Citrus Sinensis ID: 046227

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80------
Protein Sequence
CYERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPADRSCRKPIYT
Secondary Structure (PSIPRED)
cccccEEEccccEEEEEccccccccccccccEEEEEEEcHHccccccccccccccHHHHHHHHHHHHHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEccccEEEEEcccHHHHcccccccccEEEEEEcHHHccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccc
Coil and Loop (DISEMBL)
cyerafirgvdsvswmannsatllspqsdgshcwtffstaaygkgnkvplenmptatasKVKTgmlegvgavawpadrscrkpiyt
Flexible Loop (DISEMBL)
CYERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVgavawpadrscrkpiyt
Low Complexity Region (SEG)
CYERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPADRSCRKPIYT
Disordered region (IsUnstruct)
****AFIRGVDSVSWMANNSATLL****DGSHCWTFFSTAAYGKGNKVPL**********VKTGMLEGVGAVAWPA**********
Disordered Region (DISOPRED)
*YERAFIRGVDSVSWMANNSA*******DGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPADRSCRKPIY*
Disordered Region (DISEMBL)
CYERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPADRSCRKPIYT
Disordered Region (DISPRO)
CYERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPADRSCRKPIYT
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
CYERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPADRSCRKPIYT
Positional Conservation
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

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	86
224130614	496	predicted protein [Populus trichocarpa]	0.976	0.169	0.651	3e-24
449483109	536	PREDICTED: uncharacterized protein LOC10	0.988	0.158	0.623	6e-23
449443231	545	PREDICTED: uncharacterized protein LOC10	0.988	0.155	0.623	1e-22
147823103	2691	hypothetical protein VITISV_000598 [Viti	0.988	0.031	0.588	5e-22
357444431	340	GRAS family transcription factor [Medica	0.941	0.238	0.604	8e-22
255580905	467	conserved hypothetical protein [Ricinus	0.976	0.179	0.6	2e-21
296087896	518	unnamed protein product [Vitis vinifera]	0.988	0.164	0.576	5e-21
225463946	467	PREDICTED: uncharacterized protein LOC10	0.988	0.182	0.576	5e-21
18396966	486	FAD/NAD(P)-binding oxidoreductase domain	0.976	0.172	0.588	1e-19
297828968	485	oxidoreductase [Arabidopsis lyrata subsp	0.965	0.171	0.576	2e-19

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

 Score =  115 bits (288), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 56/86 (65%), Positives = 68/86 (79%), Gaps = 2/86 (2%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GVDS+SWM NNSA LL  +++  HCWTFFSTAAYGK NKVP EN+PTATA KV
Sbjct: 308 FEGAFVKGVDSLSWMGNNSAKLLGSKTNSPHCWTFFSTAAYGKRNKVPQENIPTATAEKV 367

Query: 62  KTGMLEGV-GAVAWPADRSCRKPIYT 86
           KTGMLEGV  A+  P D S ++P Y+
Sbjct: 368 KTGMLEGVEAALGLPKD-SLQQPFYS 392

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449483109|ref|XP_004156495.1| PREDICTED: uncharacterized protein LOC101226129 [Cucumis sativus]

 Score =  111 bits (277), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 53/85 (62%), Positives = 62/85 (72%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GVDS+SWMANN+   L+ Q DG HCWTF STAAYGK NKVP EN+PT+TA KV
Sbjct: 312 FEGAFVKGVDSLSWMANNNKKFLNFQKDGPHCWTFLSTAAYGKQNKVPQENIPTSTAEKV 371

Query: 62  KTGMLEGVGAVAWPADRSCRKPIYT 86
           K  MLEGV A    +  S  KP YT
Sbjct: 372 KKNMLEGVEAALGLSKGSLPKPFYT 396

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443231|ref|XP_004139383.1| PREDICTED: uncharacterized protein LOC101219713 [Cucumis sativus]

