3G04650 [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 1.8e-14, P = 1.8e-14
 Identities = 43/95 (45%), Positives = 50/95 (52%)

Query:     5 AALPTNTPSIPCVLDPRGSAGICGD-------RXXXXXXXXXXXXXXXXXXNHGIRSEVF 57
             AALP NTP++PC+ DP+G AGICGD                          N     E F
Sbjct:   390 AALPKNTPAVPCIFDPQGRAGICGDWLLGSNLESAAISGAALGNHIAEFLQNGEANPEEF 449

Query:    58 DVGLQTNILPLEGHDIGQFLGLESM-EKEEAQAYQ 91
              +GL   + PL GHDIGQF GL S+ EKEEA AYQ
Sbjct:   450 AIGLHDRLSPLAGHDIGQFPGLTSVGEKEEANAYQ 484


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.317   0.139   0.425    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0       94        76   0.00091  102 3  11 22  0.42    29
                                                     29  0.48    29


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  492 (52 KB)
  Total size of DFA:  91 KB (2067 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  7.22u 0.12s 7.34t   Elapsed:  00:00:00
  Total cpu time:  7.22u 0.12s 7.34t   Elapsed:  00:00:00
  Start:  Fri May 10 03:45:55 2013   End:  Fri May 10 03:45:55 2013

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

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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

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	94
COG3380	331	Predicted NAD/FAD-dependent oxidoreductase [Genera	99.15
TIGR03467	419	HpnE squalene-associated FAD-dependent desaturase.	97.07
TIGR00562	462	proto_IX_ox protoporphyrinogen oxidase. This prote	96.54
PLN02576	496	protoporphyrinogen oxidase	96.39
PF01593	450	Amino_oxidase: Flavin containing amine oxidoreduct	95.37
PRK11883	451	protoporphyrinogen oxidase; Reviewed	94.7
PRK12416	463	protoporphyrinogen oxidase; Provisional	93.34
TIGR02732	474	zeta_caro_desat carotene 7,8-desaturase. Carotene	92.52
PLN02612	567	phytoene desaturase	90.2
PRK07233	434	hypothetical protein; Provisional	88.97
PLN02268	435	probable polyamine oxidase	88.09
TIGR02731	453	phytoene_desat phytoene desaturase. Plants and cya	85.65
PLN02328	808	lysine-specific histone demethylase 1 homolog	82.64
PLN02487	569	zeta-carotene desaturase	80.07

>COG3380 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]

Probab=99.15  E-value=2.4e-11  Score=98.68  Aligned_cols=44  Identities=27%  Similarity=0.322  Sum_probs=40.7

Q ss_pred             CCCCCCCCCCcee-CCCCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339            6 ALPTNTPSIPCVL-DPRGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus         6 A~p~~~~g~~~l~-d~~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      |.|.+..+.++++ |.+..|++|||||.|+|||+||+||.++|+.
T Consensus       282 A~P~~~~~~~~L~ad~~~~l~~cGDwc~GgrVEgA~LSGlAaA~~  326 (331)
T COG3380         282 AIPNDAVAGPPLDADRELPLYACGDWCAGGRVEGAVLSGLAAADH  326 (331)
T ss_pred             ccccccccCCccccCCCCceeeecccccCcchhHHHhccHHHHHH
Confidence            5678888899999 9999999999999999999999999999864

>TIGR03467 HpnE squalene-associated FAD-dependent desaturase

Probab=97.07  E-value=0.00061  Score=51.58  Aligned_cols=36  Identities=22%  Similarity=0.231  Sum_probs=30.8

Q ss_pred             CCceeCCCCCeeeeccCCCCC---chHHHHHHHHHHHhc
Q 042339           14 IPCVLDPRGSAGICGDRLLAS---SSESAALSGWLLLSN   49 (94)
Q Consensus        14 ~~~l~d~~~~lGlCGDWl~Gg---RVE~AwlSG~aLA~~   49 (94)
                      .+++.++..+|.+||||+.++   ++|+|+.||..+|+.
T Consensus       378 ~~~~~~~~~~l~~aGd~~~~~~~~~~egA~~SG~~aA~~  416 (419)
T TIGR03467       378 RPGARTPWPNLFLAGDWTATGWPATMEGAVRSGYQAAEA  416 (419)
T ss_pred             CCCCCCCcCCEEEecccccCCCcchHHHHHHHHHHHHHH
Confidence            455667888999999999874   999999999999863

The sequences in this family are members of the pfam01593 superfamily of flavin-containing amine oxidases which include the phytoene desaturases. These sequences also include a FAD-dependent oxidoreductase domain, pfam01266. The genes of the family modeled here are generally in the same locus with genes involved in the biosynthesis and elaboration of squalene, the condensation product of the polyisoprenoid farnesyl pyrophosphate. This gene and its association with hopene biosynthesis in Zymomonas mobilis has been noted in the literature where the gene symbol hpnE was assigned. This gene is also found in contexts where the downstream conversion of squalene to hopenes is not evidence. The precise nature of the reaction catalyzed by this enzyme is unknown at this time.

>TIGR00562 proto_IX_ox protoporphyrinogen oxidase

Probab=96.54  E-value=0.0023  Score=50.19  Aligned_cols=31  Identities=10%  Similarity=0.010  Sum_probs=27.4

Q ss_pred             CCCCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           19 DPRGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        19 d~~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      ....+|.+||||+.+.+||+|+.||.++|+.
T Consensus       425 ~~~~~l~l~G~~~~g~~i~~~i~sg~~~a~~  455 (462)
T TIGR00562       425 SAYPGVFLTGNSFEGVGIPDCIDQGKAAASD  455 (462)
T ss_pred             hhCCCEEEeccccCCCcHHHHHHHHHHHHHH
Confidence            3345999999999999999999999999865

This protein is a flavoprotein and has a beta-alpha-beta dinucleotide binding motif near the amino end.

