Citrus Sinensis ID: 037586

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110
Protein Sequence
MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR
Flexible Loop (DISEMBL)
MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASlesdsstlsqtlelitqervsissklvekr
Low Complexity Region (SEG)
MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR
Disordered region (IsUnstruct)
**************************************************************************************************************
Disordered Region (DISOPRED)
**EY**YMKTLRSQMNDVE***************TIQSLENDL***************************************SDSSTLSQTLELITQERVSIS*KLV***
Disordered Region (DISEMBL)
MEEYLQYMKTLRSQMNDV**************ISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVS*********
Disordered Region (DISPRO)
MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISS******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxEQTQISTxxxxxxxxxxxxxxxxxxxxxAEKMTMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR
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	110
255561470	293	hypothetical protein RCOM_1329260 [Ricin	0.990	0.372	0.807	1e-39
224126545	258	predicted protein [Populus trichocarpa]	0.990	0.422	0.733	2e-38
449442100	289	PREDICTED: uncharacterized protein LOC10	0.990	0.377	0.697	2e-36
449525083	280	PREDICTED: uncharacterized protein LOC10	0.990	0.389	0.697	2e-36
359495830	334	PREDICTED: uncharacterized protein LOC10	1.0	0.329	0.663	6e-35
297846326	239	hypothetical protein ARALYDRAFT_473523 [	1.0	0.460	0.690	2e-34
186488079	276	uncharacterized protein [Arabidopsis tha	1.0	0.398	0.663	5e-33
12322391	254	hypothetical protein; 76532-78443 [Arabi	1.0	0.433	0.663	5e-33
357145630	290	PREDICTED: uncharacterized protein LOC10	1.0	0.379	0.481	2e-19
115475862	156	Os08g0320300 [Oryza sativa Japonica Grou	1.0	0.705	0.490	2e-19

>gi|255561470|ref|XP_002521745.1| hypothetical protein RCOM_1329260 [Ricinus communis] gi|223538958|gb|EEF40555.1| hypothetical protein RCOM_1329260 [Ricinus communis]

 Score =  167 bits (422), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 88/109 (80%), Positives = 96/109 (88%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           ME+YLQYMKTLRSQMNDVEDQ AKVSVEEQ+QI TIQ+LE DL SAK+ETK+ KED E M
Sbjct: 1   MEDYLQYMKTLRSQMNDVEDQVAKVSVEEQSQIVTIQTLEADLNSAKSETKRLKEDIELM 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEK 109
              KGQIC+QILEKQRKIASLE DSSTLSQTLELI QERVS+S+KLV K
Sbjct: 61  IQAKGQICSQILEKQRKIASLEFDSSTLSQTLELIQQERVSLSAKLVLK 109

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224126545|ref|XP_002319864.1| predicted protein [Populus trichocarpa] gi|222858240|gb|EEE95787.1| predicted protein [Populus trichocarpa]

 Score =  162 bits (410), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 80/109 (73%), Positives = 97/109 (88%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           MEEYL +MKTLRSQMN+VEDQAA++SVEEQT I+TIQ+ E DL SAK+ETK+ KED E+M
Sbjct: 1   MEEYLHHMKTLRSQMNEVEDQAAQISVEEQTHITTIQTFEKDLASAKSETKRLKEDTEQM 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEK 109
              KG+IC+QILEKQRKIASL+SDS TL+QTLELI +ERVS+S++LVEK
Sbjct: 61  MKAKGEICSQILEKQRKIASLDSDSYTLAQTLELIQRERVSLSARLVEK 109

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449442100|ref|XP_004138820.1| PREDICTED: uncharacterized protein LOC101219311 [Cucumis sativus]

 Score =  155 bits (393), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 76/109 (69%), Positives = 92/109 (84%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           MEEYLQYMKTLR QMNDVEDQA K+S++E    +TIQ++ENDL SAK+E K+  EDAE+M
Sbjct: 1   MEEYLQYMKTLRFQMNDVEDQAMKISIQEHMHFATIQTMENDLNSAKSELKQLNEDAERM 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEK 109
              KG+IC+QILEKQRKIASLESD S LSQTLELI QE+VS+ +K++EK
Sbjct: 61  MQAKGEICSQILEKQRKIASLESDISILSQTLELIQQEKVSLGAKIIEK 109

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449525083|ref|XP_004169549.1| PREDICTED: uncharacterized protein LOC101224366, partial [Cucumis sativus]

 Score =  155 bits (393), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 76/109 (69%), Positives = 92/109 (84%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           MEEYLQYMKTLR QMNDVEDQA K+S++E    +TIQ++ENDL SAK+E K+  EDAE+M
Sbjct: 1   MEEYLQYMKTLRFQMNDVEDQAMKISIQEHMHFATIQTMENDLNSAKSELKQLNEDAERM 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEK 109
              KG+IC+QILEKQRKIASLESD S LSQTLELI QE+VS+ +K++EK
Sbjct: 61  MQAKGEICSQILEKQRKIASLESDISILSQTLELIQQEKVSLGAKIIEK 109

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495830|ref|XP_002265655.2| PREDICTED: uncharacterized protein LOC100248648 [Vitis vinifera]

 Score =  151 bits (381), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 73/110 (66%), Positives = 95/110 (86%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           M+ YL Y+KTLRSQ+NDVEDQAAK+SVEEQ +I+ I +LE DLVSAK++T + KE+  +M
Sbjct: 1   MDGYLHYVKTLRSQINDVEDQAAKISVEEQMRITAIHTLETDLVSAKSQTGRLKEETNQM 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
             EK +IC+QIL KQ++IA+LESDSSTL+QTLELI QERVS+S+K++EKR
Sbjct: 61  VKEKNRICSQILAKQKRIATLESDSSTLTQTLELIQQERVSLSAKVIEKR 110

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297846326|ref|XP_002891044.1| hypothetical protein ARALYDRAFT_473523 [Arabidopsis lyrata subsp. lyrata] gi|297336886|gb|EFH67303.1| hypothetical protein ARALYDRAFT_473523 [Arabidopsis lyrata subsp. lyrata]