 Score =  110 bits (275), Expect = 1e-22,   Method: Composition-based stats.
 Identities = 53/85 (62%), Positives = 62/85 (72%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GVDS+SWMANN+   L+ Q DG HCWTF STAAYGK NKVP EN+PT+TA KV
Sbjct: 312 FEGAFVKGVDSLSWMANNNKKFLNFQKDGPHCWTFLSTAAYGKQNKVPQENIPTSTAEKV 371

Query: 62  KTGMLEGVGAVAWPADRSCRKPIYT 86
           K  MLEGV A    +  S  KP YT
Sbjct: 372 KKNMLEGVEAALGLSKGSLPKPFYT 396

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147823103|emb|CAN66330.1| hypothetical protein VITISV_000598 [Vitis vinifera]

 Score =  108 bits (269), Expect = 5e-22,   Method: Composition-based stats.
 Identities = 50/85 (58%), Positives = 60/85 (70%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GVDS+SWMANN+  LL   S G HCWTFFSTAA+GK NKVP EN+PT TA KV
Sbjct: 594 FEGAFVKGVDSISWMANNTKKLLHSLSSGPHCWTFFSTAAFGKRNKVPQENIPTVTAEKV 653

Query: 62  KTGMLEGVGAVAWPADRSCRKPIYT 86
           K  ML GV      +  S ++P YT
Sbjct: 654 KEAMLAGVETALGHSAGSLKRPFYT 678

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357444431|ref|XP_003592493.1| GRAS family transcription factor [Medicago truncatula] gi|355481541|gb|AES62744.1| GRAS family transcription factor [Medicago truncatula]

 Score =  107 bits (267), Expect = 8e-22,   Method: Composition-based stats.
 Identities = 49/81 (60%), Positives = 61/81 (75%)

Query: 6   FIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGM 65
           F++G+DSVSWMANN+  LL+ QS+G HCWTF STAAY K NKVP +N+PT TA++V+ GM
Sbjct: 36  FLKGIDSVSWMANNTKKLLASQSNGPHCWTFLSTAAYEKQNKVPQKNIPTVTATRVREGM 95

Query: 66  LEGVGAVAWPADRSCRKPIYT 86
           LEGV A    +  S  KP YT
Sbjct: 96  LEGVEAALGLSKGSPPKPFYT 116

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255580905|ref|XP_002531271.1| conserved hypothetical protein [Ricinus communis] gi|223529104|gb|EEF31084.1| conserved hypothetical protein [Ricinus communis]

 Score =  106 bits (265), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 51/85 (60%), Positives = 62/85 (72%), Gaps = 1/85 (1%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GVDS+SWM NNS  L S QS+G HCWTFFSTAA+GK NKVP EN+P +TA KV
Sbjct: 284 FEGAFVKGVDSISWMGNNSMKLFS-QSNGPHCWTFFSTAAFGKRNKVPQENIPNSTAEKV 342

Query: 62  KTGMLEGVGAVAWPADRSCRKPIYT 86
           K  MLEGV      A+ S + P Y+
Sbjct: 343 KAAMLEGVEVALGLAEGSLKLPFYS 367

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  105 bits (261), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 49/85 (57%), Positives = 59/85 (69%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GVDS+SWMANN+  LL     G HCWTFFSTAA+GK NKVP EN+PT TA KV
Sbjct: 279 FEGAFVKGVDSISWMANNTKKLLHSLGSGPHCWTFFSTAAFGKRNKVPQENIPTVTAEKV 338

Query: 62  KTGMLEGVGAVAWPADRSCRKPIYT 86
           K  ML GV      +  S ++P YT
Sbjct: 339 KEAMLAGVETALGHSAGSLKRPFYT 363

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  104 bits (260), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 49/85 (57%), Positives = 59/85 (69%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GVDS+SWMANN+  LL     G HCWTFFSTAA+GK NKVP EN+PT TA KV
Sbjct: 279 FEGAFVKGVDSISWMANNTKKLLHSLGSGPHCWTFFSTAAFGKRNKVPQENIPTVTAEKV 338