>PLN02576 protoporphyrinogen oxidase

Probab=96.39  E-value=0.0032  Score=50.20  Aligned_cols=28  Identities=11%  Similarity=-0.064  Sum_probs=26.5

Q ss_pred             CCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           22 GSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        22 ~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      .+|.+||||+.|.+||+|+.||..+|+.
T Consensus       455 ~~l~~aG~~~~g~~i~~ai~sg~~aA~~  482 (496)
T PLN02576        455 PGLFLGGNYRGGVALGKCVESGYEAADL  482 (496)
T ss_pred             CCEEEeccccCCccHHHHHHHHHHHHHH
Confidence            5999999999999999999999999876

>PF01593 Amino_oxidase: Flavin containing amine oxidoreductase This is a subset of the Pfam family; InterPro: IPR002937 This entry consists of various amine oxidases, including maize polyamine oxidase (PAO) [], L-amino acid oxidases (LAO) and various flavin containing monoamine oxidases (MAO)

Probab=95.37  E-value=0.018  Score=42.01  Aligned_cols=30  Identities=27%  Similarity=0.205  Sum_probs=24.5

Q ss_pred             CCC-CCeeeeccCCCCC---chHHHHHHHHHHHh
Q 042339           19 DPR-GSAGICGDRLLAS---SSESAALSGWLLLS   48 (94)
Q Consensus        19 d~~-~~lGlCGDWl~Gg---RVE~AwlSG~aLA~   48 (94)
                      .+- .+|.+||||...+   -+|+|++||...|+
T Consensus       414 ~~~~~~l~~aG~~~~~~~~~~~~gA~~sG~~aA~  447 (450)
T PF01593_consen  414 TPIDPGLYFAGDWTSPGYPGGIEGAILSGRRAAE  447 (450)
T ss_dssp             SCBTTTEEE-SGGGSSSSTTSHHHHHHHHHHHHH
T ss_pred             CCcceEEEEeecccCCCCCCcHHHHHHHHHHHHH
Confidence            444 5999999999855   99999999998875

The aligned region includes the flavin binding site of these enzymes. In vertebrates MAO plays an important role in regulating the intracellular levels of amines via their oxidation; these include various neurotransmitters, neurotoxins and trace amines []. In lower eukaryotes such as aspergillus and in bacteria the main role of amine oxidases is to provide a source of ammonium []. PAOs in plants, bacteria and protozoa oxidise spermidine and spermine to an aminobutyral, diaminopropane and hydrogen peroxide and are involved in the catabolism of polyamines []. Other members of this family include tryptophan 2-monooxygenase, putrescine oxidase, corticosteroid binding proteins and antibacterial glycoproteins.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 2Z3Y_A 2UXN_A 2Y48_A 2HKO_A 2XAF_A 2X0L_A 2XAJ_A 2UXX_A 2V1D_A 2Z5U_A ....

>PRK11883 protoporphyrinogen oxidase; Reviewed

Probab=94.70  E-value=0.034  Score=43.04  Aligned_cols=28  Identities=4%  Similarity=-0.083  Sum_probs=25.7

Q ss_pred             CCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           22 GSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        22 ~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      .+|.++|||+.+..||+|+.||...|+.
T Consensus       420 ~~l~~aG~~~~g~~i~~av~sg~~~a~~  447 (451)
T PRK11883        420 PGLYVAGASFEGVGLPDCIAQAKRAAAR  447 (451)
T ss_pred             CCEEEECcccCCccHHHHHHHHHHHHHH
Confidence            3899999999999999999999999864

>PRK12416 protoporphyrinogen oxidase; Provisional

Probab=93.34  E-value=0.072  Score=42.32  Aligned_cols=33  Identities=6%  Similarity=0.007  Sum_probs=28.4

Q ss_pred             eeCCCCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           17 VLDPRGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        17 l~d~~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      +.++..+|.+||||+.+..||+|..||...|+.
T Consensus       424 l~~~~~~l~~aG~~~~g~~i~~ai~sg~~aA~~  456 (463)
T PRK12416        424 MMNLYPNIYLAGASYYGVGIGACIGNGKNTANE  456 (463)
T ss_pred             HHhhCCCeEEeccccccccHHHHHHHHHHHHHH
Confidence            334556999999999999999999999999864

>TIGR02732 zeta_caro_desat carotene 7,8-desaturase

Probab=92.52  E-value=0.17  Score=41.40  Aligned_cols=31  Identities=26%  Similarity=0.206  Sum_probs=26.5

Q ss_pred             eCCCCCeeeeccCCCC---CchHHHHHHHHHHHh
Q 042339           18 LDPRGSAGICGDRLLA---SSSESAALSGWLLLS   48 (94)
Q Consensus        18 ~d~~~~lGlCGDWl~G---gRVE~AwlSG~aLA~   48 (94)
                      ..+..+|++||||...   ..+|+|..||...|+
T Consensus       438 ~t~~~~l~lAGD~t~~~~pas~egAv~sG~~aA~  471 (474)
T TIGR02732       438 KTPISNFFLAGSYTQQDYIDSMEGATLSGRQAAA  471 (474)
T ss_pred             CCCCCCeEEeccccccCchHHHhHHHHHHHHHHH
Confidence            3344699999999987   899999999999885

Carotene 7,8-desaturase, also called zeta-carotene desaturase, catalyzes multiple steps in the pathway from geranylgeranyl-PP to all-trans-lycopene in plants and cyanobacteria. A similar enzyme and pathway is found in the green sulfur bacterium Chlorobium tepidum.

