Citrus Sinensis ID: 025643

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250
Protein Sequence
MGRGSSTLCDSIQRLCHSLSSFFPTQLFHLSSNPPGFWFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELGVSV
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHHcccccHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHHcccccHEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
mgrgsstlcDSIQRLCHslssffptqlfhlssnppgfwFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVsarehpaaaTGVALTAGllfmrgprrflfrhtfgrlrsEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELGVSV
Flexible Loop (DISEMBL)
mgrgsstlCDSIQRLCHSLSSFFPTQLFHLSSNPPGFWFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRAEKnvnelnlsgelmkkESKKLLERAALAEKEMIrgetelknagnqvQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELGVSV
Low Complexity Region (SEG)
MGRGSSTLCDSIQRLCHSLSSFFPTQLFHLSSNPPGFWFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPaaatgvaltagllFMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNlsgelmkkeskklleRAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELGVSV
Disordered region (IsUnstruct)
********CDSIQRLCHSLSSFFPTQLFHLSSNPPGFWFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRA*************************************************AKQVYKVETQ***L***********************************************
Disordered Region (DISOPRED)
*********DSIQRLCHSLSSFFPTQLFHLSSNPPGFWFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEA*******************************************************************LMEGLRE****************************KQIMKISELGVSV
Disordered Region (DISEMBL)
********CDSIQRLCHSLSSFFPTQLFHLSSNPPGFWFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELGVSV
Disordered Region (DISPRO)
******TLCDSIQRLCHSLSSFFPTQLFHLSSNPPGFWFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELGVSV
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGRGSSTLCDSIQRLCHSLSSFFPTQLFHLSSNPPGFWFGLVSSIFLLILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELGVSV
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	250
224056923	239	predicted protein [Populus trichocarpa]	0.736	0.769	0.695	2e-68
297803456	263	hypothetical protein ARALYDRAFT_913923 [	0.732	0.695	0.666	4e-67
255564796	265	conserved hypothetical protein [Ricinus	0.732	0.690	0.683	4e-67
449452634	241	PREDICTED: uncharacterized protein LOC10	0.724	0.751	0.674	6e-66
225435822	246	PREDICTED: uncharacterized protein LOC10	0.732	0.743	0.726	6e-66
357475067	266	hypothetical protein MTR_4g083250 [Medic	0.736	0.691	0.652	4e-62
30687213	263	uncharacterized protein [Arabidopsis tha	0.732	0.695	0.655	1e-61
356576943	230	PREDICTED: uncharacterized protein LOC10	0.736	0.8	0.652	4e-61
357475075	353	hypothetical protein MTR_4g083290 [Medic	0.732	0.518	0.650	4e-61
255638282	230	unknown [Glycine max]	0.736	0.8	0.646	5e-60

>gi|224056923|ref|XP_002299091.1| predicted protein [Populus trichocarpa] gi|222846349|gb|EEE83896.1| predicted protein [Populus trichocarpa]

 Score =  265 bits (676), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 128/184 (69%), Positives = 157/184 (85%)

Query: 67  WQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHT 126
           +QD V   +S++ +YE+ FFSKVK+EL++A++HPAAA G+ LTAGL  MRGPRRFLFR+T
Sbjct: 56  FQDHVPEAISKFNSYENTFFSKVKEELLTAKDHPAAAIGLTLTAGLFLMRGPRRFLFRNT 115

Query: 127 FGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQV 186
            GR +SEEA F+RAEKNV E + S +LMKKES+KLLERA+LAEKEM  G TEL + G Q+
Sbjct: 116 LGRFQSEEAQFLRAEKNVKEFSFSVDLMKKESRKLLERASLAEKEMKNGHTELLDTGIQI 175

Query: 187 QRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISEL 246
           QRLAK VYKVET+ ADLM+GLREIPGR+ALKLRAEVASM SLLK+QRA++DK+IMKISEL
Sbjct: 176 QRLAKSVYKVETKTADLMDGLREIPGRDALKLRAEVASMTSLLKQQRAVLDKRIMKISEL 235

Query: 247 GVSV 250
           G+ V
Sbjct: 236 GIPV 239

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297803456|ref|XP_002869612.1| hypothetical protein ARALYDRAFT_913923 [Arabidopsis lyrata subsp. lyrata] gi|297315448|gb|EFH45871.1| hypothetical protein ARALYDRAFT_913923 [Arabidopsis lyrata subsp. lyrata]

 Score =  260 bits (664), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 122/183 (66%), Positives = 156/183 (85%)

Query: 68  QDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTF 127
           QDF+ H ++QY+TYE+AFFSKV +EL+ A+EHPAA  G+ + AGL+ MRGPRRFLFRHT 
Sbjct: 81  QDFIPHALTQYKTYENAFFSKVTEELIYAKEHPAATVGIGVAAGLVLMRGPRRFLFRHTL 140

Query: 128 GRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQ 187
           GR +SEEA F++AEK+V ELN+S +LMKKES+KLLER ALAEK+M RG +EL N+GN + 
Sbjct: 141 GRFQSEEAQFLKAEKHVQELNMSVDLMKKESRKLLERTALAEKDMKRGLSELMNSGNDIH 200

Query: 188 RLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELG 247
           RLAK V+KVE +AADLM+GLR+IPGREA+KLRAEVASM SLL+++R  ++K+IM +SELG
Sbjct: 201 RLAKSVHKVECEAADLMDGLRQIPGREAIKLRAEVASMTSLLRQKRIALNKRIMSMSELG 260

Query: 248 VSV 250
           V V
Sbjct: 261 VPV 263

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255564796|ref|XP_002523392.1| conserved hypothetical protein [Ricinus communis] gi|223537342|gb|EEF38971.1| conserved hypothetical protein [Ricinus communis]

 Score =  260 bits (664), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 125/183 (68%), Positives = 155/183 (84%)

Query: 68  QDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTF 127
           QD V   +S ++TYED+FF+K+K+EL+ AREHP    GVA+TAG L MRGPRRFLFRHTF
Sbjct: 83  QDHVPQALSLFRTYEDSFFNKIKEELMIAREHPVEVVGVAVTAGFLLMRGPRRFLFRHTF 142

Query: 128 GRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQ 187
           GR +SEEA F++ EKNV ELNLS +LMK ES+KLLERA+LAEK+M  G TEL +AG+Q+Q
Sbjct: 143 GRFQSEEARFLKTEKNVKELNLSVDLMKNESRKLLERASLAEKDMKHGHTELMDAGSQIQ 202

Query: 188 RLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELG 247
           RLAK +YKVETQ A LM+GLREIPGR+ALKLRAEVA+MAS LK+ ++++DK+IMKISELG
Sbjct: 203 RLAKSIYKVETQVAGLMDGLREIPGRDALKLRAEVATMASALKKHKSVLDKRIMKISELG 262

Query: 248 VSV 250
           + V
Sbjct: 263 IPV 265

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452634|ref|XP_004144064.1| PREDICTED: uncharacterized protein LOC101216418 isoform 1 [Cucumis sativus] gi|449493570|ref|XP_004159354.1| PREDICTED: uncharacterized LOC101216418 isoform 1 [Cucumis sativus]

 Score =  256 bits (654), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 122/181 (67%), Positives = 149/181 (82%)

Query: 68  QDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTF 127
           QDFV    SQ++TYED FF K+ DEL  AREHPAA  GVA+TAGLL MRGPRRFLFRHT 
Sbjct: 59  QDFVPQATSQFKTYEDTFFRKLTDELKIAREHPAATIGVAVTAGLLIMRGPRRFLFRHTL 118

Query: 128 GRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQ 187
           GR ++EEA F++AEK+V ELNLS +LMK ESKKLLERAALAEK+M  G  EL NAG+Q+Q
Sbjct: 119 GRFQTEEASFLKAEKHVKELNLSVDLMKNESKKLLERAALAEKDMKYGHNELMNAGSQIQ 178

Query: 188 RLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELG 247
           RL++ +YK E QAADLM+GLREI GR+ALKLRAEVASM + LKRQR +++ + MK+S++G
Sbjct: 179 RLSRSIYKAEAQAADLMDGLREISGRDALKLRAEVASMTTFLKRQRTLLENRAMKVSDMG 238

Query: 248 V 248
           +
Sbjct: 239 I 239

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225435822|ref|XP_002285769.1| PREDICTED: uncharacterized protein LOC100250144 [Vitis vinifera] gi|297746514|emb|CBI16570.3| unnamed protein product [Vitis vinifera]

