Citrus Sinensis ID: 031642

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150------
Protein Sequence
METTSSPTTLVVRRLLGYKYPRWLCCRKVPPNCCITTSCSYLWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEVV
Secondary Structure (PSIPRED)
cccccccHHHHHHHHHccccccEEEEcccccccEEEccccEEEEEEEcEEEEEEEcccHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHcccccEEEEEEccccccEEEEEEEccHHHHHHHHHHHHHHccccccEEcc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHcccccccEEEEcccccccEEEccccEEEEEEcccEEEEEcccHHHHHHHHHHHHHHHHccccEEcccccccEEEccccHHHHHHHHHHHHcccccEEEEEEEccccccEEEEEEcccHHHHHHHHHHHHHHcccccEEEEc
Coil and Loop (DISEMBL)
mettssptTLVVRRLLgykyprwlccrkvppnccittscsyLWYIKCQNVIILTATNVTELDKEWNCLIELLRSgglslmepytskslttnlsdleaAQPLSKlclefpdlhigcyrksrqgpliisfeGKDQARIEAAIESLFKKFHrgafsevv
Flexible Loop (DISEMBL)
mettsspttlvVRRLLGYKYPRWLCCRKVPPNCCITTSCSYLWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKfhrgafsevv
Low Complexity Region (SEG)
METTSSPTTLVVRRLLGYKYPRWLCCRKVPPNCCITTSCSYLWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEVV
Disordered region (IsUnstruct)
********TLVVRRLLGYKYPRWLCCRKVPPNCCITTSCSYLWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHR*******
Disordered Region (DISOPRED)
******P**LVVRRLLGYKYPRWLCCRKVPPNCCITTSCSYLWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEVV
Disordered Region (DISEMBL)
********TLVVRRLLGYKYPRWLCCRKVPPNCCITTSCSYLWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEVV
Disordered Region (DISPRO)
*****SPTTLVVRRLLGYKYPRWLCCRKVPPNCCITTSCSYLWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEVV
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
METTSSPTTLVVRRLLGYKYPRWLCCRKVPPNCCITTSCSYLWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEVV
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	156
225441189	514	PREDICTED: uncharacterized protein LOC10	0.711	0.215	0.758	6e-41
255556898	512	molybdopterin-binding, putative [Ricinus	0.711	0.216	0.705	7e-39
356572474	506	PREDICTED: uncharacterized protein LOC10	0.711	0.219	0.678	2e-36
357510801	502	FAD synthetase [Medicago truncatula] gi|	0.711	0.221	0.669	2e-36
449440409	512	PREDICTED: uncharacterized protein LOC10	0.705	0.214	0.648	7e-35
356505260	506	PREDICTED: uncharacterized protein LOC10	0.705	0.217	0.657	2e-34
297810413	497	phosphoadenosine phosphosulfate reductas	0.705	0.221	0.603	8e-32
14423558	497	putative protein [Arabidopsis thaliana]	0.705	0.221	0.594	1e-31
18414227	497	phosphoadenosine phosphosulfate (PAPS) r	0.705	0.221	0.594	1e-31
242056901	507	hypothetical protein SORBIDRAFT_03g00996	0.698	0.214	0.522	1e-24

>gi|225441189|ref|XP_002269812.1| PREDICTED: uncharacterized protein LOC100250368 [Vitis vinifera] gi|297739964|emb|CBI30146.3| unnamed protein product [Vitis vinifera]

 Score =  172 bits (435), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 85/112 (75%), Positives = 94/112 (83%), Gaps = 1/112 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGL-SLMEPYTSKSLTTNLSDLEAAQPLSK 103
           IKCQNV ILTATNVTELDKEW+CLIEL RS GL  LMEP+ SK +TTNLSD+EAAQ LSK
Sbjct: 402 IKCQNVFILTATNVTELDKEWDCLIELTRSSGLLVLMEPFLSKRMTTNLSDVEAAQALSK 461

Query: 104 LCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
           LC EFPDL+IGCYRKSR  PLIISFEGKDQ R+E+A+E+L KKF  G  SE 
Sbjct: 462 LCFEFPDLYIGCYRKSRLAPLIISFEGKDQTRLESAVEALSKKFPAGQISEA 513

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255556898|ref|XP_002519482.1| molybdopterin-binding, putative [Ricinus communis] gi|223541345|gb|EEF42896.1| molybdopterin-binding, putative [Ricinus communis]

 Score =  165 bits (417), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 79/112 (70%), Positives = 93/112 (83%), Gaps = 1/112 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGL-SLMEPYTSKSLTTNLSDLEAAQPLSK 103
           IKCQNVIIL ATN+ ELD+EW CL E  RS GL + MEP+ +K LTTN+SD+E AQPLSK
Sbjct: 400 IKCQNVIILAATNIGELDREWECLTEFTRSYGLLATMEPFAAKRLTTNISDVEIAQPLSK 459

Query: 104 LCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
           LCLEFPDL+IG YRKSR G LII+FEGK QARI++A+E+L KKFH G FSE+
Sbjct: 460 LCLEFPDLNIGVYRKSRNGTLIITFEGKKQARIDSAVEALRKKFHPGVFSEM 511

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572474|ref|XP_003554393.1| PREDICTED: uncharacterized protein LOC100816619 [Glycine max]

 Score =  156 bits (395), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 76/112 (67%), Positives = 94/112 (83%), Gaps = 1/112 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGL-SLMEPYTSKSLTTNLSDLEAAQPLSK 103
           IKC+NVIIL+ATNV EL+K+W+C IEL +S  L +L+EPY SK +TTNLSD+E AQPLSK
Sbjct: 394 IKCENVIILSATNVPELEKQWDCWIELAKSSDLLALLEPYVSKDVTTNLSDVEIAQPLSK 453

Query: 104 LCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
           LCLEFPDL+IGCYRK+R G LI+SF+GKD  RIE+AI++L KKF   AF E+
Sbjct: 454 LCLEFPDLYIGCYRKARYGSLIVSFKGKDLTRIESAIKALHKKFQPSAFVEM 505