>PLN02612 phytoene desaturase

Probab=90.20  E-value=0.4  Score=40.45  Aligned_cols=31  Identities=32%  Similarity=0.306  Sum_probs=26.3

Q ss_pred             CCCCCeeeeccCCCC---CchHHHHHHHHHHHhc
Q 042339           19 DPRGSAGICGDRLLA---SSSESAALSGWLLLSN   49 (94)
Q Consensus        19 d~~~~lGlCGDWl~G---gRVE~AwlSG~aLA~~   49 (94)
                      .|-.+|++||||...   +.+|+|.+||...|+.
T Consensus       510 tPi~~l~lAGd~t~~~~~~smeGAv~SG~~AA~~  543 (567)
T PLN02612        510 SPIEGFYLAGDYTKQKYLASMEGAVLSGKLCAQS  543 (567)
T ss_pred             CccCCEEEeecceeCCchhhHHHHHHHHHHHHHH
Confidence            344689999999854   6899999999999876

>PRK07233 hypothetical protein; Provisional

Probab=88.97  E-value=0.74  Score=35.31  Aligned_cols=33  Identities=12%  Similarity=0.081  Sum_probs=26.5

Q ss_pred             eeCCCCCeeeeccCCC---CCchHHHHHHHHHHHhc
Q 042339           17 VLDPRGSAGICGDRLL---ASSSESAALSGWLLLSN   49 (94)
Q Consensus        17 l~d~~~~lGlCGDWl~---GgRVE~AwlSG~aLA~~   49 (94)
                      +-.+..+|.+||||..   +..+|+|..||...|+.
T Consensus       391 ~~~~~~~l~~aG~~~~~~~~~~~~~Ai~sG~~aA~~  426 (434)
T PRK07233        391 YDTPIEGLYLAGMSQIYPEDRSINGSVRAGRRVARE  426 (434)
T ss_pred             cccCcCCEEEeCCcccCCccCchhHHHHHHHHHHHH
Confidence            3445579999999753   34899999999999976

>PLN02268 probable polyamine oxidase

Probab=88.09  E-value=0.56  Score=36.88  Aligned_cols=34  Identities=15%  Similarity=0.127  Sum_probs=28.2

Q ss_pred             ceeCCCCCeeeeccCCCC---CchHHHHHHHHHHHhc
Q 042339           16 CVLDPRGSAGICGDRLLA---SSSESAALSGWLLLSN   49 (94)
Q Consensus        16 ~l~d~~~~lGlCGDWl~G---gRVE~AwlSG~aLA~~   49 (94)
                      .+..|..+|..||+++..   +.||+|+.||...|+.
T Consensus       393 ~l~~p~~~l~FAGe~ts~~~~g~~eGA~~sG~raA~~  429 (435)
T PLN02268        393 RLRAPVDNLFFAGEATSSDFPGSVHGAYSTGVMAAEE  429 (435)
T ss_pred             HHhCCCCCeEEeeccCCCcccccHHHHHHHHHHHHHH
Confidence            345677899999999865   6999999999998764

>TIGR02731 phytoene_desat phytoene desaturase

Probab=85.65  E-value=0.91  Score=35.99  Aligned_cols=34  Identities=32%  Similarity=0.267  Sum_probs=28.1

Q ss_pred             CceeCCCCCeeeeccCCC---CCchHHHHHHHHHHHh
Q 042339           15 PCVLDPRGSAGICGDRLL---ASSSESAALSGWLLLS   48 (94)
Q Consensus        15 ~~l~d~~~~lGlCGDWl~---GgRVE~AwlSG~aLA~   48 (94)
                      +.+..+..+|.++|||..   .+.+|+|..||...|+
T Consensus       414 ~~~~~p~~~l~~AG~~~a~~~~g~~egAi~SG~~AA~  450 (453)
T TIGR02731       414 PHQKTPIPNFFLAGDYTKQKYLASMEGAVLSGKLCAQ  450 (453)
T ss_pred             ccccCccCCEEEeehhccCcccccHHHHHHHHHHHHH
Confidence            345566779999999974   3689999999999886

Plants and cyanobacteria (and, supposedly, Chlorobium tepidum) have a conserved pathway from two molecules geranylgeranyl-PP to one of all-trans-lycopene. Members of this family are the enzyme pytoene desaturase (also called phytoene dehydrogenase). This model does not include the region of the chloroplast transit peptide in plants. A closely related family, excluded by this model, is zeta-carotene desaturase, another enzyme in the same pathway.

>PLN02328 lysine-specific histone demethylase 1 homolog

Probab=82.64  E-value=1.1  Score=40.51  Aligned_cols=29  Identities=24%  Similarity=0.221  Sum_probs=24.6

Q ss_pred             CCCeeeeccCCCC---CchHHHHHHHHHHHhc
Q 042339           21 RGSAGICGDRLLA---SSSESAALSGWLLLSN   49 (94)
Q Consensus        21 ~~~lGlCGDWl~G---gRVE~AwlSG~aLA~~   49 (94)
                      +.+|..||+++..   +.||+|++||...|+.
T Consensus       643 ~GRL~FAGEaTs~~~~GtVhGAi~SGlRAA~e  674 (808)
T PLN02328        643 DGRVFFAGEATNKQYPATMHGAFLSGMREAAN  674 (808)
T ss_pred             CCCEEEEEhhHhCCCCeEhHHHHHHHHHHHHH
Confidence            5699999999875   5999999999987644

>PLN02487 zeta-carotene desaturase

Probab=80.07  E-value=1.9  Score=37.13  Aligned_cols=28  Identities=25%  Similarity=0.169  Sum_probs=24.4

Q ss_pred             CCeeeeccCCCC---CchHHHHHHHHHHHhc
Q 042339           22 GSAGICGDRLLA---SSSESAALSGWLLLSN   49 (94)
Q Consensus        22 ~~lGlCGDWl~G---gRVE~AwlSG~aLA~~   49 (94)
                      .+|.+||||...   ..+|+|..||...|+.
T Consensus       518 ~nl~LAGD~t~~~yPat~EgAv~SG~~AA~~  548 (569)
T PLN02487        518 SNFFLAGSYTKQDYIDSMEGATLSGRQAAAY  548 (569)
T ss_pred             CCEEEeCcccccCCcchHHHHHHHHHHHHHH
Confidence            599999999853   5999999999999875