Query: 62  KTGMLEGVGAVAWPADRSCRKPIYT 86
           K  ML GV      +  S ++P YT
Sbjct: 339 KEAMLAGVETALGHSAGSLKRPFYT 363

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  100 bits (249), Expect = 1e-19,   Method: Composition-based stats.
 Identities = 50/85 (58%), Positives = 62/85 (72%), Gaps = 1/85 (1%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GV+S+SWM NNSA L + ++   HCWTFFSTAAYGK NKVP EN+PT TA KV
Sbjct: 300 FEGAFVKGVESLSWMGNNSAKLGNGRTP-PHCWTFFSTAAYGKQNKVPQENIPTVTAEKV 358

Query: 62  KTGMLEGVGAVAWPADRSCRKPIYT 86
           K GML+GV       + S  KP+YT
Sbjct: 359 KAGMLQGVEIALGLPEGSLPKPVYT 383

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  100 bits (248), Expect = 2e-19,   Method: Composition-based stats.
 Identities = 49/85 (57%), Positives = 62/85 (72%), Gaps = 2/85 (2%)

Query: 2   YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
           +E AF++GV+S+SWM NNSA L + ++   HCWTFFSTAAYGK NKVP EN+PT TA KV
Sbjct: 300 FEGAFVKGVESLSWMGNNSAKLGNGRN--PHCWTFFSTAAYGKQNKVPQENIPTVTAEKV 357

Query: 62  KTGMLEGVGAVAWPADRSCRKPIYT 86
           + GML+GV       + S  KP+YT
Sbjct: 358 RAGMLQGVEIALGLPEGSLPKPVYT 382

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	86
TAIR|locus:2084903	486	AT3G04650 [Arabidopsis thalian	0.976	0.172	0.588	1.8e-21

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

 Score = 257 (95.5 bits), Expect = 1.8e-21, P = 1.8e-21
 Identities = 50/85 (58%), Positives = 62/85 (72%)

Query:     2 YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKV 61
             +E AF++GV+S+SWM NNSA L + ++   HCWTFFSTAAYGK NKVP EN+PT TA KV
Sbjct:   300 FEGAFVKGVESLSWMGNNSAKLGNGRTP-PHCWTFFSTAAYGKQNKVPQENIPTVTAEKV 358

Query:    62 KTGMLEGVGAVAWPADRSCRKPIYT 86
             K GML+GV       + S  KP+YT
Sbjct:   359 KAGMLQGVEIALGLPEGSLPKPVYT 383


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   0.128   0.414    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       86        86   0.00091  102 3  11 22  0.47    29
                                                     29  0.47    30


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:  558 (59 KB)
  Total size of DFA:  113 KB (2075 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:  9.47u 0.26s 9.73t   Elapsed:  00:00:00
  Total cpu time:  9.47u 0.26s 9.73t   Elapsed:  00:00:00
  Start:  Sat May 11 02:33:46 2013   End:  Sat May 11 02:33:46 2013

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

---

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!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	86
COG3380	331	Predicted NAD/FAD-dependent oxidoreductase [Genera	99.43
TIGR00562	462	proto_IX_ox protoporphyrinogen oxidase. This prote	90.97
TIGR03467	419	HpnE squalene-associated FAD-dependent desaturase.	81.05

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

Probab=99.43  E-value=2e-13  Score=104.64  Aligned_cols=64  Identities=11%  Similarity=0.296  Sum_probs=56.4