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357510801|ref|XP_003625689.1| FAD synthetase [Medicago truncatula] gi|355500704|gb|AES81907.1| FAD synthetase [Medicago truncatula] gi|388512539|gb|AFK44331.1| unknown [Medicago truncatula]

 Score =  156 bits (395), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 75/112 (66%), Positives = 97/112 (86%), Gaps = 1/112 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGL-SLMEPYTSKSLTTNLSDLEAAQPLSK 103
           +KCQNVIIL+AT+++E++K+W+CLIEL +S  L +L+EP+ SK +TTNLSD+E AQPLSK
Sbjct: 390 MKCQNVIILSATDISEMEKQWDCLIELTKSSDLLTLLEPFISKHVTTNLSDVEIAQPLSK 449

Query: 104 LCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
           LCLEFPDL IGCYRK+R G +IISF+GKD AR+E+AIE+L KKF  GAF E+
Sbjct: 450 LCLEFPDLCIGCYRKARYGSVIISFKGKDPARLESAIEALQKKFTSGAFVEM 501

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440409|ref|XP_004137977.1| PREDICTED: uncharacterized protein LOC101215823 [Cucumis sativus] gi|449501110|ref|XP_004161280.1| PREDICTED: uncharacterized LOC101215823 [Cucumis sativus]

 Score =  151 bits (382), Expect = 7e-35,   Method: Compositional matrix adjust.
 Identities = 72/111 (64%), Positives = 91/111 (81%), Gaps = 1/111 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGL-SLMEPYTSKSLTTNLSDLEAAQPLSK 103
           IKC NVI+LTATN+TELD +W+CLIEL R+G L  L+EPY SK LTT LSD+E A  L+K
Sbjct: 394 IKCHNVIVLTATNLTELDLQWDCLIELTRTGDLFPLLEPYKSKHLTTKLSDVEIAPSLAK 453

Query: 104 LCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSE 154
           LCLEFPD+HIGCYR++R GP+IISF+GK++ R + A E+L KKF  GAF++
Sbjct: 454 LCLEFPDIHIGCYREARSGPIIISFKGKNEERNQLAAEALSKKFQPGAFTD 504

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505260|ref|XP_003521410.1| PREDICTED: uncharacterized protein LOC100795114 [Glycine max]

 Score =  150 bits (378), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 73/111 (65%), Positives = 92/111 (82%), Gaps = 1/111 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGL-SLMEPYTSKSLTTNLSDLEAAQPLSK 103
           IKC+NVIIL+ATNV E++K+W+C IEL +S  L +L+EPY SK +TT+LSD+E AQPLSK
Sbjct: 394 IKCENVIILSATNVPEMEKQWDCWIELAKSSDLLALLEPYVSKHVTTSLSDVEIAQPLSK 453

Query: 104 LCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSE 154
           LCLEFPDL+IGCYR +R G LI+SF+GKD  RIE+AI++L KKF   AF E
Sbjct: 454 LCLEFPDLYIGCYRNARYGSLIVSFKGKDLTRIESAIKALQKKFQPSAFIE 504

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297810413|ref|XP_002873090.1| phosphoadenosine phosphosulfate reductase family protein [Arabidopsis lyrata subsp. lyrata] gi|297318927|gb|EFH49349.1| phosphoadenosine phosphosulfate reductase family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  141 bits (356), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 67/111 (60%), Positives = 88/111 (79%), Gaps = 1/111 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKL 104
           IKC+NVI+L ATN  EL+KEW CL EL + GG SL+E Y+S+ L T+L+D+E A+PLSKL
Sbjct: 387 IKCRNVIVLAATNTEELEKEWECLTELTKLGGGSLIE-YSSRRLMTSLTDVEVAEPLSKL 445

Query: 105 CLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
            LEFPD+++GCYRKSRQGP+II   GKD ARI++A ++L KKF +  F E+
Sbjct: 446 GLEFPDIYLGCYRKSRQGPIIICLTGKDNARIDSAAQALCKKFKKDVFVEI 496

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|14423558|gb|AAK62461.1|AF387016_1 putative protein [Arabidopsis thaliana] gi|20148293|gb|AAM10037.1| putative protein [Arabidopsis thaliana]

 Score =  141 bits (355), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 66/111 (59%), Positives = 88/111 (79%), Gaps = 1/111 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKL 104
           IKC+NVI+L ATN  EL+KEW CL EL + GG SL+E Y+S+ L T+L+D+E A+PLSKL
Sbjct: 387 IKCRNVIVLAATNTEELEKEWECLTELTKLGGGSLIE-YSSRRLMTSLTDVEVAEPLSKL 445

Query: 105 CLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
            LEFPD+++GCYRKSRQGP+II   GKD AR+++A ++L KKF +  F E+
Sbjct: 446 GLEFPDIYLGCYRKSRQGPIIICLTGKDNARMDSAAQALRKKFKKDVFVEI 496

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18414227|ref|NP_568117.1| phosphoadenosine phosphosulfate (PAPS) reductase family protein [Arabidopsis thaliana] gi|7378626|emb|CAB83302.1| putative protein [Arabidopsis thaliana] gi|332003219|gb|AED90602.1| phosphoadenosine phosphosulfate (PAPS) reductase family protein [Arabidopsis thaliana]

 Score =  141 bits (355), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 66/111 (59%), Positives = 88/111 (79%), Gaps = 1/111 (0%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKL 104
           IKC+NVI+L ATN  EL+KEW CL EL + GG SL+E Y+S+ L T+L+D+E A+PLSKL
Sbjct: 387 IKCRNVIVLAATNTEELEKEWECLTELTKLGGGSLIE-YSSRRLMTSLTDVEVAEPLSKL 445

Query: 105 CLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
            LEFPD+++GCYRKSRQGP+II   GKD AR+++A ++L KKF +  F E+
Sbjct: 446 GLEFPDIYLGCYRKSRQGPIIICLTGKDNARMDSAAQALRKKFKKDVFVEI 496

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242056901|ref|XP_002457596.1| hypothetical protein SORBIDRAFT_03g009960 [Sorghum bicolor] gi|241929571|gb|EES02716.1| hypothetical protein SORBIDRAFT_03g009960 [Sorghum bicolor]