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	94
1yvv_A	336	Amine oxidase, flavin-containing; oxidoreductase,	4e-06

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	94
3kkj_A	336	Amine oxidase, flavin-containing; oxidoreductase,	98.77
3qj4_A	342	Renalase; FAD/NAD(P)-binding rossmann fold superfa	98.22
1yvv_A	336	Amine oxidase, flavin-containing; oxidoreductase,	98.13
3nks_A	477	Protoporphyrinogen oxidase; FAD containing protein	96.82
3i6d_A	470	Protoporphyrinogen oxidase; protein-inhibitor comp	96.36
3lov_A	475	Protoporphyrinogen oxidase; structural genomics, J	95.98
2ivd_A	478	PPO, PPOX, protoporphyrinogen oxidase; porphyrin b	95.62
3nrn_A	421	Uncharacterized protein PF1083; alpha-beta protein	95.48
3ka7_A	425	Oxidoreductase; structural genomics, PSI-2, protei	94.45
2yg5_A	453	Putrescine oxidase; oxidoreductase, flavin; HET: F	93.62
2vvm_A	495	Monoamine oxidase N; FAD, peroxisome, flavoprotein	92.96
2e1m_C	181	L-glutamate oxidase; L-amino acid oxidase, FAD, L-	91.03
1sez_A	504	Protoporphyrinogen oxidase, mitochondrial; FAD-bin	90.11
2b9w_A	424	Putative aminooxidase; isomerase, conjugated linol	90.06
1b37_A	472	Protein (polyamine oxidase); flavin-dependent amin	89.75
4dgk_A	501	Phytoene dehydrogenase; the FAD/NAD(P)-binding ros	88.43
1s3e_A	520	Amine oxidase [flavin-containing] B; human monoami	84.62
2jae_A	489	L-amino acid oxidase; oxidoreductase, dimerisation	83.87

>3kkj_A Amine oxidase, flavin-containing; oxidoreductase, PSR10, Q888A4, X-RAY, structure, PSI, protein structure initiative; HET: FAD; 2.50A {Pseudomonas syringae PV}

Probab=98.77  E-value=5.3e-09  Score=66.38  Aligned_cols=44  Identities=27%  Similarity=0.275  Sum_probs=38.3

Q ss_pred             CCCCCCCCCCceeCCCCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339            6 ALPTNTPSIPCVLDPRGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus         6 A~p~~~~g~~~l~d~~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      |++......++.++...+|++||||+.|++|+.|+.||..+|+.
T Consensus       279 a~~~~~~~~~~~~~~~~~v~l~GDa~~g~gv~~A~~sG~~aA~~  322 (336)
T 3kkj_A          279 ARPAGAHEWGALSDADLGIYVCGDWCLSGRVEGAWLSGQEAARR  322 (336)
T ss_dssp             EEESSCCCCSSEEETTTTEEECCGGGTTSSHHHHHHHHHHHHHH
T ss_pred             cccccccCccceeeCCCCEEEEecccCCcCHHHHHHHHHHHHHH
Confidence            34555666788898999999999999999999999999999875

>3qj4_A Renalase; FAD/NAD(P)-binding rossmann fold superfamily, flavin contain oxidoreductase, monoamine oxidase, NAD, extracellular, oxidoreductase; HET: FAD; 2.50A {Homo sapiens}

Probab=98.22  E-value=1e-06  Score=64.36  Aligned_cols=37  Identities=14%  Similarity=0.060  Sum_probs=32.6

Q ss_pred             CCCcee-CCCCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           13 SIPCVL-DPRGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        13 g~~~l~-d~~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      ...+++ +...+|++||||+.|.+||+|+.||..+|+.
T Consensus       300 ~~~~~~~~~~~~l~laGd~~~g~~v~~ai~sg~~aa~~  337 (342)
T 3qj4_A          300 CPGQMTLHHKPFLACGGDGFTQSNFDGCITSALCVLEA  337 (342)
T ss_dssp             SCSCEEEETTTEEEECSGGGSCSSHHHHHHHHHHHHHH
T ss_pred             CcceeEecCCccEEEEccccCCCCccHHHHHHHHHHHH
Confidence            345777 7778999999999999999999999999865

>3nks_A Protoporphyrinogen oxidase; FAD containing protein, PPO, variegate porphyria disease, VP oxidoreductase-oxidoreductase inhibitor complex; HET: ACJ FAD; 1.90A {Homo sapiens}

Probab=96.82  E-value=0.00055  Score=51.60  Aligned_cols=30  Identities=13%  Similarity=0.057  Sum_probs=27.1

Q ss_pred             CCCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           20 PRGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        20 ~~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      ...+|.+||||+.|..||+|+.||..+|+.
T Consensus       440 ~~~~l~l~G~~~~G~gv~~a~~sg~~aA~~  469 (477)
T 3nks_A          440 HRLPLTLAGASYEGVAVNDCIESGRQAAVS  469 (477)
T ss_dssp             TTCSEEECSTTTSCCSHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEccCCCCCcHHHHHHHHHHHHHH
Confidence            345899999999999999999999999875

>3i6d_A Protoporphyrinogen oxidase; protein-inhibitor complex, cytoplasm, FAD, flavoprotein, oxidoreductase, porphyrin biosynthesis; HET: FAD ACJ; 2.90A {Bacillus subtilis}

Probab=96.36  E-value=0.0012  Score=48.97  Aligned_cols=31  Identities=10%  Similarity=0.025  Sum_probs=27.3