Q ss_pred             cccceecCCCceeEEEeCCCCCCCCCCCCCceEEEEeChhhhhhcCCCCCCCCCCcHHHHHHHHHHHHHHhhCC
Q 046227            2 YERAFIRGVDSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWP   75 (86)
Q Consensus         2 ~~gafv~~~~~LsWia~nssKpg~~~r~~~e~WvlhsT~~ws~~hl~pqe~~p~~~~e~V~~~Ll~a~~~~lg~   75 (86)
                      +.|.||.+++ |.||+||.+|||+  -...+.||+|++|+||++|+       +.+.|+|+..|..+|+++.|.
T Consensus       203 ~~G~~vdg~~-laWla~d~sK~g~--~p~~~~~vvqasp~wSr~h~-------~~~~e~~i~~l~aA~~~~~~~  266 (331)
T COG3380         203 WPGNFVDGHP-LAWLARDASKKGH--VPDGEIWVVQASPDWSREHL-------DHPAEQVIVALRAAAQELDGD  266 (331)
T ss_pred             CCCcccCCCe-eeeeeccccCCCC--CCcCceEEEEeCchHHHHhh-------cCCHHHHHHHHHHhhhhccCC
Confidence            5688999996 9999999999992  33578999999999999999       999999999999999987663

>TIGR00562 proto_IX_ox protoporphyrinogen oxidase

Probab=90.97  E-value=0.94  Score=34.86  Aligned_cols=57  Identities=9%  Similarity=-0.006  Sum_probs=43.2

Q ss_pred             ceeEEEeCCCCCCCCCCCCCceEEEEeChhhhhhcCCCCCCCCCCcHHHHHHHHHHHHHHhhCCC
Q 046227           12 SVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPA   76 (86)
Q Consensus        12 ~LsWia~nssKpg~~~r~~~e~WvlhsT~~ws~~hl~pqe~~p~~~~e~V~~~Ll~a~~~~lg~~   76 (86)
                      .+.|+.+++.+|+.. .++...++++.+..++..+.       +.+.+++.+.++++|++.+|++
T Consensus       334 ~~~~i~~s~~~p~~~-p~g~~~l~~~~~g~~~~~~~-------~~~~ee~~~~v~~~L~~~~gi~  390 (462)
T TIGR00562       334 ILGCIFTSKLFPNRA-PPGKTLLTAYIGGATDESIV-------DLSENEIINIVLRDLKKVLNIN  390 (462)
T ss_pred             eEEEEEEccccCCcC-CCCcEEEEEEeCCCCCcccc-------CCCHHHHHHHHHHHHHHHhCCC
Confidence            489999888888721 12344677788777776665       6778999999999999988865

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

>TIGR03467 HpnE squalene-associated FAD-dependent desaturase

Probab=81.05  E-value=8.1  Score=28.75  Aligned_cols=51  Identities=4%  Similarity=-0.001  Sum_probs=37.6

Q ss_pred             ceeEEEeCCCCCCCCCCCCCceEEEEeChhhhhhcCCCCCCCCCCcHHHHHHHHHHHHHHhhCCC
Q 046227           12 SVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPA   76 (86)
Q Consensus        12 ~LsWia~nssKpg~~~r~~~e~WvlhsT~~ws~~hl~pqe~~p~~~~e~V~~~Ll~a~~~~lg~~   76 (86)
                      ...|+.+++.+++   +.+..+++++...    ++.       +.+.+++.+.+++.+++++|..
T Consensus       300 ~~~~~~~~~~~~~---~~~~~~~~~~~~~----~~~-------~~~~e~~~~~~l~~l~~~~~~~  350 (419)
T TIGR03467       300 LAQWLFDRGQLAG---EPGYLAVVISAAR----DLV-------DLPREELADRIVAELRRAFPRV  350 (419)
T ss_pred             ceeEEEECCcCCC---CCCEEEEEEecch----hhc-------cCCHHHHHHHHHHHHHHhcCcc
Confidence            4789999888876   5555567776533    333       5567999999999999988754

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.