 Score =  117 bits (294), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 58/111 (52%), Positives = 79/111 (71%), Gaps = 2/111 (1%)

Query: 45  IKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKL 104
           IKC+NVI L ATN+ ELD EW+CL++   SG L   +P+ SK L+T +SD++ A  L+KL
Sbjct: 395 IKCRNVIALGATNMVELDTEWDCLLDTQESG-LMPTKPFVSKHLSTTVSDVQIAPVLAKL 453

Query: 105 CLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
           CLEF D++IGC+R SR GPL+++  GKD  R++AA E L   F  G FS+V
Sbjct: 454 CLEFSDVYIGCHRISRAGPLVVNLTGKDNQRVDAAAEKLTSSF-EGQFSQV 503

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

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	156
TAIR|locus:2831849	497	AT5G03430 [Arabidopsis thalian	0.705	0.221	0.594	4.7e-32

TAIR|locus:2831849 AT5G03430 [Arabidopsis thaliana (taxid:3702)]

 Score = 351 (128.6 bits), Expect = 4.7e-32, P = 4.7e-32
 Identities = 66/111 (59%), Positives = 88/111 (79%)

Query:    45 IKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLTTNLSDLEAAQPLSKL 104
             IKC+NVI+L ATN  EL+KEW CL EL + GG SL+E Y+S+ L T+L+D+E A+PLSKL
Sbjct:   387 IKCRNVIVLAATNTEELEKEWECLTELTKLGGGSLIE-YSSRRLMTSLTDVEVAEPLSKL 445

Query:   105 CLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFSEV 155
              LEFPD+++GCYRKSRQGP+II   GKD AR+++A ++L KKF +  F E+
Sbjct:   446 GLEFPDIYLGCYRKSRQGPIIICLTGKDNARMDSAAQALRKKFKKDVFVEI 496


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        0.322   0.136   0.429    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      156       156   0.00073  106 3  11 22  0.46    31
                                                     30  0.42    34


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:  608 (65 KB)
  Total size of DFA:  162 KB (2095 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:  15.02u 0.09s 15.11t   Elapsed:  00:00:01
  Total cpu time:  15.02u 0.09s 15.11t   Elapsed:  00:00:01
  Start:  Thu May  9 17:17:48 2013   End:  Thu May  9 17:17:49 2013

GO:0003824 "catalytic activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006777 "Mo-molybdopterin cofactor biosynthetic process" evidence=IEA

GO:0008152 "metabolic process" evidence=IEA;ISS

GO:0016740 "transferase activity" evidence=ISS

GO:0019761 "glucosinolate biosynthetic process" evidence=RCA

---

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

Your Input:
	gw1.28.761.1	annotation not avaliable (500 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.VII.2337.1	hypothetical protein (379 aa)							•		0.410

---

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	156
PRK03670	252	competence damage-inducible protein A; Provisional	99.88
COG1058	255	CinA Predicted nucleotide-utilizing enzyme related	99.82
PRK00549	414	competence damage-inducible protein A; Provisional	99.7
PRK01215	264	competence damage-inducible protein A; Provisional	99.52
PRK03673	396	hypothetical protein; Provisional	99.42
TIGR00200	413	cinA_nterm competence/damage-inducible protein Cin	99.17
cd00885	170	cinA Competence-damaged protein. CinA is the first	97.99
PF00936	75	BMC: BMC domain; InterPro: IPR000249 This domain i	84.1
cd07049	103	BMC_EutL_repeat1 ethanolamine utilization protein	83.8
cd07046	110	BMC_PduU-EutS 1,2-propanediol utilization protein	83.15

>PRK03670 competence damage-inducible protein A; Provisional

Probab=99.88  E-value=2e-22  Score=168.96  Aligned_cols=109  Identities=14%  Similarity=0.133  Sum_probs=94.9

Q ss_pred             CCCCc-eeeCCCcccceeEeC----eEEEecCCCCchH-HHHHHH-HHHhHHhCCCccCCceEEEEEEec-CCchhhhhh
Q 031642           29 VPPNC-CITTSCSYLWYIKCQ----NVIILTATNVTEL-DKEWNC-LIELLRSGGLSLMEPYTSKSLTTN-LSDLEAAQP  100 (156)
Q Consensus        29 ~~~~~-~I~NpvS~APGF~ig----NV~VMAGV~VP~I-~aMl~~-l~p~L~~G~L~~gap~~S~tv~~~-~~Eg~IA~~  100 (156)
                      +|.++ -|+||+..||||.++    |||+|+|  ||+. +.||+. ++|.|.+      .+++++++.+. .+||+||+.
T Consensus       128 ~P~ga~~l~N~~g~ApG~~~~~~~~~v~~lPG--vP~e~~~M~~~~v~p~l~~------~~~~~~~~~~~~~~Es~la~~  199 (252)
T PRK03670        128 LPEGAEPLENTEGAAPGAYIEHKGTKIFVLPG--MPREMKAMLEKEVLPRLGE------RKFVQKKFLAEITDESKLAPI  199 (252)
T ss_pred             CCCCCEECCCCCCcCceEEEEECCeEEEEeCC--ChHHHHHHHHHHHHHhhcc------CCeEEEEEEeCCCCHHHHHHH
Confidence            55554 589999999999999    8999999  7997 779998 9999743      46889988876 899999999


Q ss_pred             HHHHHHhCCCceeeccccccCCCeEEEEEecCHHHHHHHHHHHHhh
Q 031642          101 LSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKK  146 (156)
Q Consensus       101 L~~Iq~~~Pdv~IGSYP~~~~g~~~lVvRG~D~~~l~aA~~~l~~~  146 (156)
                      |++++++|+ |+|||||+..+.++.|++||.|++++++|.++|++.
T Consensus       200 l~~~~~~~~-v~igSyP~~~~~~~~l~~~g~~~~~~~~a~~~l~~~  244 (252)
T PRK03670        200 LEEALERFN-VKIHSSPKGFGKYIGIIIFAEDEEEIEKAVEFMEER  244 (252)
T ss_pred             HHHHHHHCC-ceEecCCCCCCCcEEEEEEECCHHHHHHHHHHHHHh
Confidence            999999996 999999983334678999999999999999999654