 Score =  256 bits (654), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 133/183 (72%), Positives = 153/183 (83%)

Query: 68  QDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTF 127
           Q+F+    SQY+TYEDAFF KVKDEL SA+EHP     VA+TAGL+F+RGPRRFLF HT 
Sbjct: 64  QEFIPQMESQYRTYEDAFFKKVKDELTSAKEHPVVVGAVAVTAGLIFLRGPRRFLFHHTL 123

Query: 128 GRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQ 187
           GR +SEEA FVRAEKNV ELNLS +LMK ES+KLLERAALAEK+M  G TEL N G+Q++
Sbjct: 124 GRFQSEEAQFVRAEKNVKELNLSVDLMKNESRKLLERAALAEKDMKCGHTELMNTGSQLK 183

Query: 188 RLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELG 247
           RLAK V+KVE QAADLM+GLRE PGREALKLR+EVASM SLLK+QR  +DK+IMKISELG
Sbjct: 184 RLAKTVFKVEAQAADLMDGLRETPGREALKLRSEVASMTSLLKQQRIALDKRIMKISELG 243

Query: 248 VSV 250
           V V
Sbjct: 244 VPV 246

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357475067|ref|XP_003607819.1| hypothetical protein MTR_4g083250 [Medicago truncatula] gi|355508874|gb|AES90016.1| hypothetical protein MTR_4g083250 [Medicago truncatula] gi|388497698|gb|AFK36915.1| unknown [Medicago truncatula]

 Score =  243 bits (621), Expect = 4e-62,   Method: Compositional matrix adjust.
 Identities = 120/184 (65%), Positives = 149/184 (80%)

Query: 67  WQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHT 126
           +Q+F+   VSQY+TYEDAFF+KVKD ++ ARE+PA   G+A++  LL MRGPRRFLFRHT
Sbjct: 83  FQNFLPGAVSQYRTYEDAFFNKVKDGVMVARENPAIGVGLAVSTALLVMRGPRRFLFRHT 142

Query: 127 FGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQV 186
            GR +SEEA +  AEKNV +LNLS +L+KKES KLL+R ALAEKEM  G +EL N G Q+
Sbjct: 143 LGRFQSEEARYASAEKNVKDLNLSVDLLKKESIKLLQRTALAEKEMKYGHSELMNTGAQL 202

Query: 187 QRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISEL 246
           QRLAK  YK E +A DL++ LR+IP REAL LRAEVAS+AS LKRQR+++DK+IMKISEL
Sbjct: 203 QRLAKSSYKAEARATDLIDRLRDIPSREALTLRAEVASLASSLKRQRSVLDKRIMKISEL 262

Query: 247 GVSV 250
           G+SV
Sbjct: 263 GISV 266

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30687213|ref|NP_194371.2| uncharacterized protein [Arabidopsis thaliana] gi|27754660|gb|AAO22774.1| unknown protein [Arabidopsis thaliana] gi|28394053|gb|AAO42434.1| unknown protein [Arabidopsis thaliana] gi|332659795|gb|AEE85195.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  242 bits (618), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 120/183 (65%), Positives = 156/183 (85%)

Query: 68  QDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTF 127
           QDF+ H ++QY+TYE+AFFSKV DEL+ A+EHPAAA G+ + A L+ MRGPRRFLFR+T 
Sbjct: 81  QDFIPHALTQYKTYENAFFSKVTDELIYAKEHPAAAIGIGVAASLVLMRGPRRFLFRNTL 140

Query: 128 GRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQ 187
           GR +SEEA F++AEK+V ELN+S +LMKKES+KLLER ALAEK+M RG +EL N+GN + 
Sbjct: 141 GRFQSEEAQFLKAEKHVQELNMSVDLMKKESRKLLERTALAEKDMKRGLSELMNSGNDIH 200

Query: 188 RLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELG 247
           RLAK V+K E +AADLM+GLR+IPGR+A+KLRAEVASM SLL+++R  ++K+IM +S+LG
Sbjct: 201 RLAKSVHKAECEAADLMDGLRQIPGRDAIKLRAEVASMTSLLRQKRIALNKRIMGMSDLG 260

Query: 248 VSV 250
           VSV
Sbjct: 261 VSV 263

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576943|ref|XP_003556589.1| PREDICTED: uncharacterized protein LOC100780119 [Glycine max]

 Score =  240 bits (613), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 120/184 (65%), Positives = 148/184 (80%)

Query: 67  WQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHT 126
           +Q+F+   VSQY+TYEDAF +KVKD L+ A+E+PA + GVA++A LL MR PRRFLFRHT
Sbjct: 47  FQNFLPEAVSQYRTYEDAFVNKVKDGLMIAKENPAVSAGVAISAALLAMRAPRRFLFRHT 106

Query: 127 FGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQV 186
            GR +SEEA + R EKNV +LNLS +L+KKE+ KLL+R  LAEKEM  G TEL +AG Q 
Sbjct: 107 LGRFQSEEARYARIEKNVKDLNLSVDLLKKENAKLLQRTTLAEKEMKYGHTELVSAGTQF 166

Query: 187 QRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISEL 246
           Q+LAK  YKVET+AADL++ LR IP REAL LRAEVASMAS LKRQR+ ++K+IMKI+EL
Sbjct: 167 QQLAKSAYKVETRAADLLDKLRYIPSREALALRAEVASMASNLKRQRSSLNKRIMKINEL 226

Query: 247 GVSV 250
           GV V
Sbjct: 227 GVPV 230

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357475075|ref|XP_003607823.1| hypothetical protein MTR_4g083290 [Medicago truncatula] gi|355508878|gb|AES90020.1| hypothetical protein MTR_4g083290 [Medicago truncatula]

 Score =  240 bits (612), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 119/183 (65%), Positives = 148/183 (80%)

Query: 68  QDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHTF 127
           ++F+   VSQY+TYEDAFF+KVKD ++ ARE+PA   G+A++  LL MRGPRRFLFRHT 
Sbjct: 171 ENFLPGAVSQYRTYEDAFFNKVKDGVMVARENPAIGVGLAVSTALLVMRGPRRFLFRHTL 230

Query: 128 GRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQ 187
           GR +SEEA +  AEKNV +LNLS +L+KKES KLL+R ALAEKEM  G +EL N G Q+Q
Sbjct: 231 GRFQSEEARYASAEKNVKDLNLSVDLLKKESIKLLQRTALAEKEMKYGHSELMNTGAQLQ 290

Query: 188 RLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELG 247
           RLAK  YK E +A DL++ LR+IP REAL LRAEVAS+AS LKRQR+++DK+IMKISELG
Sbjct: 291 RLAKSSYKAEARATDLIDRLRDIPSREALTLRAEVASLASSLKRQRSVLDKRIMKISELG 350

Query: 248 VSV 250
           +SV
Sbjct: 351 ISV 353

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638282|gb|ACU19454.1| unknown [Glycine max]

 Score =  236 bits (603), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 119/184 (64%), Positives = 146/184 (79%)

Query: 67  WQDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHT 126
           +Q+F+   VSQY+TYEDAF +KVKD L+ A+E+PA + GVA++  LL MR PRRFLFRHT
Sbjct: 47  FQNFLPEAVSQYRTYEDAFVNKVKDGLMIAKENPAVSAGVAISVALLAMRAPRRFLFRHT 106

Query: 127 FGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQV 186
            GR +SEEA + R EKNV +LNLS +L+KKE+ KLL+R  LAEKEM  G TEL +AG Q 
Sbjct: 107 LGRFQSEEARYARIEKNVKDLNLSVDLLKKENAKLLQRTTLAEKEMKYGHTELVSAGTQF 166

Query: 187 QRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISEL 246
           Q+LAK  YKVET+AADL++ LR IP REAL LRAEVASMAS LKRQR  ++K+IMKI+EL
Sbjct: 167 QQLAKSAYKVETRAADLLDKLRYIPSREALALRAEVASMASNLKRQRFSLNKRIMKINEL 226

Query: 247 GVSV 250
           GV V
Sbjct: 227 GVPV 230

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	250
TAIR|locus:2131473	263	AT4G26410 "AT4G26410" [Arabido	0.732	0.695	0.562	3.6e-50
TAIR|locus:2055578	272	AT2G45060 "AT2G45060" [Arabido	0.7	0.643	0.342	4.2e-24