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	86
3qj4_A	342	Renalase; FAD/NAD(P)-binding rossmann fold superfa	98.94
1yvv_A	336	Amine oxidase, flavin-containing; oxidoreductase,	98.57
3nks_A	477	Protoporphyrinogen oxidase; FAD containing protein	85.48

>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=98.94  E-value=1.3e-09  Score=78.88  Aligned_cols=70  Identities=9%  Similarity=0.140  Sum_probs=57.7

Q ss_pred             cccceecCCCceeEEEeCCCCCCCCCCC---CCceEEEEeChhhhhhcCCCCCCCCCCcHHHHHHHHHHHHHHhhCCCCC
Q 046227            2 YERAFIRGVDSVSWMANNSATLLSPQSD---GSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPADR   78 (86)
Q Consensus         2 ~~gafv~~~~~LsWia~nssKpg~~~r~---~~e~WvlhsT~~ws~~hl~pqe~~p~~~~e~V~~~Ll~a~~~~lg~~~~   78 (86)
                      +.|.++.+++.|.|+++|++||+   |.   +..+||+|++.+|+++|+       +.+.|++.+.++++|++++|.   
T Consensus       210 ~~g~~~~~~~~~~~~~~~~~k~~---r~~~~~~~~~v~~~~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~g~---  276 (342)
T 3qj4_A          210 WAGQYITSNPCIRFVSIDNKKRN---IESSEIGPSLVIHTTVPFGVTYL-------EHSIEDVQELVFQQLENILPG---  276 (342)
T ss_dssp             CSEEECSSCSSEEEEEEHHHHTT---CCCC-CCCEEEEEECHHHHHHTT-------TSCHHHHHHHHHHHHHHHSCS---
T ss_pred             eeeEEccCCcceEEEEccccCCC---CCCCCCCceEEEECCHHHHHHhh-------cCCHHHHHHHHHHHHHHhccC---
Confidence            45777765545999999999998   54   346999999999999998       888999999999999999983   


Q ss_pred             CCCCCcc
Q 046227           79 SCRKPIY   85 (86)
Q Consensus        79 ~~~~p~~   85 (86)
                       .+.|.+
T Consensus       277 -~~~p~~  282 (342)
T 3qj4_A          277 -LPQPIA  282 (342)
T ss_dssp             -CCCCSE
T ss_pred             -CCCCce
Confidence             345654

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

Probab=85.48  E-value=1.3  Score=32.62  Aligned_cols=63  Identities=6%  Similarity=-0.125  Sum_probs=42.5

Q ss_pred             CceeEEEeCCCCCCCCCCCCCceEEEEeChhhhhhcCCCCCCCCCCcHHHHHHHHHHHHHHhhCCC
Q 046227           11 DSVSWMANNSATLLSPQSDGSHCWTFFSTAAYGKGNKVPLENMPTATASKVKTGMLEGVGAVAWPA   76 (86)
Q Consensus        11 ~~LsWia~nssKpg~~~r~~~e~WvlhsT~~ws~~hl~pqe~~p~~~~e~V~~~Ll~a~~~~lg~~   76 (86)
                      .++.|+.+++..|+..+..+...++++...+|+..+.   +..++.+.+++.+.+++.|++++|+.
T Consensus       342 ~~~~~~~~s~~~~~~~~~~~~~~l~~~~gg~~~~~~~---~~~~~~~~~~~~~~~~~~L~~~~g~~  404 (477)
T 3nks_A          342 GVLGIVYDSVAFPEQDGSPPGLRVTVMLGGSWLQTLE---ASGCVLSQELFQQRAQEAAATQLGLK  404 (477)
T ss_dssp             SEEEEECHHHHCGGGSTTTTCEEEEEEECHHHHHHHH---HSSCCCCHHHHHHHHHHHHHHHHCCC
T ss_pred             CceEEEEeccccCCCCCCCCceEEEEEECCccccccc---cccCCCCHHHHHHHHHHHHHHHhCCC
Confidence            3578876655556521111445677888899988763   11123467999999999999999874

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00