 Score =  149 bits (377), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 76/110 (69%), Positives = 93/110 (84%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           MEEYLQYMKTLRSQM DVED AAKVSVEEQ Q++TI +LE DL  A +ETK+ KE+ ++ 
Sbjct: 4   MEEYLQYMKTLRSQMTDVEDHAAKVSVEEQMQVTTINTLEKDLDHALSETKRLKEETDQK 63

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
           T +KG+IC+ ILEKQRKI+S+ESDS+ LSQ+LELI QER S+S+KLV KR
Sbjct: 64  TRKKGEICSHILEKQRKISSMESDSANLSQSLELILQERDSLSAKLVLKR 113

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186488079|ref|NP_174616.2| uncharacterized protein [Arabidopsis thaliana] gi|332193480|gb|AEE31601.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  144 bits (364), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 73/110 (66%), Positives = 91/110 (82%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           MEEYLQYMKTLRSQM DVED AAKVSVEEQ Q++TI +LE DL  A +ETK+ KE+ ++ 
Sbjct: 1   MEEYLQYMKTLRSQMTDVEDHAAKVSVEEQMQVTTISTLEKDLEHALSETKRLKEETDQK 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
           T  +G+IC+ ILEKQRKI+S+ESDS  ++Q+LELI QER S+S+KLV KR
Sbjct: 61  TRTRGEICSHILEKQRKISSMESDSVNIAQSLELILQERDSLSAKLVSKR 110

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|12322391|gb|AAG51223.1|AC051630_20 hypothetical protein; 76532-78443 [Arabidopsis thaliana]

 Score =  144 bits (364), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 73/110 (66%), Positives = 91/110 (82%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           MEEYLQYMKTLRSQM DVED AAKVSVEEQ Q++TI +LE DL  A +ETK+ KE+ ++ 
Sbjct: 1   MEEYLQYMKTLRSQMTDVEDHAAKVSVEEQMQVTTISTLEKDLEHALSETKRLKEETDQK 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
           T  +G+IC+ ILEKQRKI+S+ESDS  ++Q+LELI QER S+S+KLV KR
Sbjct: 61  TRTRGEICSHILEKQRKISSMESDSVNIAQSLELILQERDSLSAKLVSKR 110

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357145630|ref|XP_003573710.1| PREDICTED: uncharacterized protein LOC100834418 [Brachypodium distachyon]

 Score =  100 bits (248), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 53/110 (48%), Positives = 77/110 (70%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           MEEYL  MKTLRS MND+E++AAK S EEQ Q + I + ++D+   + + K+  +DAE++
Sbjct: 1   MEEYLANMKTLRSYMNDLEEEAAKRSAEEQQQRTAIDAHDSDIAKVRAQAKQVSDDAERL 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
              + Q+  ++ EKQ +IA+LE++ STL QTLEL+ QE  S S+KL E R
Sbjct: 61  AKARAQVFVEMAEKQSRIAALETECSTLKQTLELLHQEITSTSTKLSENR 110

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115475862|ref|NP_001061527.1| Os08g0320300 [Oryza sativa Japonica Group] gi|113623496|dbj|BAF23441.1| Os08g0320300 [Oryza sativa Japonica Group]

 Score = 99.8 bits (247), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 54/110 (49%), Positives = 78/110 (70%)

Query: 1   MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
           MEEYL  MKTLRS M+D+E++A K S EEQ Q + I +   DL   + +TK+  E++E++
Sbjct: 1   MEEYLANMKTLRSYMSDLEEEATKRSAEEQRQRTAIDAHGADLAQVRAQTKQASEESEQL 60

Query: 61  TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
           +  + ++C +I EKQ +IA+LE + +TL QTLEL+ QE  S SSKL+EKR
Sbjct: 61  SKARAELCVEISEKQGRIATLEIECATLKQTLELLHQEIASTSSKLIEKR 110

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	110
TAIR|locus:2007028	276	AT1G33500 "AT1G33500" [Arabido	1.0	0.398	0.663	2e-33
ASPGD|ASPL0000059483	666	mad1 [Emericella nidulans (tax	1.0	0.165	0.304	4.1e-05
UNIPROTKB|J9NRS6	1459	FYCO1 "Uncharacterized protein	0.963	0.072	0.216	6.4e-05
UNIPROTKB|E2RQ44	1480	FYCO1 "Uncharacterized protein	0.963	0.071	0.216	6.5e-05
UNIPROTKB|F1MQH8	862	RABEP1 "Uncharacterized protei	0.936	0.119	0.261	0.00025
TIGR_CMR|CPS_4392	411	CPS_4392 "peptidase, M23/37 fa	0.936	0.250	0.252	0.00088
UNIPROTKB|O93309	1209	smc3 "Structural maintenance o	0.954	0.086	0.258	0.00098

TAIR|locus:2007028 AT1G33500 "AT1G33500" [Arabidopsis thaliana (taxid:3702)]

 Score = 364 (133.2 bits), Expect = 2.0e-33, P = 2.0e-33
 Identities = 73/110 (66%), Positives = 91/110 (82%)

Query:     1 MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
             MEEYLQYMKTLRSQM DVED AAKVSVEEQ Q++TI +LE DL  A +ETK+ KE+ ++ 
Sbjct:     1 MEEYLQYMKTLRSQMTDVEDHAAKVSVEEQMQVTTISTLEKDLEHALSETKRLKEETDQK 60

Query:    61 TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
             T  +G+IC+ ILEKQRKI+S+ESDS  ++Q+LELI QER S+S+KLV KR
Sbjct:    61 TRTRGEICSHILEKQRKISSMESDSVNIAQSLELILQERDSLSAKLVSKR 110

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

ASPGD|ASPL0000059483 mad1 [Emericella nidulans (taxid:162425)]

 Score = 108 (43.1 bits), Expect = 4.1e-05, P = 4.1e-05
 Identities = 35/115 (30%), Positives = 56/115 (48%)

Query:     1 MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQS--LENDLVSAKTETKKF-KEDA 57
             +E  LQ MK + +++  V+ Q   +  E QT  S +Q   L ++  S +   K   KE  
Sbjct:   207 LENQLQLMKGVEAELETVQIQKQVLEDERQTWSSLLQDSDLFSEYDSPEAVVKALLKEQI 266