TAIR|locus:2131473 AT4G26410 "AT4G26410" [Arabidopsis thaliana (taxid:3702)]

 Score = 522 (188.8 bits), Expect = 3.6e-50, P = 3.6e-50
 Identities = 103/183 (56%), Positives = 133/183 (72%)

Query:    68 QDFVLHGVSQYQTYEDAFFSKVKDELVSAREHPXXXXXXXXXXXXXFMRGPRRFLFRHTF 127
             QDF+ H ++QY+TYE+AFFSKV DEL+ A+EHP              MRGPRRFLFR+T 
Sbjct:    81 QDFIPHALTQYKTYENAFFSKVTDELIYAKEHPAAAIGIGVAASLVLMRGPRRFLFRNTL 140

Query:   128 GRLRSEEAMFVRAEKNVNELNXXXXXXXXXXXXXXXRAALAEKEMIRGETELKNAGNQVQ 187
             GR +SEEA F++AEK+V ELN               R ALAEK+M RG +EL N+GN + 
Sbjct:   141 GRFQSEEAQFLKAEKHVQELNMSVDLMKKESRKLLERTALAEKDMKRGLSELMNSGNDIH 200

Query:   188 RLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELG 247
             RLAK V+K E +AADLM+GLR+IPGR+A+KLRAEVASM SLL+++R  ++K+IM +S+LG
Sbjct:   201 RLAKSVHKAECEAADLMDGLRQIPGRDAIKLRAEVASMTSLLRQKRIALNKRIMGMSDLG 260

Query:   248 VSV 250
             VSV
Sbjct:   261 VSV 263

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

TAIR|locus:2055578 AT2G45060 "AT2G45060" [Arabidopsis thaliana (taxid:3702)]

 Score = 276 (102.2 bits), Expect = 4.2e-24, P = 4.2e-24
 Identities = 60/175 (34%), Positives = 91/175 (52%)

Query:    76 SQYQTYEDAFFSKVKDELVSAREHPXXXXXXXXXXXXXFMRGPRRFLFRHTFGRLRSEEA 135
             S+Y  YE   F K+KD +  A  HP              ++  RRF++ +T     SEEA
Sbjct:    98 SEYNVYEQMVFGKIKDGVNVAASHPLISGTLAFGVGIFALKKTRRFVYYNTVRMFVSEEA 157

Query:   136 MFVRAEKNVNELNXXXXXXXXXXXXXXXRAALAEKEMIRGETELKNAGNQVQRLAKQVYK 195
             +  RA+  V EL                 A +AE+E IRG  +L+ AG Q++      YK
Sbjct:   158 LLSRADLKVKELRQSMDRLKAESEKLERVATVAEEEFIRGRMKLRQAGKQIRGAISSAYK 217

Query:   196 VETQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMMDKQIMKISELGVSV 250
             +E QAA L + L+E+P REA + R +++  AS +K++R  + K++ KIS  G+SV
Sbjct:   218 IEKQAAGLKDVLKELPTREASRFRTQISKRASEVKQERNALTKEVNKISNYGISV 272


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        0.325   0.136   0.389    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      250       222   0.00096  112 3  11 22  0.45    32
                                                     32  0.40    36


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:  2
  No. of states in DFA:  590 (63 KB)
  Total size of DFA:  154 KB (2093 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:  19.02u 0.11s 19.13t   Elapsed:  00:00:01
  Total cpu time:  19.02u 0.11s 19.13t   Elapsed:  00:00:01
  Start:  Mon May 20 23:26:59 2013   End:  Mon May 20 23:27:00 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005739 "mitochondrion" evidence=IDA

GO:0006007 "glucose catabolic 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: grail3.0116001202 hypothetical protein (239 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	250
PRK09039	343	hypothetical protein; Validated	96.57
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	96.4
KOG1962	216	consensus B-cell receptor-associated protein and r	96.06
PF05957	94	DUF883: Bacterial protein of unknown function (DUF	96.03
PRK11637	428	AmiB activator; Provisional	95.46
PRK10404	101	hypothetical protein; Provisional	95.43
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	95.2
PF06008	264	Laminin_I: Laminin Domain I; InterPro: IPR009254 L	95.15
PRK10132	108	hypothetical protein; Provisional	91.98
PRK15178	434	Vi polysaccharide export inner membrane protein Ve	91.61
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	91.3
PF10186	302	Atg14: UV radiation resistance protein and autopha	90.2
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	90.16
PF10112	199	Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate	89.57
COG4575	104	ElaB Uncharacterized conserved protein [Function u	89.52
PRK14161	178	heat shock protein GrpE; Provisional	89.48
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	88.42
TIGR01843	423	type_I_hlyD type I secretion membrane fusion prote	88.28
COG4942	420	Membrane-bound metallopeptidase [Cell division and	88.28
PRK14160	211	heat shock protein GrpE; Provisional	88.26
PF04632	650	FUSC: Fusaric acid resistance protein family; Inte	84.14
PRK14475	167	F0F1 ATP synthase subunit B; Provisional	84.05
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	84.02
PF04012	221	PspA_IM30: PspA/IM30 family; InterPro: IPR007157 T	83.5
PF05667	594	DUF812: Protein of unknown function (DUF812); Inte	83.12
PF10112	199	Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate	82.95
PRK06569	155	F0F1 ATP synthase subunit B'; Validated	82.5
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	82.44
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	82.02
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	81.38
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	81.32
KOG0994	1758	consensus Extracellular matrix glycoprotein Lamini	81.29
PRK11637	428	AmiB activator; Provisional	80.56
TIGR02168	1179	SMC_prok_B chromosome segregation protein SMC, com	80.51
PRK14140	191	heat shock protein GrpE; Provisional	80.14

>PRK09039 hypothetical protein; Validated

Probab=96.57  E-value=0.53  Score=44.35  Aligned_cols=76  Identities=18%  Similarity=0.216  Sum_probs=65.5

Q ss_pred             hhhccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHH-HHHHHhhHHHH
Q 025643          128 GRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQ-VYKVETQAADL  203 (250)
Q Consensus       128 gRF~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ss-vyK~E~~A~gL  203 (250)
                      ..+..+++..+.+...|.-|++-|+.+++.+..|+..+..+|++-.--+.++..-+..|+..+.. +-..++=...+
T Consensus       123 ~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~~~  199 (343)
T PRK09039        123 QELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQELNRYRSEF  199 (343)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence            67888999999999999999999999999999999999999999988888999999999888744 55555554445

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=96.40  E-value=0.48  Score=39.77  Aligned_cols=100  Identities=16%  Similarity=0.235  Sum_probs=60.1

Q ss_pred             HHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCchhH
Q 025643          136 MFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREA  215 (250)
Q Consensus       136 ll~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsreA  215 (250)
                      -+...+....++.+.++.+.+....+......-++++...+..++.....++++-......++....+.        .+-
T Consensus        82 e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~--------~~~  153 (191)
T PF04156_consen   82 ELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ--------KEL  153 (191)
T ss_pred             hHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHH
Confidence            445555555555555666655555555566666666666666677777777777777777777777666        444


Q ss_pred             HhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 025643          216 LKLRAEVASMASLLKRQRAMMDKQIMKI  243 (250)
Q Consensus       216 ~~LRsEVAs~AS~lK~qR~aL~k~l~KI  243 (250)
                      .+.+.++..+..+++.-+...+.-..++
T Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~  181 (191)
T PF04156_consen  154 QDSREEVQELRSQLERLQENLQQLEEKI  181 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555544444333333

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=96.06  E-value=0.37  Score=43.84  Aligned_cols=174  Identities=21%  Similarity=0.221  Sum_probs=88.8

Q ss_pred             CCchhHHHHHHHHHH---------HHHHHHHhhhHHHHHHHHHhhhhHhhHhhHHhHH---H-HHHHh-HHHHHHHHhhc
Q 025643           34 PPGFWFGLVSSIFLL---------ILVYLIFSHSFLVLSMLLWQDFVLHGVSQYQTYE---D-AFFSK-VKDELVSAREH   99 (250)
Q Consensus        34 ~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~lq~~~~~~~sqy~~yE---d-~fF~k-iKegv~~A~eh   99 (250)
                      ||..|-.+..+.+..         |.+..++---.|..+++..|.+    .++|..-.   + ..... ..+.+-.|.-|
T Consensus        24 p~r~~~~~~~~~~~~~~~~~~~~~i~~~~~villlfiDsvr~i~~~----~~~~~~~~n~~~~~~a~~~~~~~l~raqrn   99 (216)
T KOG1962|consen   24 PPRRRRKIFKDRLKSGLAPQVLKTIATTMIVILLLFIDSVRRIQKY----VSEYGSMANPTDQPLARTHLLEALFRAQRN   99 (216)
T ss_pred             CHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhhhhcccCCccchHHHHHHHHHHHHHHhh
Confidence            888887766553321         1122222223456667777776    45554433   1 11222 34444455555