Q ss_pred             CCCCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           19 DPRGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        19 d~~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      ++..+|.+||||+.+..||+|+.||..+|+.
T Consensus       433 ~~~~~l~~aG~~~~g~gv~~a~~sG~~aA~~  463 (470)
T 3i6d_A          433 SAYPGVYMTGASFEGVGIPDCIDQGKAAVSD  463 (470)
T ss_dssp             HHSTTEEECSTTTSCCSHHHHHHHHHHHHHH
T ss_pred             hhCCCEEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            4456899999999999999999999999864

>3lov_A Protoporphyrinogen oxidase; structural genomics, JO center for structural genomics, JCSG, protein structure INI PSI-2; HET: FAD; 2.06A {Exiguobacterium sibiricum}

Probab=95.98  E-value=0.0025  Score=48.23  Aligned_cols=33  Identities=12%  Similarity=0.025  Sum_probs=28.4

Q ss_pred             eeCCCCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           17 VLDPRGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        17 l~d~~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      +..+..+|.+||||+.+..+|+|+.||..+|+.
T Consensus       428 l~~~~~~l~~aG~~~~g~g~~~a~~sG~~aA~~  460 (475)
T 3lov_A          428 VLAQYPGIYLAGLAYDGVGLPDCVASAKTMIES  460 (475)
T ss_dssp             HHHHSTTEEECSTTTSCSSHHHHHHHHHHHHHH
T ss_pred             HHhhCCCEEEEccCCCCCCHHHHHHHHHHHHHH
Confidence            334556899999999998999999999999876

>2ivd_A PPO, PPOX, protoporphyrinogen oxidase; porphyrin biosynthesis, chlorophyll biosynthesis, oxidoreductase, HAEM biosynthesis, heme biosynthesis; HET: ACJ FAD TWN; 2.3A {Myxococcus xanthus} SCOP: c.3.1.2 d.16.1.5 PDB: 2ive_A*

Probab=95.62  E-value=0.0084  Score=45.27  Aligned_cols=29  Identities=7%  Similarity=-0.024  Sum_probs=26.1

Q ss_pred             CCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           21 RGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        21 ~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      ..+|.+||||+.+..||+|++||..+|+.
T Consensus       440 ~~~l~~aG~~~~g~gv~gA~~SG~~aA~~  468 (478)
T 2ivd_A          440 LPGLHLIGNAYKGVGLNDCIRNAAQLADA  468 (478)
T ss_dssp             STTEEECSTTTSCCSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEccCCCCCCHHHHHHHHHHHHHH
Confidence            36899999999888899999999999876

>3nrn_A Uncharacterized protein PF1083; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: AMP; 2.10A {Pyrococcus furiosus}

Probab=95.48  E-value=0.014  Score=43.53  Aligned_cols=45  Identities=18%  Similarity=0.136  Sum_probs=32.2

Q ss_pred             eCCCCCeeeeccCCCCC-ch--HHHHHHHHHHHhcCCCCcchhhccccCccccCCc
Q 042339           18 LDPRGSAGICGDRLLAS-SS--ESAALSGWLLLSNHGIRSEVFDVGLQTNILPLEG   70 (94)
Q Consensus        18 ~d~~~~lGlCGDWl~Gg-RV--E~AwlSG~aLA~~~~~~~~~~~~gl~~~~~~~~g   70 (94)
                      ..+ .+|++||||+.+. -+  |+|..||...|+.=       .+|=..+|--+|-
T Consensus       369 ~~~-~gl~laGd~~~~~~g~~~~ga~~sg~~aA~~l-------~~~~~~~~~~~~~  416 (421)
T 3nrn_A          369 WPL-NEVLVVGDGYRPPGGIEVDGIALGVMKALEKL-------NLGSFSEWYLLEH  416 (421)
T ss_dssp             CCC-SSEEECSTTCCCTTCCHHHHHHHHHHHHHHHT-------TSCCCCTTTC---
T ss_pred             CCC-CcEEEECCcccCCCceeeehHHHHHHHHHHHh-------CcCchhhhhhhhh
Confidence            445 7899999999988 55  99999999999653       3444446665554

>3ka7_A Oxidoreductase; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; HET: FAD; 1.80A {Methanosarcina mazei}

Probab=94.45  E-value=0.041  Score=40.62  Aligned_cols=28  Identities=18%  Similarity=0.165  Sum_probs=24.8

Q ss_pred             CCeeeeccCCCC---CchHHHHHHHHHHHhc
Q 042339           22 GSAGICGDRLLA---SSSESAALSGWLLLSN   49 (94)
Q Consensus        22 ~~lGlCGDWl~G---gRVE~AwlSG~aLA~~   49 (94)
                      .+|.+||||..+   -.||+|.+||+..++.
T Consensus       392 ~gL~laG~~~~~~gg~gv~~~~~s~~~~~~~  422 (425)
T 3ka7_A          392 SGLYVVGDGAKGKGGIEVEGVALGVMSVMEK  422 (425)
T ss_dssp             BTEEECSTTSCCTTCCHHHHHHHHHHHHHHC
T ss_pred             CCeEEeCCccCCCCCCccHHHHHHHHHHHHH
Confidence            479999999987   7999999999998763

>2yg5_A Putrescine oxidase; oxidoreductase, flavin; HET: FAD; 1.90A {Rhodococcus erythropolis} PDB: 2yg6_A* 2yg3_A* 2yg4_A* 2yg7_A* 3rha_A*

Probab=93.62  E-value=0.044  Score=41.05  Aligned_cols=33  Identities=12%  Similarity=0.097  Sum_probs=26.7