Query:    58 EKMT-MEK-GQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
             EK + +++ G + AQ LEK   I SLES+ S L   +E +     +    + E R
Sbjct:   267 EKASAIDRLGSVEAQFLEKDELIKSLESERSNLKLEMEKLRAASAAAGGPMAESR 321

GO:0005643 "nuclear pore" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0000776 "kinetochore" evidence=IDA

GO:0005654 "nucleoplasm" evidence=IDA

GO:0000778 "condensed nuclear chromosome kinetochore" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|J9NRS6 FYCO1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 110 (43.8 bits), Expect = 6.4e-05, P = 6.4e-05
 Identities = 23/106 (21%), Positives = 57/106 (53%)

Query:     1 MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
             +E  L+ M  LR +++    +AA++  + Q  ++ + SLE +L   + E ++++E+ E +
Sbjct:   445 LEHLLKEMAPLREELSGKGQEAAQLQRQLQDSLAHLSSLEKELAEVRQEERQWREEKELL 504

Query:    61 TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKL 106
               E   +  Q+  ++ ++A L    S L +  + + +++  +S K+
Sbjct:   505 EQEARSLARQLQLQETQLAQLSQHVSDLEEQRKQLIRDKDHLSQKV 550

GO:0046872 "metal ion binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

UNIPROTKB|E2RQ44 FYCO1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 110 (43.8 bits), Expect = 6.5e-05, P = 6.5e-05
 Identities = 23/106 (21%), Positives = 57/106 (53%)

Query:     1 MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
             +E  L+ M  LR +++    +AA++  + Q  ++ + SLE +L   + E ++++E+ E +
Sbjct:   446 LEHLLKEMAPLREELSGKGQEAAQLQRQLQDSLAHLSSLEKELAEVRQEERQWREEKELL 505

Query:    61 TMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKL 106
               E   +  Q+  ++ ++A L    S L +  + + +++  +S K+
Sbjct:   506 EQEARSLARQLQLQETQLAQLSQHVSDLEEQRKQLIRDKDHLSQKV 551

GO:0046872 "metal ion binding" evidence=IEA

GO:0016021 "integral to membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

UNIPROTKB|F1MQH8 RABEP1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 102 (41.0 bits), Expect = 0.00025, P = 0.00025
 Identities = 29/111 (26%), Positives = 62/111 (55%)

Query:     1 MEEYLQY-MKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEK 59
             MEE L+  +  L+ Q+    +Q  K ++EE  Q+  I++ + ++ S  +     K + E+
Sbjct:   698 MEEKLKAEILFLKEQIQ--AEQCLKENLEETLQLE-IENCKEEIASISS----LKAELER 750

Query:    60 MTMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQERVSISSKLVEKR 110
             + +EKGQ+ + + EK +++ SL+    TL + L+  T  +V++   + E++
Sbjct:   751 IKVEKGQLESTLREKSQQLESLQEMKMTLEEQLKKETAAKVTVEQLMFEEK 801

GO:0042803 "protein homodimerization activity" evidence=IEA

GO:0030139 "endocytic vesicle" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0008083 "growth factor activity" evidence=IEA

GO:0005096 "GTPase activator activity" evidence=IEA

TIGR_CMR|CPS_4392 CPS_4392 "peptidase, M23/37 family" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 93 (37.8 bits), Expect = 0.00088, P = 0.00088
 Identities = 29/115 (25%), Positives = 59/115 (51%)

Query:     4 YLQYMKTLRSQMND----VEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEK 59
             Y QY+   R++  D       Q  +VS E QTQ+  +Q L+++ +   T+ +  K    +
Sbjct:   179 YYQYLNQARTKEIDNFQVTIAQLLQVSTEHQTQVDHLQQLKDEQLQQDTQFRSSKSQRSQ 238

Query:    60 MTMEKGQICAQILEKQRKIASLESDSSTLSQTLELIT---QERVSIS--SKLVEK 109
              T++K  +  ++L  Q+++  L+++ + L+Q L  +    Q  + ++  SKL  K
Sbjct:   239 -TLKK--LSRKLLSSQQQLNKLKAEENNLNQALNKLAALIQAEIDLTGLSKLKRK 290

GO:0004222 "metalloendopeptidase activity" evidence=ISS

GO:0006508 "proteolysis" evidence=ISS

UNIPROTKB|O93309 smc3 "Structural maintenance of chromosomes protein 3" [Xenopus laevis (taxid:8355)]

 Score = 98 (39.6 bits), Expect = 0.00098, P = 0.00098
 Identities = 29/112 (25%), Positives = 57/112 (50%)

Query:     1 MEEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKM 60
             MEE  + ++ L+S+++ ++++  ++S E Q QI     LE      + E     E  +++
Sbjct:   267 MEEIERQVRELKSKISAMKEEKEQLSSERQEQIKQRTKLELKTKDLQDELAGNSEQRKRL 326

Query:    61 TMEKGQICAQILEKQRKIASLESDSSTLSQT-------LELITQERVSISSK 105
               E+ ++  +I EKQ+++A  E   S++ Q        L   TQER  + +K
Sbjct:   327 LKERQKLLEKIEEKQKELAETEPKFSSVKQKEESGIARLAQATQERTDLYAK 378


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        0.304   0.118   0.280    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      110       110   0.00091  102 3  10 23  0.39    31
                                                     29  0.42    32


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:  7
  No. of states in DFA:  485 (52 KB)
  Total size of DFA:  112 KB (2078 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:  24.06u 0.14s 24.20t   Elapsed:  00:00:01
  Total cpu time:  24.06u 0.14s 24.20t   Elapsed:  00:00:01
  Start:  Thu May  9 13:48:49 2013   End:  Thu May  9 13:48:50 2013