Q ss_pred             chhhHHHHHHHhHhhccchhHHHHHHhhhhhccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHH
Q 025643          100 PAAATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETEL  179 (250)
Q Consensus       100 P~~a~g~a~~agllll~gPRRfLyr~TlgRF~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkL  179 (250)
                      -||++ .+.-.+++.   +|=   .+-+++...+++. ..|.++...+++..+..++    |++..+...+|...=+++|
T Consensus       100 ~YisG-f~LFL~lvI---~R~---~~ll~~l~~l~~~-~~~~~~~~~lk~~~~~~~~----~~~~~~~~~~~~~kL~~el  167 (216)
T KOG1962|consen  100 LYISG-FVLFLSLVI---RRL---HTLLRELATLRAN-EKAMKENEALKKQLENSSK----LEEENDKLKADLEKLETEL  167 (216)
T ss_pred             hHHhH-HHHHHHHHH---HHH---HHHHHHHHHHHhh-HHHHHHHHHHHHhhhcccc----hhhhHHHHHhhHHHHHHHH
Confidence            55543 333333332   222   2334555555554 5555666666666555443    3333333444444444445


Q ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCchhHHhHHHHHHH
Q 025643          180 KNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVAS  224 (250)
Q Consensus       180 r~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsreA~~LRsEVAs  224 (250)
                      +...+.+....+.+--..+|+.++.+.-..+ ..|.++||.+|-+
T Consensus       168 ~~~~~~Le~~~~~~~al~Kq~e~~~~EydrL-lee~~~Lq~~i~~  211 (216)
T KOG1962|consen  168 EKKQKKLEKAQKKVDALKKQSEGLQDEYDRL-LEEYSKLQEQIES  211 (216)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcccHHHHH-HHHHHHHHHHHhc
Confidence            5555555555566666667777776655544 3477888888753

>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD

Probab=96.03  E-value=0.035  Score=42.55  Aligned_cols=55  Identities=15%  Similarity=0.129  Sum_probs=41.9

Q ss_pred             HHHHHHHHhhhhHhhHhhHHhHHHHHHHhHHHHHH----HHhhcchhhHHHHHHHhHhh
Q 025643           60 LVLSMLLWQDFVLHGVSQYQTYEDAFFSKVKDELV----SAREHPAAATGVALTAGLLF  114 (250)
Q Consensus        60 ~~~~~~~lq~~~~~~~sqy~~yEd~fF~kiKegv~----~A~ehP~~a~g~a~~aglll  114 (250)
                      .+..-+.+.+.++.+...++.+-+.+-.+.++++.    .+++||+.+.|+|+++|||+
T Consensus        29 ~~~~r~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~V~e~P~~svgiAagvG~ll   87 (94)
T PF05957_consen   29 ADEARDRAEEALDDARDRAEDAADQAREQAREAAEQTEDYVRENPWQSVGIAAGVGFLL   87 (94)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHH
Confidence            44555666677777777777777777777666554    78999999999999999986

>PRK11637 AmiB activator; Provisional

Probab=95.46  E-value=0.88  Score=43.23  Aligned_cols=94  Identities=12%  Similarity=0.170  Sum_probs=52.1

Q ss_pred             HHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCchhHHhH
Q 025643          139 RAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKL  218 (250)
Q Consensus       139 ~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsreA~~L  218 (250)
                      ..+++.+++++.++..+++.+.+++.....+.++..=..+|..+..+|..+-..+-+++.+.               ..+
T Consensus        44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei---------------~~l  108 (428)
T PRK11637         44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQI---------------DEL  108 (428)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHH
Confidence            34555556666666666666655555555555544444444444444444444444443332               345


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 025643          219 RAEVASMASLLKRQRAMMDKQIMKISELG  247 (250)
Q Consensus       219 RsEVAs~AS~lK~qR~aL~k~l~KIs~~G  247 (250)
                      ..+++.+-.++.+++..+.+++.-+-..|
T Consensus       109 ~~eI~~~q~~l~~~~~~l~~rlra~Y~~g  137 (428)
T PRK11637        109 NASIAKLEQQQAAQERLLAAQLDAAFRQG  137 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            56667777777777777777766665544

>PRK10404 hypothetical protein; Provisional

Probab=95.43  E-value=0.053  Score=43.52  Aligned_cols=52  Identities=15%  Similarity=0.209  Sum_probs=40.3

Q ss_pred             HHHHHhhhhHhhHhhHHhHHHHHHHhHHHHH----HHHhhcchhhHHHHHHHhHhh
Q 025643           63 SMLLWQDFVLHGVSQYQTYEDAFFSKVKDEL----VSAREHPAAATGVALTAGLLF  114 (250)
Q Consensus        63 ~~~~lq~~~~~~~sqy~~yEd~fF~kiKegv----~~A~ehP~~a~g~a~~aglll  114 (250)
                      .=+.++..+..+..+....++.+..+.|+++    ..+++||+-+.|+++++||++
T Consensus        39 lR~r~~~~L~~ar~~l~~~~~~~~~~~k~aa~~td~yV~e~Pw~avGiaagvGlll   94 (101)
T PRK10404         39 LKARAEKALDDVKKRVSQASDSYYYRAKQAVYRADDYVHEKPWQGIGVGAAVGLVL   94 (101)
T ss_pred             HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            3345666666667777778888888777765    488999999999999999875

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

Probab=95.20  E-value=0.54  Score=43.19  Aligned_cols=114  Identities=17%  Similarity=0.254  Sum_probs=70.8

Q ss_pred             HHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHH--HHHHHHHHHHHHHHHhhHHHHHHhcccCC-
Q 025643          135 AMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNA--GNQVQRLAKQVYKVETQAADLMEGLREIP-  211 (250)
Q Consensus       135 all~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~a--G~qIq~L~ssvyK~E~~A~gL~d~LR~LP-  211 (250)
                      +.+.++-+.+..++..++.++++...++....-+++.+.+++.+|.++  .+++..|-..++..+++...|.|.|.++= 
T Consensus        38 ~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~  117 (239)
T COG1579          38 AELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELME  117 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344555555666666666666666665555555555555555555322  23455555555555555555555544443 


Q ss_pred             -----chhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 025643          212 -----GREALKLRAEVASMASLLKRQRAMMDKQIMKISELGV  248 (250)
Q Consensus       212 -----sreA~~LRsEVAs~AS~lK~qR~aL~k~l~KIs~~GV  248 (250)
                           ..+...++.++..+-.++...+..++.++.+|-+-|.
T Consensus       118 ~~~~l~~~i~~l~~~~~~~e~~~~e~~~~~e~e~~~i~e~~~  159 (239)
T COG1579         118 EIEKLEKEIEDLKERLERLEKNLAEAEARLEEEVAEIREEGQ  159 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 3466778888888888888888888888888877654

>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells

Probab=95.15  E-value=1.8  Score=38.71  Aligned_cols=128  Identities=17%  Similarity=0.242  Sum_probs=98.0

Q ss_pred             hccchhHHHH---------HHhhhhhccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHH
Q 025643          114 FMRGPRRFLF---------RHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGN  184 (250)
Q Consensus       114 ll~gPRRfLy---------r~TlgRF~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~  184 (250)
                      .+|.|.+++|         +.-.+.+..-...+...+.++..|...++.+..+..+....+.....+-.+-..+-..-..
T Consensus        15 ~~~~~~~l~~~~e~~~~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~   94 (264)
T PF06008_consen   15 AWPAPYKLLSSIEDLTNQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQ   94 (264)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5689999988         2233334444556788888888888888888888888888887777777777777777777