>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]

Probab=99.82  E-value=1.4e-19  Score=153.33  Aligned_cols=117  Identities=21%  Similarity=0.241  Sum_probs=101.8

Q ss_pred             CCCCc-eeeCCCcccceeEeC----eEEEecCCCCchH-HHHHHHHHHhHHhCCCccCCceEEEEEEec-CCchhhhhhH
Q 031642           29 VPPNC-CITTSCSYLWYIKCQ----NVIILTATNVTEL-DKEWNCLIELLRSGGLSLMEPYTSKSLTTN-LSDLEAAQPL  101 (156)
Q Consensus        29 ~~~~~-~I~NpvS~APGF~ig----NV~VMAGV~VP~I-~aMl~~l~p~L~~G~L~~gap~~S~tv~~~-~~Eg~IA~~L  101 (156)
                      +|.+| =|+||++.||||.++    |||+|||  ||+. +.||+..++++.++ .-...++.|+++++. .+||.||+.|
T Consensus       121 ~P~Ga~~l~NpvG~APG~~v~~~~~~v~~lPG--vP~Em~~M~e~~~~~~l~~-~~~~~~~~~~~~~~~gi~ES~la~~L  197 (255)
T COG1058         121 LPEGAEVLDNPVGTAPGFVVEGNGKNVYVLPG--VPSEMKPMFENVLLPLLTG-RFPSTKYYSRVLRVFGIGESSLAPTL  197 (255)
T ss_pred             CCCCCEeCCCCCCCCCeeEEecCCeEEEEeCC--CCHHHHHHHHHHHHHHhhc-cCCCCceEEEEEEEcCCChHHHHHHH
Confidence            56665 478999999999999    9999999  7996 88999999998766 222378999999998 8999999999


Q ss_pred             HHHHHhCCCceeeccccccCCCe-E--EEEEecCHHHHHHHHHHHHhhhc
Q 031642          102 SKLCLEFPDLHIGCYRKSRQGPL-I--ISFEGKDQARIEAAIESLFKKFH  148 (156)
Q Consensus       102 ~~Iq~~~Pdv~IGSYP~~~~g~~-~--lVvRG~D~~~l~aA~~~l~~~~~  148 (156)
                      .+++++||+++|+|||++.+..+ .  |..++.|.+.++++.+++.+++.
T Consensus       198 ~~i~~~~~~~~i~s~p~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~  247 (255)
T COG1058         198 KDLQDEQPNVTIASYPKDGEVRLRELVIRAEARDEEEADALLRWLEGRLR  247 (255)
T ss_pred             HHHHhcCCCCEEEecCCCCceeccceEEEEecCCHHHHHHHHHHHHHHHH
Confidence            99999999999999998876644 3  55555999999999999998875

>PRK00549 competence damage-inducible protein A; Provisional

Probab=99.70  E-value=9.3e-17  Score=142.11  Aligned_cols=123  Identities=14%  Similarity=0.141  Sum_probs=98.1

Q ss_pred             cCCCCce-eeCCCcccceeEeC----eEEEecCCCCchH-HHHHHH-HHHhHHhCCCccCCceEEEEEEec-CCchhhhh
Q 031642           28 KVPPNCC-ITTSCSYLWYIKCQ----NVIILTATNVTEL-DKEWNC-LIELLRSGGLSLMEPYTSKSLTTN-LSDLEAAQ   99 (156)
Q Consensus        28 ~~~~~~~-I~NpvS~APGF~ig----NV~VMAGV~VP~I-~aMl~~-l~p~L~~G~L~~gap~~S~tv~~~-~~Eg~IA~   99 (156)
                      .+|.++- |+||+..||||.++    +||+|||  ||+. +.||+. +.|.|+.- +..+.++.++++++. ++|++||+
T Consensus       119 ~~P~ga~~l~N~~GtApG~~~~~~~~~i~~lPG--vP~Em~~m~~~~v~p~l~~~-~~~~~~~~~~~l~~~gi~Es~l~~  195 (414)
T PRK00549        119 LIPEGATVLPNPVGTAPGMIIEVDGKTYIVLPG--PPSELKPMFEEYVVPYLSSA-KGTGEVLYSRVLRFFGIGESQLAT  195 (414)
T ss_pred             cCCCCCEECcCCCCcCCeEEEEECCEEEEEeCC--CcHHHHHHHHHHhHHHHHhh-cCCCceEEEEEEEEcCCCHHHHHH
Confidence            4666665 57999999999998    5999999  7996 779998 88998742 122357899999875 79999999


Q ss_pred             hHHHHHHhCCCceeeccccccCCCeEEEEEecCHHHHHHHHH----HHHhhhccCCcc
Q 031642          100 PLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIE----SLFKKFHRGAFS  153 (156)
Q Consensus       100 ~L~~Iq~~~Pdv~IGSYP~~~~g~~~lVvRG~D~~~l~aA~~----~l~~~~~~~~f~  153 (156)
                      .|++++.+||+++||+||++..-.+.|+++|.|.++++++.+    +|++.+.+..|+
T Consensus       196 ~L~~l~~~~~~v~ig~~~~~~~~~vrl~~~~~~~~~~~~~~~~~~~~i~~~lg~~~~~  253 (414)
T PRK00549        196 TLRDLIDNQTNPTIAPYAKDGEVTLRLTAKARSEEEAEKLIDPLEEEIRDRVGDYFYG  253 (414)
T ss_pred             HHHHHHhcCCCCEEEECccCCEEEEEEEEecCCHHHHHHHHHHHHHHHHHHhccceec
Confidence            999999999999999999763335679999999988776555    455555555553

>PRK01215 competence damage-inducible protein A; Provisional

Probab=99.52  E-value=1.9e-13  Score=115.28  Aligned_cols=112  Identities=13%  Similarity=0.199  Sum_probs=86.5