GO:0000785 "chromatin" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

GO:0006275 "regulation of DNA replication" evidence=ISS

GO:0030893 "meiotic cohesin complex" evidence=ISS

---

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.XIII.3113.1 hypothetical protein (255 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	110
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	96.2
PF08172	248	CASP_C: CASP C terminal; InterPro: IPR012955 This	95.52
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	94.42
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	92.82
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	92.72
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	92.44
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	92.09
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	89.54
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	89.37
PF00038	312	Filament: Intermediate filament protein; InterPro:	89.03
smart00150	101	SPEC Spectrin repeats.	88.92
PF05278	269	PEARLI-4: Arabidopsis phospholipase-like protein (	88.73
PF00435	105	Spectrin: Spectrin repeat; InterPro: IPR002017 Spe	87.81
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	87.0
PRK11637	428	AmiB activator; Provisional	86.97
PRK10884	206	SH3 domain-containing protein; Provisional	86.93
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	86.02
PF09602	165	PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion prot	85.77
PRK02224	880	chromosome segregation protein; Provisional	84.8
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	84.57
COG1196	1163	Smc Chromosome segregation ATPases [Cell division	83.97
PRK02224	880	chromosome segregation protein; Provisional	83.53
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	82.85
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	80.12

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=96.20  E-value=0.2  Score=37.43  Aligned_cols=93  Identities=20%  Similarity=0.341  Sum_probs=74.0

Q ss_pred             HHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhhcchh
Q 037586            7 YMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSS   86 (110)
Q Consensus         7 ~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrkiasLe~d~~   86 (110)
                      |.-+|.+-+-.++..=..+..+-=.....|.+|+..|.-+.++.+++..|.+-+...+..+--..=++|++|+.||+-.+
T Consensus        25 ~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~el~~lt~el~~L~~EL~~l~sEk~~L~k~lq~~q~kv~eLE~~~~  104 (140)
T PF10473_consen   25 HVESLERELEMSQENKECLILDAENSKAEIETLEEELEELTSELNQLELELDTLRSEKENLDKELQKKQEKVSELESLNS  104 (140)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            44455555555555444444444556778889999999999999999999999999999999899999999999999999


Q ss_pred             hHHHHHHHHHHHH
Q 037586           87 TLSQTLELITQER   99 (110)
Q Consensus        87 tL~qtLEll~qe~   99 (110)
                      .+..-|+..-++.
T Consensus       105 ~~~~~l~~~E~ek  117 (140)
T PF10473_consen  105 SLENLLQEKEQEK  117 (140)
T ss_pred             HHHHHHHHHHHHH
Confidence            9888888777764

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins

Probab=95.52  E-value=0.046  Score=43.55  Aligned_cols=94  Identities=23%  Similarity=0.320  Sum_probs=66.1

Q ss_pred             hhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhh---hhhHHHHHHHH------H-----------------HHHHHH
Q 037586           16 NDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETK---KFKEDAEKMTM------E-----------------KGQICA   69 (110)
Q Consensus        16 nD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetk---r~~ee~e~~~k------a-----------------~g~i~~   69 (110)
                      ++++.+.+...++=..|...|..||+||..+.+...   ...+.+..+.-      .                 .+.---
T Consensus         2 ~~lq~~l~~l~~~~~~~~~L~~kLE~DL~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~g~~sp~ss~~~~~~~~siL   81 (248)
T PF08172_consen    2 EELQKELSELEAKLEEQKELNAKLENDLAKVQASSSASRSFNDGASMASGATRQIPNSGRSGSLSPTSSIIGGGGDSSIL   81 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCCCcccccccchhhccCccccCCCCCCccCCCCCCcccHH
Confidence            567778888888888899999999999999997622   22222111100      0                 001112


Q ss_pred             HHHHHhh-----hhhhhhcchhhHHHHHHHHHHHHhhhhh---hhhhc
Q 037586           70 QILEKQR-----KIASLESDSSTLSQTLELITQERVSISS---KLVEK  109 (110)
Q Consensus        70 ~ilekQr-----kiasLe~d~~tL~qtLEll~qe~~s~s~---kl~ek  109 (110)
                      .|.-+||     |...||.+...+.+++..|++|..++-+   ||-||
T Consensus        82 pIVtsQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEK  129 (248)
T PF08172_consen   82 PIVTSQRDRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEK  129 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555665     8999999999999999999999999864   56655

These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=94.42  E-value=0.47  Score=38.24  Aligned_cols=83  Identities=16%  Similarity=0.308  Sum_probs=71.7

Q ss_pred             HHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhhcchh
Q 037586            7 YMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSS   86 (110)
Q Consensus         7 ~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrkiasLe~d~~   86 (110)
                      .+..+|.++++.|++-..++-+.+     +.+|+.++..++.+...+.++...+....+.+.-+|...+.++.+++.+.+
T Consensus        67 ei~~~r~r~~~~e~kl~~v~~~~e-----~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~~~~  141 (239)
T COG1579          67 EIQEIRERIKRAEEKLSAVKDERE-----LRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEKNLA  141 (239)
T ss_pred             HHHHHHHHHHHHHHHHhccccHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456778888888888766665554     578899999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHH
Q 037586           87 TLSQTLEL   94 (110)
Q Consensus        87 tL~qtLEl   94 (110)
                      .+.++++.
T Consensus       142 e~~~~~e~  149 (239)
T COG1579         142 EAEARLEE  149 (239)
T ss_pred             HHHHHHHH
Confidence            88888765

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=92.82  E-value=4.3  Score=35.08  Aligned_cols=6  Identities=33%  Similarity=0.684  Sum_probs=2.1

Q ss_pred             hHhhHH
Q 037586           39 LENDLV   44 (110)
Q Consensus        39 ~e~Dl~   44 (110)
                      ++..+.
T Consensus       293 ~~~~i~  298 (1179)
T TIGR02168       293 LANEIS  298 (1179)
T ss_pred             HHHHHH
Confidence            333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=92.72  E-value=5.2  Score=34.59  Aligned_cols=16  Identities=0%  Similarity=0.268  Sum_probs=5.8

Q ss_pred             HhhHHHhhhHhhhhhH
Q 037586           40 ENDLVSAKTETKKFKE   55 (110)
Q Consensus        40 e~Dl~~v~aetkr~~e   55 (110)
                      +.++...+++..++..
T Consensus       725 ~~~~~~~~~~~~~~~~  740 (1179)
T TIGR02168       725 SRQISALRKDLARLEA  740 (1179)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            3333333333333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=92.44  E-value=4.8  Score=35.18  Aligned_cols=17  Identities=18%  Similarity=0.415  Sum_probs=6.0