Q ss_pred             HHHHHHHHHHHHHhhHHHHHHhcccCCchhHHhHHHHHHHHHHHHHH-----HHHHHHHHHH
Q 025643          185 QVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLKR-----QRAMMDKQIM  241 (250)
Q Consensus       185 qIq~L~ssvyK~E~~A~gL~d~LR~LPsreA~~LRsEVAs~AS~lK~-----qR~aL~k~l~  241 (250)
                      .|+.+...|-.+-.++.++=.....+|+.+-.+..+|+..|-.++++     +|...+.++.
T Consensus        95 ~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r~f~~~~~~Ae~El~  156 (264)
T PF06008_consen   95 FIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKRDFTPQRQNAEDELK  156 (264)
T ss_pred             HHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHH
Confidence            88888888888888888877777789999999999999999998853     4555554443

Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex

>PRK10132 hypothetical protein; Provisional

Probab=91.98  E-value=0.54  Score=38.31  Aligned_cols=50  Identities=16%  Similarity=0.189  Sum_probs=34.3

Q ss_pred             HHHHhhhhHhhHhhHHhHHHHHHHhHHHHHH----HHhhcchhhHHHHHHHhHhh
Q 025643           64 MLLWQDFVLHGVSQYQTYEDAFFSKVKDELV----SAREHPAAATGVALTAGLLF  114 (250)
Q Consensus        64 ~~~lq~~~~~~~sqy~~yEd~fF~kiKegv~----~A~ehP~~a~g~a~~aglll  114 (250)
                      =+.+++.+..+...+...|+. ..+.|+++.    .+++||..+.|+++++||++
T Consensus        47 R~r~~~~L~~ar~~l~~~~~~-~~~~~~a~~~~~~~V~~~Pw~svgiaagvG~ll  100 (108)
T PRK10132         47 RRKAQALLKETRARMHGRTRV-QQAARDAVGCADTFVRERPWCSVGTAAAVGIFI  100 (108)
T ss_pred             HHHHHHHHHHHHHHHhhhHHH-HHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            345555666666666666663 455566554    67779999999999988875

>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional

Probab=91.61  E-value=4.1  Score=40.38  Aligned_cols=104  Identities=15%  Similarity=0.195  Sum_probs=70.4

Q ss_pred             HHHHHHHHHhHHHHHHhH-----HhhHHHHHHHHHHHHHHHHHHHchHH--HHHHHHHHHHHHHHHHHHHHhhHHHHHHh
Q 025643          134 EAMFVRAEKNVNELNLSG-----ELMKKESKKLLERAALAEKEMIRGET--ELKNAGNQVQRLAKQVYKVETQAADLMEG  206 (250)
Q Consensus       134 Eall~~Ae~kV~eLr~sv-----dl~k~Es~KL~eraa~AE~Em~RGrt--kLr~aG~qIq~L~ssvyK~E~~A~gL~d~  206 (250)
                      ++|+..+|+-||+|.+-+     .-...|.++.++|+..|...+..=|+  .+-.-.++......-+.+.|.+-..+.-.
T Consensus       222 ~aLL~~sE~~VN~Ls~rar~D~v~~Ae~ev~~Ae~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~ae  301 (434)
T PRK15178        222 QRILSFAEQHVNTVSARMQKERILWLENDVKSAQENLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAKAE  301 (434)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            468999999999997643     33444555555555544444432221  12234456667788888999988888877


Q ss_pred             cccC-----Cch-hHHhHHHHHHHHHHHHHHHHHHHH
Q 025643          207 LREI-----PGR-EALKLRAEVASMASLLKRQRAMMD  237 (250)
Q Consensus       207 LR~L-----Psr-eA~~LRsEVAs~AS~lK~qR~aL~  237 (250)
                      |..|     |.. +-..++++|+.+-.++.++|.-+.
T Consensus       302 L~~L~~~~~p~sPqV~~l~~rI~aLe~QIa~er~kl~  338 (434)
T PRK15178        302 YAQLMVNGLDQNPLIPRLSAKIKVLEKQIGEQRNRLS  338 (434)
T ss_pred             HHHHHhhcCCCCCchhHHHHHHHHHHHHHHHHHHHhh
Confidence            7755     333 667889999999999999888774

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

Probab=91.30  E-value=10  Score=33.68  Aligned_cols=89  Identities=26%  Similarity=0.333  Sum_probs=67.4

Q ss_pred             HHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCch-
Q 025643          135 AMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGR-  213 (250)
Q Consensus       135 all~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsr-  213 (250)
                      .....++.++.+....+..+..++.+.++|+..+|.....=...|+..+..|+++--+.-+....-..+-+.++.|..+ 
T Consensus       106 ~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~lE~~~~~~~~re~~~e~~i~~L~~~l  185 (237)
T PF00261_consen  106 RRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKSLEASEEKASEREDEYEEKIRDLEEKL  185 (237)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            4567788888888888899999999999999999999999999999999999998766665555545555555555444 


Q ss_pred             hHHhHHHHHH
Q 025643          214 EALKLRAEVA  223 (250)
Q Consensus       214 eA~~LRsEVA  223 (250)
                      .-.+-|++.|
T Consensus       186 keaE~Rae~a  195 (237)
T PF00261_consen  186 KEAENRAEFA  195 (237)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            3334454444

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 ....

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=90.20  E-value=12  Score=32.63  Aligned_cols=95  Identities=16%  Similarity=0.224  Sum_probs=48.2

Q ss_pred             HHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCchhHHhHHHHHHHHHHHHH
Q 025643          151 GELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVASMASLLK  230 (250)
Q Consensus       151 vdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsreA~~LRsEVAs~AS~lK  230 (250)
                      ++..+.....+.++.....+++...+.++.....+|+..-+..-..+.......+.+.+++. +-.+.+.++..+...+.
T Consensus        65 ~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~l~~~l~  143 (302)
T PF10186_consen   65 IEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLSASQDLVESRQEQLEELQN-ELEERKQRLSQLQSQLA  143 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence            33333333333344444444444444444443334333333222111222233333333322 33457777888899999


Q ss_pred             HHHHHHHHHHHHHhhc
Q 025643          231 RQRAMMDKQIMKISEL  246 (250)
Q Consensus       231 ~qR~aL~k~l~KIs~~  246 (250)
                      ..|..+-+.+..|+--
T Consensus       144 ~~r~~l~~~l~~ifpI  159 (302)
T PF10186_consen  144 RRRRQLIQELSEIFPI  159 (302)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999999999888754

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=90.16  E-value=7  Score=32.09  Aligned_cols=59  Identities=15%  Similarity=0.213  Sum_probs=47.1

Q ss_pred             HHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHH
Q 025643          135 AMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQV  193 (250)
Q Consensus       135 all~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssv  193 (250)
                      ..-.....+...+...++.+++..++|.++.+.+|.++.--..+.++..++++++....
T Consensus        52 ~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~  110 (151)
T PF11559_consen   52 EQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKL  110 (151)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445566777888888889999999999999999999888888888888888765543

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds

Probab=89.57  E-value=7.6  Score=33.26  Aligned_cols=23  Identities=26%  Similarity=0.683  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHH
Q 025643           39 FGLVSSIFLLILVYLIFSHSFLV   61 (250)
Q Consensus        39 ~~~~~~~~~~~~~~~~~~~~~~~   61 (250)
                      .|.+.+++..+++|+.+.|+|+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~l   35 (199)
T PF10112_consen   13 LGVLIAAITFLVSFFGFDHSFLL   35 (199)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHH
Confidence            45555556666677777777654

>COG4575 ElaB Uncharacterized conserved protein [Function unknown]

Probab=89.52  E-value=1.1  Score=36.88  Aligned_cols=39  Identities=31%  Similarity=0.401  Sum_probs=29.0

Q ss_pred             hhHHhHHHHHHHhHHHHHH----HHhhcchhhHHHHHHHhHhh
Q 025643           76 SQYQTYEDAFFSKVKDELV----SAREHPAAATGVALTAGLLF  114 (250)
Q Consensus        76 sqy~~yEd~fF~kiKegv~----~A~ehP~~a~g~a~~aglll  114 (250)
                      .+....=|.+....|+++.    .+.+||.-+.|+++++|+|+
T Consensus        55 ~rl~~~~d~v~~~sk~a~~~tD~yV~e~PWq~VGvaAaVGlll   97 (104)
T COG4575          55 DRLGDTGDAVVQRSKAAADATDDYVRENPWQGVGVAAAVGLLL   97 (104)
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHH
Confidence            3333444666677777664    78999999999999999875

>PRK14161 heat shock protein GrpE; Provisional

Probab=89.48  E-value=7.8  Score=33.99  Aligned_cols=78  Identities=18%  Similarity=0.185  Sum_probs=56.4