Q ss_pred             cCCCCc-eeeCCCcccceeEeC----eEEEecCCCCchH-HHHHHH-HHHhHHhCCCccCCceEEEEEEec-CCchhhhh
Q 031642           28 KVPPNC-CITTSCSYLWYIKCQ----NVIILTATNVTEL-DKEWNC-LIELLRSGGLSLMEPYTSKSLTTN-LSDLEAAQ   99 (156)
Q Consensus        28 ~~~~~~-~I~NpvS~APGF~ig----NV~VMAGV~VP~I-~aMl~~-l~p~L~~G~L~~gap~~S~tv~~~-~~Eg~IA~   99 (156)
                      -+|.++ .|+||+..||||.+.    +||+|+|  +|+- ..||+. +.|.|+.=   .+..+.++++++. ++|++||+
T Consensus       122 ~~P~ga~~l~N~~Gtapg~~~~~~~~~i~~LPG--~P~e~~~m~~~~v~p~l~~~---~~~~~~~~~~~~~Gi~Es~l~~  196 (264)
T PRK01215        122 MMPPGAVPLENPVGTAPGILIEHGGKDIVALPG--VPREMEAIFENFVEPLLKNR---PPLKYYEDSILVEGVMESDLAP  196 (264)
T ss_pred             eCCCCCEecCCCCCcCCeEEEEECCEEEEEeCC--ChHHHHHHHHHHHHHHHhcc---CCCcEEEEEEEECCCCHHHHHH
Confidence            356554 588999999999875    5999999  7996 779998 77988631   1257889999976 79999999


Q ss_pred             hHHHHHHhCCCceeecccc-cc--CCC--eEEEEEecCHHHHHHHHHHHH
Q 031642          100 PLSKLCLEFPDLHIGCYRK-SR--QGP--LIISFEGKDQARIEAAIESLF  144 (156)
Q Consensus       100 ~L~~Iq~~~Pdv~IGSYP~-~~--~g~--~~lVvRG~D~~~l~aA~~~l~  144 (156)
                      .|.++..+||++.|||||. +.  .+.  +.|+.+|.|.+..++..+++.
T Consensus       197 ~l~~l~~~~~~~~~~s~p~~~~~~~~~v~vrl~~~~~~~~~~~~~~~~~~  246 (264)
T PRK01215        197 YVKELVKKYDRVYVKSHPKGYEVSKPILEIQIAGSGEREEEAKVKVEKVL  246 (264)
T ss_pred             HHHHHHHhCCCCEEecCccceecCCCeEEEEEEEecCCHHHHHHHHHHHH
Confidence            9999999999999999965 22  223  357777888777666444333

>PRK03673 hypothetical protein; Provisional

Probab=99.42  E-value=1.5e-12  Score=115.85  Aligned_cols=121  Identities=18%  Similarity=0.124  Sum_probs=96.1

Q ss_pred             CCCCc-eeeCCCcccceeEeC----eEEEecCCCCchH-HHHHHH-HHHhHHhCCCccCCceEEEEEEec-CCchhhhhh
Q 031642           29 VPPNC-CITTSCSYLWYIKCQ----NVIILTATNVTEL-DKEWNC-LIELLRSGGLSLMEPYTSKSLTTN-LSDLEAAQP  100 (156)
Q Consensus        29 ~~~~~-~I~NpvS~APGF~ig----NV~VMAGV~VP~I-~aMl~~-l~p~L~~G~L~~gap~~S~tv~~~-~~Eg~IA~~  100 (156)
                      +|.++ .|+||+..||||.++    +||+|||  ||+- +.||+. +.|.|+.- +.....+.++++.+. .+|+++++.
T Consensus       121 ~P~ga~~l~N~~GtApG~~~~~~~~~i~~LPG--vP~Emk~M~~~~v~p~L~~~-~~~~~~~~~~~l~~~Gi~ES~l~~~  197 (396)
T PRK03673        121 LPASAEMIDNPVGTACGFALQLNRCLMFFTPG--VPSEFKVMVEQEILPRLRER-FSLPEPPLCLRLTTFGRSESDLAQS  197 (396)
T ss_pred             CCCCCeeccCCCccCCcEEEEECCEEEEEECC--ChHHHHHHHHHHHHHHHHhh-cCCCCceEEEEEEECCCCHHHHHHH
Confidence            45554 578999999999996    3999999  7996 779977 99998752 222235778888765 799999999


Q ss_pred             HHHHHHhCCCceeeccccccCCCeEEEEEecCHHHHHHHHHHHHhhhccCCcc
Q 031642          101 LSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRGAFS  153 (156)
Q Consensus       101 L~~Iq~~~Pdv~IGSYP~~~~g~~~lVvRG~D~~~l~aA~~~l~~~~~~~~f~  153 (156)
                      |++++ ..+++.||-|+.+..-.+.|+.++.|.+.++++.++|++.+.+..|.
T Consensus       198 l~~l~-~~~~~~i~~~~~~~~v~vrlt~~~~~~~~~~~~~~~i~~~lg~~v~~  249 (396)
T PRK03673        198 LDPLP-LPPGVVMGYRSSMPIIELKLTGPASQRQAMEQLWQQVRRVAGQSVIF  249 (396)
T ss_pred             HHHHh-cCCCCEEeecCCCCeEEEEEEEccCCHHHHHHHHHHHHHHhCCcEEE
Confidence            99997 45799999887653335678888999877888999999988776664

>TIGR00200 cinA_nterm competence/damage-inducible protein CinA N-terminal domain

Probab=99.17  E-value=3.2e-10  Score=101.29  Aligned_cols=122  Identities=11%  Similarity=0.017  Sum_probs=92.4