Q ss_pred             hHHHhhhHhhhhhHHHH
Q 037586           42 DLVSAKTETKKFKEDAE   58 (110)
Q Consensus        42 Dl~~v~aetkr~~ee~e   58 (110)
                      .+...+.+..++..+.+
T Consensus       400 ~~~~~~~~~~~l~~~l~  416 (1164)
T TIGR02169       400 EINELKRELDRLQEELQ  416 (1164)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333333333333333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=92.09  E-value=6.6  Score=34.36  Aligned_cols=34  Identities=15%  Similarity=0.351  Sum_probs=13.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHhhhhhhhhcchh
Q 037586           53 FKEDAEKMTMEKGQICAQILEKQRKIASLESDSS   86 (110)
Q Consensus        53 ~~ee~e~~~ka~g~i~~~ilekQrkiasLe~d~~   86 (110)
                      +..+.+.+......+..++-+.+.++..++..-.
T Consensus       404 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~l~~~~~  437 (1164)
T TIGR02169       404 LKRELDRLQEELQRLSEELADLNAAIAGIEAKIN  437 (1164)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333444444444444433333

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=89.54  E-value=8.2  Score=31.41  Aligned_cols=100  Identities=17%  Similarity=0.358  Sum_probs=58.8

Q ss_pred             HHHHHHHHHH------HHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 037586            3 EYLQYMKTLR------SQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQR   76 (110)
Q Consensus         3 eYL~~mktLR------s~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQr   76 (110)
                      .|...++.|+      .-..+++++-.+...||..-...+..+|+.-+.+..|.+.+..+.+.+-....+.....-..|.
T Consensus        27 ~Y~~fL~~l~~~~~~~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~  106 (314)
T PF04111_consen   27 TYQEFLKKLEEESDSEEDIEELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELDEEEEEYWREYNELQL  106 (314)
T ss_dssp             ---------------HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555555555      2234556666667777777777888888888888888777777777777666666666666666


Q ss_pred             hhhhhhcchhhHHHHHHHHHHHHhhh
Q 037586           77 KIASLESDSSTLSQTLELITQERVSI  102 (110)
Q Consensus        77 kiasLe~d~~tL~qtLEll~qe~~s~  102 (110)
                      ....+..+...+..-++........+
T Consensus       107 ~l~~~~~e~~sl~~q~~~~~~~L~~L  132 (314)
T PF04111_consen  107 ELIEFQEERDSLKNQYEYASNQLDRL  132 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666665555555555555544443

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=89.37  E-value=8.2  Score=29.59  Aligned_cols=99  Identities=19%  Similarity=0.373  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHhhhHHH-------HHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Q 037586            5 LQYMKTLRSQMNDVED-------QAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRK   77 (110)
Q Consensus         5 L~~mktLRs~MnD~Ed-------~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrk   77 (110)
                      |+-.++|..+|+++-.       ..+.++.|-.....-+..++.+.+..+.+.+....|--.+...++.+-    .-+.+
T Consensus        26 L~lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~----~~ek~  101 (201)
T PF13851_consen   26 LELIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLK----ELEKE  101 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHH
Confidence            5667888888877644       445567777777778888888888888888887777777666665543    45778


Q ss_pred             hhhhhcchhhHHHHHHHHHHHHhhhhhhhh
Q 037586           78 IASLESDSSTLSQTLELITQERVSISSKLV  107 (110)
Q Consensus        78 iasLe~d~~tL~qtLEll~qe~~s~s~kl~  107 (110)
                      |..|+.+...|.|-++=+.+||..+..+..
T Consensus       102 l~~Lk~e~evL~qr~~kle~ErdeL~~kf~  131 (201)
T PF13851_consen  102 LKDLKWEHEVLEQRFEKLEQERDELYRKFE  131 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999887754

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=89.03  E-value=8.8  Score=29.50  Aligned_cols=88  Identities=19%  Similarity=0.323  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 037586            3 EYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLE   82 (110)
Q Consensus         3 eYL~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrkiasLe   82 (110)
                      -|-..++.||.++.++-.+-|+.-.+-..-...++.+..-+....+..+.+..+...+-+.-.........-+.+|.+|.
T Consensus        51 ~ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~  130 (312)
T PF00038_consen   51 MYEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLK  130 (312)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHH
Confidence            36677777777777777777777777777777777777777666666666666666666666666666666666666666


Q ss_pred             cchhhHHH
Q 037586           83 SDSSTLSQ   90 (110)
Q Consensus        83 ~d~~tL~q   90 (110)
                      .+..-+.+
T Consensus       131 eEl~fl~~  138 (312)
T PF00038_consen  131 EELEFLKQ  138 (312)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55554443

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>smart00150 SPEC Spectrin repeats

Probab=88.92  E-value=3.5  Score=24.83  Aligned_cols=61  Identities=16%  Similarity=0.271  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHHhhhHHHHHhhhhH-----HHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHH
Q 037586            3 EYLQYMKTLRSQMNDVEDQAAKVSV-----EEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTME   63 (110)
Q Consensus         3 eYL~~mktLRs~MnD~Ed~AAkvSv-----Eeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka   63 (110)
                      .|...+..|-+-|++.|.....-.+     .=+.+..-.+.|..|+..-....+.+...+++|...
T Consensus         2 ~f~~~~~~l~~Wl~~~e~~l~~~~~~~d~~~~~~~~~~~~~~~~e~~~~~~~v~~~~~~~~~L~~~   67 (101)
T smart00150        2 QFLRDADELEAWLSEKEALLASEDLGKDLESVEALLKKHEALEAELEAHEERVEALNELGEQLIEE   67 (101)
T ss_pred             chHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHc
Confidence            5788888899999988855433222     224445566777777777777777777777666655

>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4

Probab=88.73  E-value=8  Score=32.07  Aligned_cols=63  Identities=24%  Similarity=0.331  Sum_probs=57.5

Q ss_pred             HHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhhcchhhHHHHHHHHHH
Q 037586           35 TIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSSTLSQTLELITQ   97 (110)
Q Consensus        35 ~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrkiasLe~d~~tL~qtLEll~q   97 (110)
                      -++..+++|+..+.|.....++..+.-+.-++++..|-+--.+++.|+-+++.|..++-.+..
T Consensus       194 eke~~~r~l~~~~~ELe~~~EeL~~~Eke~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~~~s  256 (269)
T PF05278_consen  194 EKEEKDRKLELKKEELEELEEELKQKEKEVKEIKERITEMKGRLGELEMESTRLSKTIKSIKS  256 (269)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456678899999999999999999999999999999999999999999999999999877654