Q ss_pred             ccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccC
Q 025643          131 RSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREI  210 (250)
Q Consensus       131 ~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~L  210 (250)
                      .+|+.+..-++.-++.++..++.++.|.+.+.|+..-+..||..=|-...   ++...  -.-|..|+-+..|++.+..|
T Consensus         8 ~~~~~~~~~~~~~~~~~~~ei~~l~~e~~elkd~~lR~~AefeN~rkR~~---ke~~~--~~~~a~~~~~~~LLpv~Dnl   82 (178)
T PRK14161          8 NNEQTINDIAEEIVETANPEITALKAEIEELKDKLIRTTAEIDNTRKRLE---KARDE--AKDYAIATFAKELLNVSDNL   82 (178)
T ss_pred             ccHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHH--HHHHHHHHHHHHHhhHHhHH
Confidence            36888999999999999999988888888888777766666655443222   22222  23477888899998888777


Q ss_pred             Cch
Q 025643          211 PGR  213 (250)
Q Consensus       211 Psr  213 (250)
                      =+.
T Consensus        83 erA   85 (178)
T PRK14161         83 SRA   85 (178)
T ss_pred             HHH
Confidence            543

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=88.42  E-value=17  Score=33.15  Aligned_cols=33  Identities=9%  Similarity=0.153  Sum_probs=14.0

Q ss_pred             HhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHc
Q 025643          142 KNVNELNLSGELMKKESKKLLERAALAEKEMIR  174 (250)
Q Consensus       142 ~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~R  174 (250)
                      .+.+.++..++.++.+.+.+......+++++.+
T Consensus       151 ~~i~~~~~~i~~~~~~l~~~~~~l~~~~~~~~~  183 (423)
T TIGR01843       151 AQIKQLEAELAGLQAQLQALRQQLEVISEELEA  183 (423)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444444444444444444444444444443

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family

Probab=88.28  E-value=20  Score=32.65  Aligned_cols=23  Identities=4%  Similarity=0.138  Sum_probs=9.6

Q ss_pred             CCchhHHHHHHHH-HHHHHHHHHh
Q 025643           34 PPGFWFGLVSSIF-LLILVYLIFS   56 (250)
Q Consensus        34 ~~~~~~~~~~~~~-~~~~~~~~~~   56 (250)
                      |+..|+.++..+| +.+++|++|.
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~   25 (423)
T TIGR01843         2 RFARLITWLIAGLVVIFFLWAYFA   25 (423)
T ss_pred             cchhhHHHHHHHHHHHHHHHHhhe
Confidence            4444444333333 3334455553

Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.

>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

Probab=88.28  E-value=18  Score=36.01  Aligned_cols=78  Identities=19%  Similarity=0.244  Sum_probs=55.0

Q ss_pred             hhccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcc
Q 025643          129 RLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLR  208 (250)
Q Consensus       129 RF~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR  208 (250)
                      ...++ .-++..+++.++++.++...+.+.++|++.+.-.|.|+..=...|++++..+..+-+.+-       ++-+.|.
T Consensus        33 ~~a~~-~~l~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~-------~~~~~l~  104 (420)
T COG4942          33 AAADD-KQLKQIQKEIAALEKKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIA-------DLNARLN  104 (420)
T ss_pred             HHhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHH-------HHHHHHH
Confidence            34444 668889999999999999999999999988888888776666666666655555544444       4444454


Q ss_pred             cCCchh
Q 025643          209 EIPGRE  214 (250)
Q Consensus       209 ~LPsre  214 (250)
                      .++..+
T Consensus       105 ~l~~q~  110 (420)
T COG4942         105 ALEVQE  110 (420)
T ss_pred             HHHHHH
Confidence            454444

>PRK14160 heat shock protein GrpE; Provisional

Probab=88.26  E-value=11  Score=34.06  Aligned_cols=75  Identities=16%  Similarity=0.152  Sum_probs=46.0

Q ss_pred             cHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHH--HHHHHHhhHHHHHHhccc
Q 025643          132 SEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAK--QVYKVETQAADLMEGLRE  209 (250)
Q Consensus       132 SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~s--svyK~E~~A~gL~d~LR~  209 (250)
                      |+|+.+...+..++.|++.++.+++|.+.+.++..-+..||       -+..+-.++-..  .-|..++-+..|+..+..
T Consensus        51 ~~~~~~~~l~~e~~~l~~~l~~l~~e~~elkd~~lR~~Aef-------eN~RKR~~kE~e~~~~~a~e~~~~~LLpVlDn  123 (211)
T PRK14160         51 SNEVKIEELKDENNKLKEENKKLENELEALKDRLLRTVAEY-------DNYRKRTAKEKEGIYSDACEDVLKELLPVLDN  123 (211)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhH
Confidence            44555666666666666666666666666655555444444       444444433332  356788899999988888


Q ss_pred             CCch
Q 025643          210 IPGR  213 (250)
Q Consensus       210 LPsr  213 (250)
                      |=+.
T Consensus       124 LerA  127 (211)
T PRK14160        124 LERA  127 (211)
T ss_pred             HHHH
Confidence            7655

>PF04632 FUSC: Fusaric acid resistance protein family; InterPro: IPR006726 This entry represents the p-hydroxybenzoic acid efflux pump subunit AaeB (pHBA efflux pump protein B) whose substrates are p-hydroxybenzoic acid (pHBA), 6-hydroxy-2-naphthoic and 2-hydroxycinnamate

Probab=84.14  E-value=44  Score=32.71  Aligned_cols=108  Identities=16%  Similarity=0.127  Sum_probs=60.0

Q ss_pred             hhHHHHHHHhHhhcc-chhHHHHHHhhhhhccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHH
Q 025643          102 AATGVALTAGLLFMR-GPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELK  180 (250)
Q Consensus       102 ~a~g~a~~agllll~-gPRRfLyr~TlgRF~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr  180 (250)
                      +.+.|++.+..+++| +++.-|-++.-.++..-...+......-.+=......+.++...+++....+.-|..+++.   
T Consensus       137 iGi~~a~~v~~l~~P~~~~~~l~~~l~~~l~~~~~~~~~~l~~~~~~~~~~~~l~~~~~~l~~~~~~~~~e~~~~~~---  213 (650)
T PF04632_consen  137 IGILCATLVSMLFFPQRARRQLRRRLAQRLADLARWLAALLDGDPDPAAERRRLARDIAALESLLSHARYESPRLRR---  213 (650)
T ss_pred             HHHHHHHHHHHHhCCccHHHHHHHHHHHHHHHHHHHHHHHhCCCcccchHHHHHHHHHHHHHHHHhhccccCchhHH---
Confidence            455666677888888 7777777777777766555555443322222223445555666666666666655544333   


Q ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHhcccCCch
Q 025643          181 NAGNQVQRLAKQVYKVETQAADLMEGLREIPGR  213 (250)
Q Consensus       181 ~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsr  213 (250)
                       ....++.+..+....=.....+-+.+..+|..
T Consensus       214 -~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~  245 (650)
T PF04632_consen  214 -RRRRLRALQARLLRLLALLRSLARRLAALPDA  245 (650)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence             33444445444444444555555555544443

It could function as a metabolic relief valve, allowing to eliminate certain compounds when they accumulate to high levels in the cell []. This family also includes fusaric acid resistance proteins [], which are likely to be membrane transporter proteins, and uncharacterised transporter YdhK.; GO: 0006810 transport, 0005886 plasma membrane

>PRK14475 F0F1 ATP synthase subunit B; Provisional

Probab=84.05  E-value=24  Score=29.66  Aligned_cols=53  Identities=13%  Similarity=0.137  Sum_probs=29.5

Q ss_pred             HHHHHHHHhHHHHHHhHHhhHHHHHHHHHHH-HHHHHHHHchHHHHHHHHHHHH
Q 025643          135 AMFVRAEKNVNELNLSGELMKKESKKLLERA-ALAEKEMIRGETELKNAGNQVQ  187 (250)
Q Consensus       135 all~~Ae~kV~eLr~svdl~k~Es~KL~era-a~AE~Em~RGrtkLr~aG~qIq  187 (250)
                      ..-..|+...++++..+...+.|.+...+.+ ..|+.+...-+.+.+.....+.
T Consensus        55 ~~k~eAe~~~~~~e~~L~~A~~ea~~Ii~~A~~~a~~~~~~~~~~A~~ea~~~~  108 (167)
T PRK14475         55 RLREEAQALLADVKAEREEAERQAAAMLAAAKADARRMEAEAKEKLEEQIKRRA  108 (167)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445566667777777777777777665443 3445555444444443333333