Q ss_pred             CCCCc-eeeCCCcccceeEe-C--e--EEEecCCCCchH-HHHHHH-HHHhHHhCCCccCCceEEEEEEec-CCchhhhh
Q 031642           29 VPPNC-CITTSCSYLWYIKC-Q--N--VIILTATNVTEL-DKEWNC-LIELLRSGGLSLMEPYTSKSLTTN-LSDLEAAQ   99 (156)
Q Consensus        29 ~~~~~-~I~NpvS~APGF~i-g--N--V~VMAGV~VP~I-~aMl~~-l~p~L~~G~L~~gap~~S~tv~~~-~~Eg~IA~   99 (156)
                      +|.++ .|+||+..||||.+ .  |  ||.|+|  ||+- +.||+. +.|.|+.- +.....+.++++++. .+|+++++
T Consensus       120 ~p~ga~~l~N~~G~APG~~~~~~~~~~i~~LPG--~P~e~~~m~~~~v~p~l~~~-~~~~~~~~~~~~~~~Gi~ES~l~~  196 (413)
T TIGR00200       120 LPAGAEFLANPVGTAPGMFAVQLNRCLMLFTPG--VPSEFRVMVEHEALPRLRER-FSLPQPIVSLVLRFFGIGESQLEA  196 (413)
T ss_pred             CCCCCEECCCCCCCCCeeEEEecCCEEEEEeCC--CcHHHHHHHHHHhhHHHHHh-cCCCceEEEEEEEECCCCHHHHHH
Confidence            45554 67999999999544 3  4  667999  7996 779987 78998642 112246889999876 89999999


Q ss_pred             hHHHHHHhCCCceeeccccccCCCeEEEEEecCHHHHHH----HHHHHHhhhccCCcc
Q 031642          100 PLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEA----AIESLFKKFHRGAFS  153 (156)
Q Consensus       100 ~L~~Iq~~~Pdv~IGSYP~~~~g~~~lVvRG~D~~~l~a----A~~~l~~~~~~~~f~  153 (156)
                      .|.++..++++..++-|++..+..+.++.++.|.+..++    +.++|++.+.+..|+
T Consensus       197 ~l~~~~~~~~~~~~~~~~~~~~v~vrl~~~~~~~~~a~~~~~~~~~~i~~~lg~~~~~  254 (413)
T TIGR00200       197 DLADSLDTLTNPTGAPMAYRGEVPLRELKLTGPESEQQRAMEKLWLDIKRVAGQSVIG  254 (413)
T ss_pred             HHHHHHhcCCCCeEEEecCCCeEEEEEEEecCCHHHHHHHHHHHHHHHHHHhCcceec
Confidence            999999999999999999764445679999988776655    555566666655553

cinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species

>cd00885 cinA Competence-damaged protein

Probab=97.99  E-value=9.5e-06  Score=64.44  Aligned_cols=45  Identities=16%  Similarity=0.189  Sum_probs=38.6

Q ss_pred             cCCCCcee-eCCCcccceeEeC----eEEEecCCCCchH-HHHHH-HHHHhHHh
Q 031642           28 KVPPNCCI-TTSCSYLWYIKCQ----NVIILTATNVTEL-DKEWN-CLIELLRS   74 (156)
Q Consensus        28 ~~~~~~~I-~NpvS~APGF~ig----NV~VMAGV~VP~I-~aMl~-~l~p~L~~   74 (156)
                      .+|.++-+ .|++..||||.++    |||+|+|  ||+. ++||+ .+.|.|+.
T Consensus       118 ~~p~ga~~i~N~~G~apg~~~~~~~~~i~~lPG--~P~e~~~m~~~~~~~~l~~  169 (170)
T cd00885         118 MLPEGATLLPNPVGTAPGFSVEHNGKNVFLLPG--VPSEMKPMLEEEVLPRLRE  169 (170)
T ss_pred             cCCCCCEECcCCCCEeeEEEEEeCCeEEEEECC--ChHHHHHHHHHHHHHHHhc
Confidence            36777765 9999999999999    8999999  7996 88999 68898753

CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.

>PF00936 BMC: BMC domain; InterPro: IPR000249 This domain is found in a variety of polyhedral organelle shell proteins, including CsoS1A, CsoS1B and CsoS1C of Thiobacillus neapolitanus (Halothiobacillus neapolitanus) and their orthologs from other bacteria

Probab=84.10  E-value=2.1  Score=29.88  Aligned_cols=48  Identities=13%  Similarity=0.189  Sum_probs=41.0

Q ss_pred             HHHHHhCCCceeeccccccCCCeEEEEEecCHHHHHHHHHHHHhhhccC
Q 031642          102 SKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHRG  150 (156)
Q Consensus       102 ~~Iq~~~Pdv~IGSYP~~~~g~~~lVvRG~D~~~l~aA~~~l~~~~~~~  150 (156)
                      .+.+.+.-||++..|-...+|.+.+.++| |...+++|+++..+.+.+.
T Consensus        18 aD~alKaa~V~l~~~~~~~~g~~~~~i~G-~vs~V~~Av~a~~~~~~~~   65 (75)
T PF00936_consen   18 ADAALKAANVELVEIELICGGKVTVIITG-DVSAVKAAVDAAEEAAGKK   65 (75)
T ss_dssp             HHHHHHHSSEEEEEEEEESTTEEEEEEEE-SHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhhcCCEEEEEEEecCCCeEEEEEEE-CHHHHHHHHHHHHHHHhhc
Confidence            45667778999999998886777899999 9999999999999988654

Some autotrophic and non-autotrophic organisms form polyhedral organelles, carboxysomes/enterosomes []. The best studied is the carboxysome of Halothiobacillus neapolitanus, which is composed of at least 9 proteins: six shell proteins, CsoS1A, CsoS1B, CsoS1C, Cso2A, Cso2B and CsoS3 (carbonic anhydrase) [], one protein of unknown function and the large and small subunits of RuBisCo (CbbL and Cbbs). Carboxysomes appear to be approximately 120 nm in diameter, most often observed as regular hexagons, with a solid interior bounded by a unilamellar protein shell. The interior is filled with type I RuBisCo, which is composed of 8 large subunits and 8 small subunits; it accounts for 60% of the carboxysomal protein, which amounts to approximately 300 molecules of enzyme per carboxysome. Carboxysomes are required for autotrophic growth at low CO2 concentrations and are thought to function as part of a CO2-concentrating mechanism [, ]. Polyhedral organelles, enterosomes, from non-autotrophic organisms are involved in coenzyme B12-dependent 1,2-propanediol utilisation (e.g., in Salmonella enterica []) and ethanolamine utilisation (e.g., in Salmonella typhimurium []). Genes needed for enterosome formation are located in the 1,2-propanediol utilisation pdu [, ] or ethanolamine utilisation eut [, ] operons, respectively. Although enterosomes of non-autotrophic organisms are apparently related to carboxysomes structurally, a functional relationship is uncertain. A role in CO2 concentration, similar to that of the carboxysome, is unlikely since there is no known association between CO2 and coenzyme B12-dependent 1,2-propanediol or ethanolamine utilisation []. It seems probable that entrosomes help protect the cells from reactive aldehyde species in the degradation pathways of 1,2-propanediol and ethanolamine [].; PDB: 3F56_C 3FCH_A 3I87_A 3GFH_B 3I82_A 3MPV_A 3IO0_A 4AXJ_B 3N79_A 2G13_A ....