>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure

Probab=87.81  E-value=4.3  Score=24.43  Aligned_cols=63  Identities=14%  Similarity=0.271  Sum_probs=48.8

Q ss_pred             ChHHHHHHHHHHHHhhhHHHHHhhhh-----HHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHH
Q 037586            1 MEEYLQYMKTLRSQMNDVEDQAAKVS-----VEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTME   63 (110)
Q Consensus         1 MEeYL~~mktLRs~MnD~Ed~AAkvS-----vEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka   63 (110)
                      ++.|...+..|-.-|++.|.......     .+=+.+...+..+..|+.........+.+....|...
T Consensus         3 ~~~f~~~~~~l~~Wl~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~ei~~~~~~l~~l~~~~~~L~~~   70 (105)
T PF00435_consen    3 LQQFQQEADELLDWLQETEAKLSSSEPGSDLEELEEQLKKHKELQEEIESRQERLESLNEQAQQLIDS   70 (105)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCSCTHSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHc
Confidence            36789999999999999998874332     2345566688888999998888888888888888444

These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=87.00  E-value=18  Score=33.83  Aligned_cols=76  Identities=12%  Similarity=0.292  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhhhHHHHHhhhhHHHHHHHH-HHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 037586            5 LQYMKTLRSQMNDVEDQAAKVSVEEQTQIS-TIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASL   81 (110)
Q Consensus         5 L~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t-~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrkiasL   81 (110)
                      ..-..+++..++++....... ..+..+.+ .|..++.++..++.+.+.+..+...+...-.++-..|...+..+...
T Consensus       266 ~~~i~~~~~~~~e~~~~~~~~-~~~~~~~~~~~~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  342 (1163)
T COG1196         266 EKEIEELKSELEELREELEEL-QEELLELKEEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEER  342 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345567888888888888888 45555444 88888888888888888888776666655555555555555555444

>PRK11637 AmiB activator; Provisional

Probab=86.97  E-value=7.7  Score=31.84  Aligned_cols=17  Identities=12%  Similarity=0.298  Sum_probs=6.4

Q ss_pred             HHhhHhhHHHhhhHhhh
Q 037586           36 IQSLENDLVSAKTETKK   52 (110)
Q Consensus        36 I~a~e~Dl~~v~aetkr   52 (110)
                      |..+++.|..+..+...
T Consensus        77 l~~l~~qi~~~~~~i~~   93 (428)
T PRK11637         77 LKKQEEAISQASRKLRE   93 (428)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            33333333333333333

>PRK10884 SH3 domain-containing protein; Provisional

Probab=86.93  E-value=6  Score=30.83  Aligned_cols=33  Identities=15%  Similarity=0.224  Sum_probs=23.9

Q ss_pred             HhhhhhhhhcchhhHHHHHHHHHHHHhhhhhhh
Q 037586           74 KQRKIASLESDSSTLSQTLELITQERVSISSKL  106 (110)
Q Consensus        74 kQrkiasLe~d~~tL~qtLEll~qe~~s~s~kl  106 (110)
                      ....|+.|+.+-..|.+.|+.++.+...+-+++
T Consensus       130 ~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~  162 (206)
T PRK10884        130 SDSVINGLKEENQKLKNQLIVAQKKVDAANLQL  162 (206)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344466688888888888888888887776654

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=86.02  E-value=20  Score=34.93  Aligned_cols=43  Identities=16%  Similarity=0.275  Sum_probs=20.7

Q ss_pred             HHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhh
Q 037586            6 QYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKT   48 (110)
Q Consensus         6 ~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~a   48 (110)
                      ....++|.-|+++|++-+....|--.|-.=|..+-+|+.-++.
T Consensus       309 ~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~r  351 (1074)
T KOG0250|consen  309 GKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRR  351 (1074)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH
Confidence            3344555555555555555554444444444444444444433

>PF09602 PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); InterPro: IPR011728 This entry describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium

Probab=85.77  E-value=15  Score=28.70  Aligned_cols=106  Identities=22%  Similarity=0.274  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHHHhhhHHHHHhhhhHHHHHHHH-HHHhhHhhHHHhhhHhhhhhHH-HHHHHHH-HHHHHHHHHHHhhhhh
Q 037586            3 EYLQYMKTLRSQMNDVEDQAAKVSVEEQTQIS-TIQSLENDLVSAKTETKKFKED-AEKMTME-KGQICAQILEKQRKIA   79 (110)
Q Consensus         3 eYL~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t-~I~a~e~Dl~~v~aetkr~~ee-~e~~~ka-~g~i~~~ilekQrkia   79 (110)
                      .|-++|...-+.|+++|+.--+.=...|-+++ .++.|++++..-.++..-+-++ .+++.++ ...+|.+|.|-+.+.-
T Consensus        16 ~~~~sls~~~~~~kqve~~~l~~lkqqqd~itk~veeLe~~~~q~~~~~s~~~~~~vk~L~k~~~~~l~d~inE~t~k~~   95 (165)
T PF09602_consen   16 QWSQSLSLFASFMKQVEQQTLKKLKQQQDWITKQVEELEKELKQFKREFSDLYEEYVKQLRKATGNSLNDSINEWTDKLN   95 (165)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57789999999999999999888655555554 5788999999988888888777 5666444 4578999999998876


Q ss_pred             hhhcchh--------hHHHHHHHHHHHHhhhhhhhhh
Q 037586           80 SLESDSS--------TLSQTLELITQERVSISSKLVE  108 (110)
Q Consensus        80 sLe~d~~--------tL~qtLEll~qe~~s~s~kl~e  108 (110)
                      .+..-..        +..+.|.-++....-+..++++
T Consensus        96 El~~~i~el~~~~~Ks~~~~l~q~~~~~eEtv~~~ie  132 (165)
T PF09602_consen   96 ELSAKIQELLLSPSKSSFSLLSQISKQYEETVKQLIE  132 (165)
T ss_pred             HHHHHHHHHHcchHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            6654433        2334455555566666666654

The role of the protein may include amino acid storage [].