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=84.02  E-value=24  Score=29.58  Aligned_cols=71  Identities=15%  Similarity=0.237  Sum_probs=61.9

Q ss_pred             hhhccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHh
Q 025643          128 GRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVET  198 (250)
Q Consensus       128 gRF~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~  198 (250)
                      +.....+..++..+++..++...+..+.++..++.+--...+++++.-..++......+..+.+..-+..+
T Consensus        81 ~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~~  151 (191)
T PF04156_consen   81 GELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQK  151 (191)
T ss_pred             hhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            47778899999999999999999999999999998888888888888888888888888888888888773

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription

Probab=83.50  E-value=26  Score=30.17  Aligned_cols=92  Identities=25%  Similarity=0.334  Sum_probs=48.4

Q ss_pred             HHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHH--------HHHHH-------HHHHHHHHHHHHhhHH
Q 025643          137 FVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELK--------NAGNQ-------VQRLAKQVYKVETQAA  201 (250)
Q Consensus       137 l~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr--------~aG~q-------Iq~L~ssvyK~E~~A~  201 (250)
                      +..+-+..+.+...++....+..+++++|..|   +..|+-+|-        ..-.+       +......+-+++.+-.
T Consensus        46 ~a~~~a~~~~le~~~~~~~~~~~~~~~~A~~A---l~~g~edLAr~al~~k~~~e~~~~~l~~~~~~~~~~~~~l~~~l~  122 (221)
T PF04012_consen   46 LARVMANQKRLERKLDEAEEEAEKWEKQAELA---LAAGREDLAREALQRKADLEEQAERLEQQLDQAEAQVEKLKEQLE  122 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455556667777777788888888777666   555555542        22223       3333334444444444


Q ss_pred             HHHHhcccCCch-hHHhHHHHHHHHHHHHHH
Q 025643          202 DLMEGLREIPGR-EALKLRAEVASMASLLKR  231 (250)
Q Consensus       202 gL~d~LR~LPsr-eA~~LRsEVAs~AS~lK~  231 (250)
                      .+.+.|.++-.+ +.+.-|.+++.....+..
T Consensus       123 ~l~~kl~e~k~k~~~l~ar~~~a~a~~~~~~  153 (221)
T PF04012_consen  123 ELEAKLEELKSKREELKARENAAKAQKKVNE  153 (221)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444444 444445555544444433

The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].

>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function

Probab=83.12  E-value=37  Score=34.98  Aligned_cols=107  Identities=18%  Similarity=0.298  Sum_probs=78.8

Q ss_pred             HHHHHHHHHhHHHHHHhHHhhHH----HHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhccc
Q 025643          134 EAMFVRAEKNVNELNLSGELMKK----ESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLRE  209 (250)
Q Consensus       134 Eall~~Ae~kV~eLr~svdl~k~----Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~  209 (250)
                      ++++.....++.+|...-+..+.    |.+.|.+....=+.|.++=..+++....+++.++..+..=|-.-.-|...+..
T Consensus       400 ~~~v~~s~~rl~~L~~qWe~~R~pL~~e~r~lk~~~~~~~~e~~~~~~~ik~~r~~~k~~~~e~~~Kee~~~qL~~e~e~  479 (594)
T PF05667_consen  400 QALVEASEQRLVELAQQWEKHRAPLIEEYRRLKEKASNRESESKQKLQEIKELREEIKEIEEEIRQKEELYKQLVKELEK  479 (594)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45677777888888877777654    44555666666678888888999999999999999999999999999999999


Q ss_pred             CCch-hHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 025643          210 IPGR-EALKLRAEVASMASLLKRQRAMMDKQI  240 (250)
Q Consensus       210 LPsr-eA~~LRsEVAs~AS~lK~qR~aL~k~l  240 (250)
                      +|.. .=+..=.-|=.++..+++|+.-++|-+
T Consensus       480 ~~k~~~Rs~Yt~RIlEIv~NI~KQk~eI~KIl  511 (594)
T PF05667_consen  480 LPKDVNRSAYTRRILEIVKNIRKQKEEIEKIL  511 (594)
T ss_pred             CCCCCCHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            9987 111222335566677777776555443

>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds

Probab=82.95  E-value=23  Score=30.34  Aligned_cols=83  Identities=13%  Similarity=0.172  Sum_probs=49.7

Q ss_pred             CCCCchhHHHHHHHHHHHHHHHHHhhhHHH----------HHHHHHhhhhHhhHhhHHhHHHHHHHh-------------
Q 025643           32 SNPPGFWFGLVSSIFLLILVYLIFSHSFLV----------LSMLLWQDFVLHGVSQYQTYEDAFFSK-------------   88 (250)
Q Consensus        32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~lq~~~~~~~sqy~~yEd~fF~k-------------   88 (250)
                      ..+..||++++.++...+.+|+...-..-.          .-.+.++.-+..|..+++..|+....-             
T Consensus        28 ~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~k~~~~~gls~~e~~~~~~~l~ea~~~i~~i~~~~~~i~~~~~~~~~~~~~  107 (199)
T PF10112_consen   28 GFDHSFLLSLLIGAVAFAVVYLFGKRRQRRKFLKEAGLSDREYEYIREILEEAKEKIRRIEKAIKRIRDLEMIEKVSRIE  107 (199)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHhcccccchhHhhhcCCChhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344568888888777777766543322111          113455666777777777777766532             


Q ss_pred             --HHHHHHHHhhcchhhHHHHHHHhHhhccchhHHHHHHh
Q 025643           89 --VKDELVSAREHPAAATGVALTAGLLFMRGPRRFLFRHT  126 (250)
Q Consensus        89 --iKegv~~A~ehP~~a~g~a~~agllll~gPRRfLyr~T  126 (250)
                        .+.-......||--            ++.-|+|+|++-
T Consensus       108 ~~~~~I~~~v~~~P~~------------l~~a~~Fl~~yL  135 (199)
T PF10112_consen  108 KIARRIFKYVEKDPER------------LTQARKFLYYYL  135 (199)
T ss_pred             HHHHHHHHHHHHCHHh------------HHHHHHHHHHHh
Confidence              23344455667764            345688888764

>PRK06569 F0F1 ATP synthase subunit B'; Validated

Probab=82.50  E-value=22  Score=30.83  Aligned_cols=22  Identities=14%  Similarity=0.178  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 025643          219 RAEVASMASLLKRQRAMMDKQI  240 (250)
Q Consensus       219 RsEVAs~AS~lK~qR~aL~k~l  240 (250)
                      -.++.+|-..+++-|+...+.+
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~  130 (155)
T PRK06569        109 NQNIEDINLAAKQFRTNKSEAI  130 (155)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHH
Confidence            3455555555555555554444

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=82.44  E-value=52  Score=34.01  Aligned_cols=13  Identities=38%  Similarity=0.555  Sum_probs=10.9

Q ss_pred             CCCcchhhhhHHH
Q 025643            2 GRGSSTLCDSIQR   14 (250)
Q Consensus         2 ~~~~~~~~~~~~~   14 (250)
                      |.|-||+.|+|.-
T Consensus        33 GsGKS~ildAi~~   45 (1164)
T TIGR02169        33 GSGKSNIGDAILF   45 (1164)
T ss_pred             CCCHHHHHHHHHH
Confidence            7888999998865

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.