Q ss_pred             eeCCCCCeeeeccCCC---CCchHHHHHHHHHHHhc
Q 042339           17 VLDPRGSAGICGDRLL---ASSSESAALSGWLLLSN   49 (94)
Q Consensus        17 l~d~~~~lGlCGDWl~---GgRVE~AwlSG~aLA~~   49 (94)
                      +..+..+|.+||||+.   .+.||+|+.||...|+.
T Consensus       411 ~~~p~~~l~~aG~~~~~~~~g~v~gA~~SG~~aA~~  446 (453)
T 2yg5_A          411 SRTPVGPIHFSCSDIAAEGYQHVDGAVRMGQRTAAD  446 (453)
T ss_dssp             TTCCBTTEEECCGGGCSTTTTSHHHHHHHHHHHHHH
T ss_pred             HhCCcCceEEeecccccccccchHHHHHHHHHHHHH
Confidence            3445679999999973   36899999999998864

>2vvm_A Monoamine oxidase N; FAD, peroxisome, flavoprotein, oxidoreductase, enantioselectivity, directed evolution variant; HET: FAD; 1.85A {Aspergillus niger} PDB: 2vvl_A* 2vvl_G*

Probab=92.96  E-value=0.058  Score=41.10  Aligned_cols=33  Identities=12%  Similarity=0.018  Sum_probs=27.6

Q ss_pred             eeCCCCCeeeeccCCC---CCchHHHHHHHHHHHhc
Q 042339           17 VLDPRGSAGICGDRLL---ASSSESAALSGWLLLSN   49 (94)
Q Consensus        17 l~d~~~~lGlCGDWl~---GgRVE~AwlSG~aLA~~   49 (94)
                      +..+..+|.+||||+.   .+.||+|+.||...|+.
T Consensus       445 l~~p~~~l~fAGe~t~~~~~g~veGAi~SG~raA~~  480 (495)
T 2vvm_A          445 LREKHGGVVFANSDWALGWRSFIDGAIEEGTRAARV  480 (495)
T ss_dssp             HHCCBTTEEECCGGGCSSSTTSHHHHHHHHHHHHHH
T ss_pred             HhCcCCCEEEechhhhcCCceEEEhHHHHHHHHHHH
Confidence            3456779999999986   47899999999998764

>2e1m_C L-glutamate oxidase; L-amino acid oxidase, FAD, L-GOX, flavo oxidoreductase; HET: FAD; 2.80A {Streptomyces SP}

Probab=91.03  E-value=0.14  Score=35.85  Aligned_cols=33  Identities=18%  Similarity=0.191  Sum_probs=28.4

Q ss_pred             eeCCCCCeeeeccCCC--CCchHHHHHHHHHHHhc
Q 042339           17 VLDPRGSAGICGDRLL--ASSSESAALSGWLLLSN   49 (94)
Q Consensus        17 l~d~~~~lGlCGDWl~--GgRVE~AwlSG~aLA~~   49 (94)
                      +-.+..+|.+||+++.  .+-||+|+.||...|+.
T Consensus       113 l~~p~grl~FAGe~ts~~~g~~eGAl~SG~raA~~  147 (181)
T 2e1m_C          113 VVRPEGPVYFAGEHVSLKHAWIEGAVETAVRAAIA  147 (181)
T ss_dssp             HHSCBTTEEECSGGGTTSTTSHHHHHHHHHHHHHH
T ss_pred             HhCCCCcEEEEEHHHcCCccCHHHHHHHHHHHHHH
Confidence            4456789999999987  78999999999988765

>1sez_A Protoporphyrinogen oxidase, mitochondrial; FAD-binding, para-hydroxy-benzoate-hydroxylase fold (PHBH- fold), monotopic membrane-binding domain; HET: FAD OMN TON; 2.90A {Nicotiana tabacum} SCOP: c.3.1.2 d.16.1.5

Probab=90.11  E-value=0.25  Score=37.59  Aligned_cols=29  Identities=17%  Similarity=-0.104  Sum_probs=26.0

Q ss_pred             CCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           21 RGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        21 ~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      -.+|.+||||..|.-|++|+.||...|+.
T Consensus       460 ~~~l~~aG~~~~g~~v~gai~sG~~aA~~  488 (504)
T 1sez_A          460 LPGLFYAGNHRGGLSVGKALSSGCNAADL  488 (504)
T ss_dssp             STTEEECCSSSSCSSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            35899999999988999999999998865

>2b9w_A Putative aminooxidase; isomerase, conjugated linoleic acid, FAD; HET: FAD 12P; 1.95A {Propionibacterium acnes} PDB: 2b9x_A* 2b9y_A* 2ba9_A* 2bab_A* 2bac_A*

Probab=90.06  E-value=0.19  Score=37.17  Aligned_cols=28  Identities=7%  Similarity=-0.008  Sum_probs=25.5

Q ss_pred             CCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           22 GSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        22 ~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      .++.+||+|..-+-.|+|+.||...|+.
T Consensus       394 ~~l~~aG~~~~~g~~e~a~~Sg~~aA~~  421 (424)
T 2b9w_A          394 RNTFYAGEIMSFGNFDEVCHYSKDLVTR  421 (424)
T ss_dssp             GGEEECSGGGSCSSHHHHHHHHHHHHHH
T ss_pred             CCceEeccccccccHHHHHHHHHHHHHH
Confidence            4899999999989999999999999863

>1b37_A Protein (polyamine oxidase); flavin-dependent amine oxidase, oxidoreductase; HET: NAG FCA MAN FAD; 1.90A {Zea mays} SCOP: c.3.1.2 d.16.1.5 PDB: 1b5q_A* 1h81_A* 1h82_A* 1h83_A* 1h84_A* 1h86_A* 3kpf_A* 3ku9_A* 3l1r_A*

Probab=89.75  E-value=0.24  Score=37.76  Aligned_cols=31  Identities=23%  Similarity=0.154  Sum_probs=25.9