>PRK02224 chromosome segregation protein; Provisional

Probab=84.80  E-value=27  Score=30.73  Aligned_cols=23  Identities=26%  Similarity=0.215  Sum_probs=9.6

Q ss_pred             HHHHhhhhhhhhcchhhHHHHHH
Q 037586           71 ILEKQRKIASLESDSSTLSQTLE   93 (110)
Q Consensus        71 ilekQrkiasLe~d~~tL~qtLE   93 (110)
                      +-+-+.+|+.++.+-..|...++
T Consensus       594 ~~~~~~~i~~~~~~~~~~~~~~~  616 (880)
T PRK02224        594 IRTLLAAIADAEDEIERLREKRE  616 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444444443433333

>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=84.57  E-value=9.4  Score=29.29  Aligned_cols=61  Identities=21%  Similarity=0.352  Sum_probs=51.0

Q ss_pred             hHHHHHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHH
Q 037586            2 EEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTM   62 (110)
Q Consensus         2 EeYL~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~k   62 (110)
                      +.|=..++.|....+.+|..|-.....-+.-...|+.++.+|.+.+...+.++.+.|+.+.
T Consensus       172 ~~~e~~i~~L~~~lkeaE~Rae~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~eld~~l~  232 (237)
T PF00261_consen  172 DEYEEKIRDLEEKLKEAENRAEFAERRVKKLEKEIDRLEDELEKEKEKYKKVQEELDQTLN  232 (237)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4577778899999999998877666666777888999999999999999999999887654

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....

>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]

Probab=83.97  E-value=26  Score=32.82  Aligned_cols=94  Identities=21%  Similarity=0.356  Sum_probs=43.4

Q ss_pred             HHHHHHHHHhhhHHHHHhhhhHH-------HHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhh
Q 037586            6 QYMKTLRSQMNDVEDQAAKVSVE-------EQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKI   78 (110)
Q Consensus         6 ~~mktLRs~MnD~Ed~AAkvSvE-------eq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrki   78 (110)
                      .-+..++..|+.+++..+..-.+       .+.+...+..++.-+..++.+...+..+.+.....+-..-.+|-+.+.++
T Consensus       758 ~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ei~~l~~~~  837 (1163)
T COG1196         758 ERLEELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEI  837 (1163)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555554332221       23333556666666655554444444444444444434444444444444


Q ss_pred             hhhhcchhhHHHHHHHHHHHH
Q 037586           79 ASLESDSSTLSQTLELITQER   99 (110)
Q Consensus        79 asLe~d~~tL~qtLEll~qe~   99 (110)
                      ..++.....|...++-+..+.
T Consensus       838 ~~~~~~~~~l~~~~~~~~~~~  858 (1163)
T COG1196         838 EELEEKLDELEEELEELEKEL  858 (1163)
T ss_pred             HHHHHHHHHHHHhHHHHHHHH
Confidence            444444444444444333333

>PRK02224 chromosome segregation protein; Provisional

Probab=83.53  E-value=31  Score=30.39  Aligned_cols=34  Identities=15%  Similarity=0.109  Sum_probs=17.4

Q ss_pred             HHHHHHhhhhhhhhcchhhHHHHHHHHHHHHhhh
Q 037586           69 AQILEKQRKIASLESDSSTLSQTLELITQERVSI  102 (110)
Q Consensus        69 ~~ilekQrkiasLe~d~~tL~qtLEll~qe~~s~  102 (110)
                      ..+-+-|.++..+..+-..+..++..+......+
T Consensus       412 ~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~  445 (880)
T PRK02224        412 DFLEELREERDELREREAELEATLRTARERVEEA  445 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444555555555555555555555554444443

>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=82.85  E-value=19  Score=27.58  Aligned_cols=58  Identities=17%  Similarity=0.319  Sum_probs=44.8

Q ss_pred             HHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhhcchhhHHHHH
Q 037586           35 TIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLESDSSTLSQTL   92 (110)
Q Consensus        35 ~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrkiasLe~d~~tL~qtL   92 (110)
                      .|+.+...-....++.+++..+.+.+.....++-..+...+.+|++|+.+-..+..+.
T Consensus        43 ~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~  100 (251)
T PF11932_consen   43 RIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETR  100 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666666677777788888888888888888888888888888888887777666543

However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.

>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []

Probab=80.12  E-value=10  Score=35.10  Aligned_cols=60  Identities=28%  Similarity=0.396  Sum_probs=48.9

Q ss_pred             HHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHH--HHHHHHhhhhhhhhcchhhHHHHHHHHHHHHh
Q 037586           29 EQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQIC--AQILEKQRKIASLESDSSTLSQTLELITQERV  100 (110)
Q Consensus        29 eq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~--~~ilekQrkiasLe~d~~tL~qtLEll~qe~~  100 (110)
                      =|+|+.+...=--..+..+-|.||+.||++.+--+--+.+  -.|+|+|            |..|||-|+.||.
T Consensus       109 lQKqvs~Lk~sQvefE~~Khei~rl~Ee~~~l~~qlee~~rLk~iae~q------------leEALesl~~ERe  170 (717)
T PF09730_consen  109 LQKQVSVLKQSQVEFEGLKHEIKRLEEEIELLNSQLEEAARLKEIAEKQ------------LEEALESLKSERE  170 (717)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHH
Confidence            3888888888888899999999999999998876655544  3566666            7789999999986

Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus

---

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	110
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	95.84
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	91.51
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	90.41
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	89.43
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	84.06
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	81.35

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=95.84  E-value=0.22  Score=33.19  Aligned_cols=56  Identities=18%  Similarity=0.303  Sum_probs=23.4

Q ss_pred             hHHHHHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHH
Q 037586            2 EEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDA   57 (110)
Q Consensus         2 EeYL~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~   57 (110)
                      +..=..|.+|...+..+.........+-..-...+..++..+..++.+...+..+.
T Consensus         2 ~~~~~~~~~l~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~   57 (284)
T 1c1g_A            2 DAIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDEL   57 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334455444444444444444433333333334444444444444443333333

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=91.51  E-value=2.5  Score=33.29  Aligned_cols=31  Identities=16%  Similarity=0.103  Sum_probs=21.8