>cd07049 BMC_EutL_repeat1 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1

Probab=83.80  E-value=2.8  Score=32.09  Aligned_cols=65  Identities=15%  Similarity=0.244  Sum_probs=47.0

Q ss_pred             EEEEEec-CCchhhhhhHHHHHHhCCCceeecccccc-----------CCCeEEEEEecCHHHHHHHHHHHHhhhccCCc
Q 031642           85 SKSLTTN-LSDLEAAQPLSKLCLEFPDLHIGCYRKSR-----------QGPLIISFEGKDQARIEAAIESLFKKFHRGAF  152 (156)
Q Consensus        85 S~tv~~~-~~Eg~IA~~L~~Iq~~~Pdv~IGSYP~~~-----------~g~~~lVvRG~D~~~l~aA~~~l~~~~~~~~f  152 (156)
                      |--+-+. -+|..|-+  .+++.+--||+|| ||...           .|.+.+.+-|.|.+.+++|.+++.+.++..++
T Consensus        26 sIGIlt~~~~e~~iiA--~DeAtKaa~vev~-~~~~f~gGa~h~~~~~sG~vi~ii~G~dvsdV~sal~~~l~~l~~~~~  102 (103)
T cd07049          26 SLGIITADSDDVTYTA--LDEATKAAEVEVV-YARSFYAGAAHASTPLAGEVIGILAGPSPAEVRSGLNAAIDFIENEAY  102 (103)
T ss_pred             eEEEEEeCCCcceeeh--hhhhhhhcCeEEE-EEeecccccccCccCCCccEEEEEeCCCHHHHHHHHHHHHHHHhcccC
Confidence            4444333 46765544  4677788899999 88755           22345669999999999999999999987654

EutL proteins are homologs of the carboxysome shell protein. They are encoded within the eut operon and might be required for the formation of the outer shell of the bacterial eut polyhedral organelles which are involved in the cobalamin-dependent degradation of ethanolamine. Although it has been suggested that EutL might form hexamers and further assemble into the flat facets of the polyhedral outer shell of the eut organelles at present no experimental evidence directly supports this view. EutL proteins contain two tandem BMC domains. This CD includes domain 1 (the first BMC domain of EutL).

>cd07046 BMC_PduU-EutS 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain

Probab=83.15  E-value=12  Score=28.62  Aligned_cols=92  Identities=13%  Similarity=0.135  Sum_probs=55.6

Q ss_pred             cceeEeCeEEEecCCCCchHHHHHHHHHHhHHhCCCccCCceEEEEEE-ecCCchhhhhhHHHHHHhCCCceeecccccc
Q 031642           42 LWYIKCQNVIILTATNVTELDKEWNCLIELLRSGGLSLMEPYTSKSLT-TNLSDLEAAQPLSKLCLEFPDLHIGCYRKSR  120 (156)
Q Consensus        42 APGF~igNV~VMAGV~VP~I~aMl~~l~p~L~~G~L~~gap~~S~tv~-~~~~Eg~IA~~L~~Iq~~~Pdv~IGSYP~~~  120 (156)
                      -||.++-=.||++.+ =|++..       .|.   +..+.. -|--+- +.--|+.|.+ + +.+.+--||++|+++.+ 
T Consensus         8 v~gk~i~~~~vI~~v-~~~l~~-------~l~---~~~~~~-~alGile~~~~~~~i~A-a-D~A~KaA~Vel~~~~~~-   72 (110)
T cd07046           8 VPGKQITLAHLIANP-DPEIYQ-------KLG---LNPGVD-EAIGILTITPSEAAIIA-A-DIATKAADVEIGFLDRF-   72 (110)
T ss_pred             cCcceEEEEEEecCC-CHHHHH-------HhC---CCCCcC-ceEEEEEecCHHHHHHH-H-HHHHhhcCeEEEEEeCC-
Confidence            488888888888884 344422       221   111121 122222 2334443433 2 33444459999998744 


Q ss_pred             CCCeEEEEEecCHHHHHHHHHHHHhhhccCC
Q 031642          121 QGPLIISFEGKDQARIEAAIESLFKKFHRGA  151 (156)
Q Consensus       121 ~g~~~lVvRG~D~~~l~aA~~~l~~~~~~~~  151 (156)
                        .-.+++.| |.+.+++|+++..+.+++..
T Consensus        73 --~g~vii~G-dvsaV~aAl~a~~~~~~~~~  100 (110)
T cd07046          73 --SGALVITG-DVSEVESALEAVVDYLRETL  100 (110)
T ss_pred             --eEEEEEEE-CHHHHHHHHHHHHHHHhhcc
Confidence              22567999 99999999999999997654

PduU encapsulates several related enzymes within a shell composed of a few thousand protein subunits. PduU exists as a hexamer which might further assemble into the flat facets of the polyhedral outer shell of the pdu organelle. This proteinaceous noncarboxysome microcompartment is involved in coenzyme B12-dependent degradation of 1,2-propanediol. The core of PduU is related to the typical BMC domain and its natural oligomeric state is a cyclic hexamer. Unlike other typical BMC domain proteins, the 3D topology of PduU reveals a circular permuted variation on the typical BMC fold which leads to several unique features. The exact functions related to those unique features are still not clear. Another difference is the presence of a deep cavity on one side of the hexamer as well as an intermolecular six-stranded beta barrel that seems to

---

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	156
3kbq_A	172	Protein TA0487; structural genomics, CINA, protein	98.37
2ctf_A	102	Vigilin; K homology type I domain, RNA-binding, ce	88.65
3cim_A	99	Carbon dioxide-concentrating mechanism protein CC	82.47