Q ss_pred             CCCCCeeeeccCCC---CCchHHHHHHHHHHHhc
Q 042339           19 DPRGSAGICGDRLL---ASSSESAALSGWLLLSN   49 (94)
Q Consensus        19 d~~~~lGlCGDWl~---GgRVE~AwlSG~aLA~~   49 (94)
                      .+-.+|.+||||+.   .+-||+|++||...|+.
T Consensus       420 ~p~~~l~fAG~~t~~~~~g~v~GA~~SG~~aA~~  453 (472)
T 1b37_A          420 APVGRVYFTGEHTSEHYNGYVHGAYLSGIDSAEI  453 (472)
T ss_dssp             CCBTTEEECSGGGCTTTTTSHHHHHHHHHHHHHH
T ss_pred             ccCCcEEEeecccCCCCCCchhHHHHHHHHHHHH
Confidence            44569999999985   56999999999988754

>4dgk_A Phytoene dehydrogenase; the FAD/NAD(P)-binding rossmann fold, oxidoreductase; 2.35A {Pantoea ananatis}

Probab=88.43  E-value=0.23  Score=37.61  Aligned_cols=28  Identities=7%  Similarity=-0.147  Sum_probs=20.0

Q ss_pred             CCeeeeccCCC-CCchHHHHHHHHHHHhc
Q 042339           22 GSAGICGDRLL-ASSSESAALSGWLLLSN   49 (94)
Q Consensus        22 ~~lGlCGDWl~-GgRVE~AwlSG~aLA~~   49 (94)
                      .+|++||||.. |+-|++|.+||...|+.
T Consensus       458 ~gLyl~G~~t~pG~Gv~ga~~SG~~aA~~  486 (501)
T 4dgk_A          458 TNLYLVGAGTHPGAGIPGVIGSAKATAGL  486 (501)
T ss_dssp             TTEEECCCH------HHHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCcccHHHHHHHHHHHHHH
Confidence            58999999986 67899999999887653

>1s3e_A Amine oxidase [flavin-containing] B; human monoamine oxidase, inhibitor binding, rasagiline, enantioselectivity, oxidoreductase; HET: FAD RHP; 1.60A {Homo sapiens} SCOP: c.3.1.2 d.16.1.5 PDB: 1gos_A* 1oj9_A* 1ojb_A* 1ojc_A* 1ojd_A* 1s2q_A* 1s2y_A* 1oja_A* 1s3b_A* 2bk3_A* 2byb_A* 2c64_A* 2c65_A* 2c66_A* 2c67_A* 2c70_A* 2v5z_A* 2v60_A* 2v61_A* 2vrl_A* ...

Probab=84.62  E-value=0.69  Score=35.65  Aligned_cols=31  Identities=16%  Similarity=0.105  Sum_probs=25.2

Q ss_pred             CCCCCeeeeccCC---CCCchHHHHHHHHHHHhc
Q 042339           19 DPRGSAGICGDRL---LASSSESAALSGWLLLSN   49 (94)
Q Consensus        19 d~~~~lGlCGDWl---~GgRVE~AwlSG~aLA~~   49 (94)
                      .+-.+|.+||||.   ..+-||+|+.||...|+.
T Consensus       416 ~p~~~L~fAG~~t~~~~~g~v~GAi~SG~~aA~~  449 (520)
T 1s3e_A          416 QPVDRIYFAGTETATHWSGYMEGAVEAGERAARE  449 (520)
T ss_dssp             CCBTTEEECSGGGCSSSTTSHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEeehhhcCcCcEEhHHHHHHHHHHHHH
Confidence            3446899999987   346899999999988765

>2jae_A L-amino acid oxidase; oxidoreductase, dimerisation mode, hydride transfer mechanism, GR2-family, flavoenzyme, FAD containing; HET: FAD; 1.25A {Rhodococcus opacus} PDB: 2jb1_A* 2jb2_A* 2jb3_A*

Probab=83.87  E-value=0.79  Score=34.74  Aligned_cols=31  Identities=19%  Similarity=0.230  Sum_probs=26.6

Q ss_pred             CCCCCeeeeccCC--CCCchHHHHHHHHHHHhc
Q 042339           19 DPRGSAGICGDRL--LASSSESAALSGWLLLSN   49 (94)
Q Consensus        19 d~~~~lGlCGDWl--~GgRVE~AwlSG~aLA~~   49 (94)
                      .+..+|.+||+|.  .++-||+|+.||...|+.
T Consensus       448 ~~~~~l~faG~~~~~~~~~v~gAi~sg~~aA~~  480 (489)
T 2jae_A          448 EPVDKIYFAGDHLSNAIAWQHGALTSARDVVTH  480 (489)
T ss_dssp             SCBTTEEECSGGGBSSTTSHHHHHHHHHHHHHH
T ss_pred             CCCCcEEEeEHHhccCccHHHHHHHHHHHHHHH
Confidence            4567999999987  488999999999998764

---

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

ID	Length	Definition	Probability
Query	94
d1seza1	373	Protoporphyrinogen oxidase {Tobacco (Nicotiana tab	96.63
d1b5qa1	347	Polyamine oxidase {Maize (Zea mays) [TaxId: 4577]}	96.45
d2dw4a2	449	Lysine-specific histone demethylase 1, LSD1 {Human	95.91
d2iida1	370	L-aminoacid oxidase {Malayan pit viper (Calloselas	95.64
d2ivda1	347	Protoporphyrinogen oxidase {Myxococcus xanthus [Ta	81.27

>d1seza1 c.3.1.2 (A:13-329,A:442-497) Protoporphyrinogen oxidase {Tobacco (Nicotiana tabacum) [TaxId: 4097]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD-linked reductases, N-terminal domain
domain: Protoporphyrinogen oxidase
species: Tobacco (Nicotiana tabacum) [TaxId: 4097]

Probab=96.63  E-value=0.00075  Score=42.35  Aligned_cols=28  Identities=18%  Similarity=-0.082  Sum_probs=25.5