Q ss_pred             hhhhhhhcchhhHHHHHHHHHHHHhhhhhhh
Q 037586           76 RKIASLESDSSTLSQTLELITQERVSISSKL  106 (110)
Q Consensus        76 rkiasLe~d~~tL~qtLEll~qe~~s~s~kl  106 (110)
                      .++..||..+..-++.++.++||...+-.++
T Consensus       544 ~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~  574 (597)
T 3oja_B          544 QENIALEKQLDNKRAKQAELRQETSLKRQKV  574 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence            4555667777777778888888877766554

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=90.41  E-value=2.8  Score=28.06  Aligned_cols=82  Identities=10%  Similarity=0.102  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 037586            3 EYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLE   82 (110)
Q Consensus         3 eYL~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrkiasLe   82 (110)
                      .+++--..+...+.+.|+.+.+.-.|-..--.=|+.+|.||..+....+.+....+.--+....-=+++.--+|||.-||
T Consensus        20 ~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLee~ek~~~~aE~ev~~L~RriqllE   99 (101)
T 3u1c_A           20 NALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAKAESEVASLNRRIQLVE   99 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            34455556666667777777776666665556688899999998888877777666666666655556666788887776


Q ss_pred             cc
Q 037586           83 SD   84 (110)
Q Consensus        83 ~d   84 (110)
                      -|
T Consensus       100 Ee  101 (101)
T 3u1c_A          100 EE  101 (101)
T ss_dssp             TC
T ss_pred             cC
Confidence            43

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=89.43  E-value=3.3  Score=27.42  Aligned_cols=81  Identities=15%  Similarity=0.222  Sum_probs=60.5

Q ss_pred             HHHHHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 037586            3 EYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQRKIASLE   82 (110)
Q Consensus         3 eYL~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQrkiasLe   82 (110)
                      .+++--..+...+.+.|+.+.+.--|-..-..-|+.++.|+..+....+.+....+.--+...+-=+.+.--+|||.-||
T Consensus        20 ~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~kLe~~ek~~~~AE~evasLnRriqllE   99 (101)
T 3u59_A           20 NAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQEKLEQAEKKATDAEAEVASLNRRIQLVE   99 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            44555566777777888888887776666666788899999999888888887777777766666666667788887776


Q ss_pred             c
Q 037586           83 S   83 (110)
Q Consensus        83 ~   83 (110)
                      -
T Consensus       100 E  100 (101)
T 3u59_A          100 E  100 (101)
T ss_dssp             T
T ss_pred             c
Confidence            4

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A

Probab=84.06  E-value=10  Score=27.72  Aligned_cols=63  Identities=19%  Similarity=0.310  Sum_probs=50.8

Q ss_pred             hHHHHHHHHHHHHhhhHHHHHhhhhHHHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHH
Q 037586            2 EEYLQYMKTLRSQMNDVEDQAAKVSVEEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEK   64 (110)
Q Consensus         2 EeYL~~mktLRs~MnD~Ed~AAkvSvEeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~   64 (110)
                      +.|-..+|.|.....+.|..|--..-.-++=...|+-+|.+|.+.+...+.+.++.++....=
T Consensus        73 d~yEeqIk~L~~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~eLd~tl~el  135 (155)
T 2efr_A           73 DKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKV  135 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            568888899999998888877655555566678899999999999999999999999655443

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=81.35  E-value=15  Score=33.17  Aligned_cols=24  Identities=17%  Similarity=0.315  Sum_probs=15.8

Q ss_pred             HHhhhhhhhhcchhhHHHHHHHHH
Q 037586           73 EKQRKIASLESDSSTLSQTLELIT   96 (110)
Q Consensus        73 ekQrkiasLe~d~~tL~qtLEll~   96 (110)
                      +-|.++++|+++-.-|.|.++-|.
T Consensus      1020 ~L~~kv~~L~~e~~~L~qq~~~l~ 1043 (1080)
T 2dfs_A         1020 ETEQLVSELKEQNTLLKTEKEELN 1043 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445677777777777777665554

---

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	110
d1u5pa1	110	Spectrin alpha chain {Chicken (Gallus gallus) [Tax	89.42

>d1u5pa1 a.7.1.1 (A:1662-1771) Spectrin alpha chain {Chicken (Gallus gallus) [TaxId: 9031]}

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: Spectrin repeat
family: Spectrin repeat
domain: Spectrin alpha chain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=89.42  E-value=0.5  Score=27.84  Aligned_cols=77  Identities=17%  Similarity=0.225  Sum_probs=54.4

Q ss_pred             hHHHHHHHHHHHHhhhHHHHHhhhhH-----HHHHHHHHHHhhHhhHHHhhhHhhhhhHHHHHHHHHHHHHHHHHHHHhh
Q 037586            2 EEYLQYMKTLRSQMNDVEDQAAKVSV-----EEQTQISTIQSLENDLVSAKTETKKFKEDAEKMTMEKGQICAQILEKQR   76 (110)
Q Consensus         2 EeYL~~mktLRs~MnD~Ed~AAkvSv-----Eeq~Q~t~I~a~e~Dl~~v~aetkr~~ee~e~~~ka~g~i~~~ilekQr   76 (110)
                      ..|...++.|...|++.|.......+     .-+.+..--..|++++..-......+.+.++.|......-...|-++..
T Consensus         5 q~F~~~~~el~~Wl~e~e~~l~~~~~g~d~~~~~~~~~~h~~~~~ei~~~~~~i~~l~~~~~~L~~~~~~~~~~i~~~~~   84 (110)
T d1u5pa1           5 QNFNTGIKDFDFWLSEVEALLASEDYGKDLASVNNLLKKHQLLEADISAHEDRLKDLNSQADSLMTSSAFDTSQVKDKRE   84 (110)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCCCCCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSSSCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence            56888999999999988866543211     2344555567888888888888888888888887766556666655444


Q ss_pred             hh
Q 037586           77 KI   78 (110)
Q Consensus        77 ki   78 (110)
                      .+
T Consensus        85 ~l   86 (110)
T d1u5pa1          85 TI   86 (110)
T ss_dssp             HH
T ss_pred             HH
Confidence            33