>3kbq_A Protein TA0487; structural genomics, CINA, protein structure initiative, MCS midwest center for structural genomics, unknown function; 2.00A {Thermoplasma acidophilum}

Probab=98.37  E-value=2.9e-07  Score=72.67  Aligned_cols=43  Identities=23%  Similarity=0.390  Sum_probs=38.1

Q ss_pred             CCCCce-eeCCCcccceeEeC----eEEEecCCCCchH-HHHHHHHHHhHH
Q 031642           29 VPPNCC-ITTSCSYLWYIKCQ----NVIILTATNVTEL-DKEWNCLIELLR   73 (156)
Q Consensus        29 ~~~~~~-I~NpvS~APGF~ig----NV~VMAGV~VP~I-~aMl~~l~p~L~   73 (156)
                      +|.++- |+||+..||||+++    |||+|+|  ||+. +.||+.+.|+|.
T Consensus       121 ~P~ga~~l~N~~g~apG~~~~~~~~~v~~lPG--vP~e~~~m~~~~~~~~~  169 (172)
T 3kbq_A          121 IPPSCRPIENPVGTAPGLICAVGGKKVIILPG--VPKEMEALLKAMEKDII  169 (172)
T ss_dssp             ECTTEEEECCSSSSSCEEEEEETTEEEEEECS--SHHHHHHHHHHTHHHHC
T ss_pred             CCCCCEECcCCCCcCCeEEEEECCeEEEEeCC--CHHHHHHHHHHHHhhcC
Confidence            577765 79999999999998    8999999  7997 789999999873

>2ctf_A Vigilin; K homology type I domain, RNA-binding, cell sterol metabolism, beta-alpha-alpha-beta-BETA-alpha structure, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.51.1.1

Probab=88.65  E-value=0.89  Score=32.44  Aligned_cols=46  Identities=26%  Similarity=0.446  Sum_probs=38.5

Q ss_pred             hhhHHHHHHhCCCceeeccccccCCCeEEEEEecCHHHHHHHHHHHHhhhc
Q 031642           98 AQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFH  148 (156)
Q Consensus        98 A~~L~~Iq~~~Pdv~IGSYP~~~~g~~~lVvRG~D~~~l~aA~~~l~~~~~  148 (156)
                      .+-+.+|..+|+++.|- +|.   +.=.|+++|. .+.+++|.+.|.+++.
T Consensus        46 G~~Ik~i~~~~~~v~I~-fp~---~~~~ItI~G~-~~~V~~a~~~I~~~v~   91 (102)
T 2ctf_A           46 GQNLAKITQQMPKVHIE-FTE---GEDKITLEGP-TEDVSVAQEQIEGMVK   91 (102)
T ss_dssp             TCHHHHHHHHCSSSEEE-ECS---SSCEEEEEEC-HHHHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHcCCcEEE-eCC---CCCEEEEECC-HHHHHHHHHHHHHHHH
Confidence            45689999999999994 664   2337999999 9999999999998875

>3cim_A Carbon dioxide-concentrating mechanism protein CC 2; hexamer, structural protein; 1.30A {Synechocystis SP} PDB: 3dnc_A 3dn9_A

Probab=82.47  E-value=1.6  Score=31.56  Aligned_cols=46  Identities=15%  Similarity=0.289  Sum_probs=38.7

Q ss_pred             HHHHhCCCceeeccccccCCCeEEEEEecCHHHHHHHHHHHHhhhcc
Q 031642          103 KLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFHR  149 (156)
Q Consensus       103 ~Iq~~~Pdv~IGSYP~~~~g~~~lVvRG~D~~~l~aA~~~l~~~~~~  149 (156)
                      +...+--+|++..|-...+|.+.+.++| |...+++|+++..+...+
T Consensus        21 D~a~KAA~V~lv~~~~~~~G~~~vii~G-dVsaV~~Av~ag~~~~~~   66 (99)
T 3cim_A           21 DSMVKAARVTLVGYEKIGSGRVTVIVRG-DVSEVQASVSAGIEAANR   66 (99)
T ss_dssp             HHHHHHSSEEEEEEEEEETTEEEEEEEE-CHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhhCCcEEEEEEecCCcEEEEEEEE-cHHHHHHHHHHHHHHHhh
Confidence            4555667899999998777778899999 999999999998887764

---

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	156
d2ctfa1	90	Vigilin {Human (Homo sapiens) [TaxId: 9606]}	83.85

>d2ctfa1 d.51.1.1 (A:7-96) Vigilin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Eukaryotic type KH-domain (KH-domain type I)
superfamily: Eukaryotic type KH-domain (KH-domain type I)
family: Eukaryotic type KH-domain (KH-domain type I)
domain: Vigilin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.85  E-value=1.3  Score=29.03  Aligned_cols=46  Identities=26%  Similarity=0.433  Sum_probs=36.7

Q ss_pred             hhhHHHHHHhCCCceeeccccccCCCeEEEEEecCHHHHHHHHHHHHhhhc
Q 031642           98 AQPLSKLCLEFPDLHIGCYRKSRQGPLIISFEGKDQARIEAAIESLFKKFH  148 (156)
Q Consensus        98 A~~L~~Iq~~~Pdv~IGSYP~~~~g~~~lVvRG~D~~~l~aA~~~l~~~~~  148 (156)
                      ..-+.+|+.+|..+.| +.|   +..-.++++| +.+.+++|.+.|.++++
T Consensus        40 G~~I~~i~~~~~~v~I-~~~---~~~~~v~i~G-~~~~ve~Ak~~I~~iv~   85 (90)
T d2ctfa1          40 GQNLAKITQQMPKVHI-EFT---EGEDKITLEG-PTEDVSVAQEQIEGMVK   85 (90)
T ss_dssp             TCHHHHHHHHCSSSEE-EEC---SSSCEEEEEE-CHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHcCCcEE-eeC---CCCceEEEeC-CHHHHHHHHHHHHHHHH
Confidence            4569999999988888 333   2344699999 68889999999998875