Q ss_pred             CCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           22 GSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        22 ~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      .+|++||||+.|..|+.|+.||...|+.
T Consensus       337 pglf~aGd~~~g~~~~~A~~~G~~aA~~  364 (373)
T d1seza1         337 PGLFYAGNHRGGLSVGKALSSGCNAADL  364 (373)
T ss_dssp             TTEEECCSSSSCSSHHHHHHHHHHHHHH
T ss_pred             CCEEEEecCCCchhHHHHHHHHHHHHHH
Confidence            4799999999999999999999998864

>d1b5qa1 c.3.1.2 (A:5-293,A:406-463) Polyamine oxidase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD-linked reductases, N-terminal domain
domain: Polyamine oxidase
species: Maize (Zea mays) [TaxId: 4577]

Probab=96.45  E-value=0.0011  Score=40.04  Aligned_cols=31  Identities=23%  Similarity=0.154  Sum_probs=25.9

Q ss_pred             CCCCCeeeeccCCC---CCchHHHHHHHHHHHhc
Q 042339           19 DPRGSAGICGDRLL---ASSSESAALSGWLLLSN   49 (94)
Q Consensus        19 d~~~~lGlCGDWl~---GgRVE~AwlSG~aLA~~   49 (94)
                      .+..+|.+||||+.   .+.||+|+.||...|+.
T Consensus       304 ~~~~~v~~~GD~~~~~~~~~~~gA~~sG~~aA~~  337 (347)
T d1b5qa1         304 APVGRVYFTGEHTSEHYNGYVHGAYLSGIDSAEI  337 (347)
T ss_dssp             CCBTTEEECSGGGCSSCTTSHHHHHHHHHHHHHH
T ss_pred             cccCCEEEEEccccCcCCCHHHHHHHHHHHHHHH
Confidence            35579999999974   47899999999998864

>d2dw4a2 c.3.1.2 (A:274-654,A:764-831) Lysine-specific histone demethylase 1, LSD1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD-linked reductases, N-terminal domain
domain: Lysine-specific histone demethylase 1, LSD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.91  E-value=0.0034  Score=39.33  Aligned_cols=33  Identities=18%  Similarity=0.186  Sum_probs=24.8

Q ss_pred             eeCCCCCeeeeccCCCC---CchHHHHHHHHHHHhc
Q 042339           17 VLDPRGSAGICGDRLLA---SSSESAALSGWLLLSN   49 (94)
Q Consensus        17 l~d~~~~lGlCGDWl~G---gRVE~AwlSG~aLA~~   49 (94)
                      +..+..+|.+||||...   +-||+|++||...|+.
T Consensus       407 ~~~~~~~l~fAGe~t~~~~~g~~~GA~~SG~~aA~~  442 (449)
T d2dw4a2         407 APQPIPRLFFAGEHTIRNYPATVHGALLSGLREAGR  442 (449)
T ss_dssp             ---CCCCEEECSGGGCTTSCSSHHHHHHHHHHHHHH
T ss_pred             hcCCCCCEEEEcCCcCCCCceehHHHHHHHHHHHHH
Confidence            33456789999999753   5699999999988753

>d2iida1 c.3.1.2 (A:4-319,A:433-486) L-aminoacid oxidase {Malayan pit viper (Calloselasma rhodostoma) [TaxId: 8717]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD-linked reductases, N-terminal domain
domain: L-aminoacid oxidase
species: Malayan pit viper (Calloselasma rhodostoma) [TaxId: 8717]

Probab=95.64  E-value=0.003  Score=41.03  Aligned_cols=34  Identities=15%  Similarity=0.140  Sum_probs=28.5

Q ss_pred             ceeCCCCCeeeeccCCCCCc--hHHHHHHHHHHHhc
Q 042339           16 CVLDPRGSAGICGDRLLASS--SESAALSGWLLLSN   49 (94)
Q Consensus        16 ~l~d~~~~lGlCGDWl~GgR--VE~AwlSG~aLA~~   49 (94)
                      .++.+..+|.++|||+..++  ||.|+.||..+|..
T Consensus       328 ~~~~~~g~v~~aGd~~~~~~~~~~~a~~sG~~aA~~  363 (370)
T d2iida1         328 PLTASQGRIYFAGEYTAQAHGWIDSTIKSGLRAARD  363 (370)
T ss_dssp             HHHCCBTTEEECSGGGSSSSSCHHHHHHHHHHHHHH
T ss_pred             hhhcccCCEEEecccccCCCcccHHHHHHHHHHHHH
Confidence            45677889999999987654  99999999998865

>d2ivda1 c.3.1.2 (A:10-306,A:415-464) Protoporphyrinogen oxidase {Myxococcus xanthus [TaxId: 34]}

class: Alpha and beta proteins (a/b)
fold: FAD/NAD(P)-binding domain
superfamily: FAD/NAD(P)-binding domain
family: FAD-linked reductases, N-terminal domain
domain: Protoporphyrinogen oxidase
species: Myxococcus xanthus [TaxId: 34]

Probab=81.27  E-value=0.65  Score=28.62  Aligned_cols=29  Identities=7%  Similarity=-0.024  Sum_probs=25.1

Q ss_pred             CCCeeeeccCCCCCchHHHHHHHHHHHhc
Q 042339           21 RGSAGICGDRLLASSSESAALSGWLLLSN   49 (94)
Q Consensus        21 ~~~lGlCGDWl~GgRVE~AwlSG~aLA~~   49 (94)
                      ..++.+|||+..|-.+..+.-+|..+|+.
T Consensus       316 ~p~~~~~G~~~~g~~~~~~~~~g~~~a~~  344 (347)
T d2ivda1         316 LPGLHLIGNAYKGVGLNDCIRNAAQLADA  344 (347)
T ss_dssp             STTEEECSTTTSCCSHHHHHHHHHHHHHH
T ss_pred             CCCEEEecccccCCCHHHHHHHHHHHHHH
Confidence            44799999999998999999999988864