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

Probab=82.02  E-value=43  Score=31.01  Aligned_cols=72  Identities=19%  Similarity=0.309  Sum_probs=47.8

Q ss_pred             HHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHH-----------------HHHHHHHHHHHHHHHHHhhH
Q 025643          138 VRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELK-----------------NAGNQVQRLAKQVYKVETQA  200 (250)
Q Consensus       138 ~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr-----------------~aG~qIq~L~ssvyK~E~~A  200 (250)
                      ...+..+++|+..+-....|++++.+|...+|+.+ .+-++.+                 +.-.+|..+-...-+.+...
T Consensus        48 ~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl-~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i  126 (239)
T COG1579          48 EALEIELEDLENQVSQLESEIQEIRERIKRAEEKL-SAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEI  126 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44577888889999999999999988888888887 4444433                 33344444455555555555


Q ss_pred             HHHHHhcccC
Q 025643          201 ADLMEGLREI  210 (250)
Q Consensus       201 ~gL~d~LR~L  210 (250)
                      .++.+.+..+
T Consensus       127 ~~l~~~~~~~  136 (239)
T COG1579         127 EDLKERLERL  136 (239)
T ss_pred             HHHHHHHHHH
Confidence            5555555444

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=81.38  E-value=65  Score=32.63  Aligned_cols=79  Identities=13%  Similarity=0.108  Sum_probs=40.5

Q ss_pred             hhHHHHHHHhHhhccchhHHHHHHhhhhhccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHH
Q 025643          102 AATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKN  181 (250)
Q Consensus       102 ~a~g~a~~agllll~gPRRfLyr~TlgRF~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~  181 (250)
                      +..++...+|+=.+-+-+.-|=. ...|..++.. .+.+.++++++...++.+..+.+.+.+.....+.+..+-..++.+
T Consensus       171 l~~Ai~~LlGl~~~~~L~~dl~~-~~~~~~~~~~-~~~~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~  248 (650)
T TIGR03185       171 LKEAIEVLLGLDLIDRLAGDLTN-VLRRRKKSEL-PSSILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLES  248 (650)
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHH-HHHHHHhccc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555556665554444332221 1233344332 455666666666666666666666655555555555444444443


Q ss_pred             H
Q 025643          182 A  182 (250)
Q Consensus       182 a  182 (250)
                      .
T Consensus       249 l  249 (650)
T TIGR03185       249 L  249 (650)
T ss_pred             H
Confidence            3

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs

Probab=81.32  E-value=76  Score=33.39  Aligned_cols=158  Identities=13%  Similarity=0.156  Sum_probs=91.1

Q ss_pred             HHHHHHHhHHHHHHHHhhcchh--hHHHHHHHhHhhccchhHHHHHHhhhhhccHHHHHHHHHHhHHHHHHhHHhhHHHH
Q 025643           81 YEDAFFSKVKDELVSAREHPAA--ATGVALTAGLLFMRGPRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKES  158 (250)
Q Consensus        81 yEd~fF~kiKegv~~A~ehP~~--a~g~a~~agllll~gPRRfLyr~TlgRF~SEEall~~Ae~kV~eLr~svdl~k~Es  158 (250)
                      .++-|...||+-+.--...|..  ++.-   ....--+-..+||.+.| -.|+. |- +.+.++--++++.-+++++.+.
T Consensus       501 ~~~sF~~~Ik~lL~r~~~qPill~s~~k---~~~p~~~E~l~lL~~a~-~vlre-eY-i~~~~~ar~ei~~rv~~Lk~~~  574 (717)
T PF10168_consen  501 SPPSFEKHIKSLLQRSSSQPILLKSSDK---SSSPSPQECLELLSQAT-KVLRE-EY-IEKQDLAREEIQRRVKLLKQQK  574 (717)
T ss_pred             ccchHHHHHHHHhcCCCCCCeecCCCcc---ccCCCCHHHHHHHHHHH-HHHHH-HH-HHHHHHHHHHHHHHHHHHHHHH
Confidence            4588888899877644445755  1211   11111233456776544 45542 22 3334555666777777777777


Q ss_pred             HHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhccc-C--CchhHHhHHHHHHHHHHHHHHHHHH
Q 025643          159 KKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLRE-I--PGREALKLRAEVASMASLLKRQRAM  235 (250)
Q Consensus       159 ~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~-L--PsreA~~LRsEVAs~AS~lK~qR~a  235 (250)
                      ++-.+++...+++.+.=+.+-..-+..+..+...=-++++++..++..+.. .  .+.-=-+++.|+..|..+++.-+..
T Consensus       575 e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~~~~EL~~~~~~l~~l~~s  654 (717)
T PF10168_consen  575 EQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAEREFKKELERMKDQLQDLKAS  654 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            776666666666533322222222334555555555667777777666654 2  3443378888888888888877777


Q ss_pred             HHHHHHHHh
Q 025643          236 MDKQIMKIS  244 (250)
Q Consensus       236 L~k~l~KIs  244 (250)
                      +++.=+|+.
T Consensus       655 i~~lk~k~~  663 (717)
T PF10168_consen  655 IEQLKKKLD  663 (717)
T ss_pred             HHHHHHHHH
Confidence            776555553

It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].

>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]

Probab=81.29  E-value=38  Score=38.48  Aligned_cols=80  Identities=16%  Similarity=0.195  Sum_probs=61.4

Q ss_pred             HHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCch-hHHh
Q 025643          139 RAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGR-EALK  217 (250)
Q Consensus       139 ~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsr-eA~~  217 (250)
                      +|..+.+.++.++|..+.-++.-.+.-..|++-++-.-+.++.|+.-|..+-.+++..|+.|..--..|++|-++ |.++
T Consensus      1553 ~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv~~~t~~aE~~~~~a~q~~~eL~~~~e~lk 1632 (1758)
T KOG0994|consen 1553 RARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKVQEETAAAEKLATSATQQLGELETRMEELK 1632 (1758)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455666777777776666666666777888888888899999999999999999999998888888887766 5554


Q ss_pred             H
Q 025643          218 L  218 (250)
Q Consensus       218 L  218 (250)
                      .
T Consensus      1633 ~ 1633 (1758)
T KOG0994|consen 1633 H 1633 (1758)
T ss_pred             H
Confidence            4

>PRK11637 AmiB activator; Provisional

Probab=80.56  E-value=55  Score=31.30  Aligned_cols=63  Identities=6%  Similarity=0.061  Sum_probs=50.9

Q ss_pred             HHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHH
Q 025643          135 AMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVE  197 (250)
Q Consensus       135 all~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E  197 (250)
                      .-++..+++++.+...++..+.+++.+++.+...++++..-..++.....++...+..+|+.-
T Consensus        75 ~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rlra~Y~~g  137 (428)
T PRK11637         75 AQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQLDAAFRQG  137 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            336677788888888888888888888888888888888888888888888888888888843

>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type

Probab=80.51  E-value=73  Score=32.72  Aligned_cols=14  Identities=36%  Similarity=0.669  Sum_probs=11.2

Q ss_pred             CCCcchhhhhHHHH
Q 025643            2 GRGSSTLCDSIQRL   15 (250)
Q Consensus         2 ~~~~~~~~~~~~~~   15 (250)
                      |-|-||+-|.|.=+
T Consensus        33 GsGKS~ll~ai~~~   46 (1179)
T TIGR02168        33 GCGKSNIVDAIRWV   46 (1179)
T ss_pred             CCChhHHHHHHHHH
Confidence            78999999887654

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.

>PRK14140 heat shock protein GrpE; Provisional

Probab=80.14  E-value=27  Score=31.16  Aligned_cols=57  Identities=18%  Similarity=0.312  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHH--HHHHHHHhhHHHHHHhcccCCc
Q 025643          156 KESKKLLERAALAEKEMIRGETELKNAGNQVQRLA--KQVYKVETQAADLMEGLREIPG  212 (250)
Q Consensus       156 ~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~--ssvyK~E~~A~gL~d~LR~LPs  212 (250)
                      .+..++++.+...++.+.|-.+++-|..+-.++-.  ..-|.+++-+..|++.+..|=.
T Consensus        44 ~~i~~l~~ei~elkd~~lR~~Ae~eN~rkR~~rE~~~~~~~a~~~~~~~LLpvlDnLer  102 (191)
T PRK14140         44 AKIAELEAKLDELEERYLRLQADFENYKRRIQKENEAAEKYRAQSLASDLLPALDNFER  102 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333344444555555555444444433  3457788999999988887733

---

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	250
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	93.72
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	89.14
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	87.62
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	86.56
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	85.95
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	85.61
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	85.49
1ic2_A	81	Tropomyosin alpha chain, skeletal muscle; alpha-he	84.26
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	82.09

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=93.72  E-value=1.5  Score=37.79  Aligned_cols=104  Identities=12%  Similarity=0.169  Sum_probs=55.9

Q ss_pred             HHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHH--HHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCchh
Q 025643          137 FVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGET--ELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGRE  214 (250)
Q Consensus       137 l~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrt--kLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsre  214 (250)
                      +..++..+++++..+..+.++++.+..++.-.++.+..+.+  .+.+-.++|..+...+...|.....+|+.+..+-. +
T Consensus        48 ~~~~~~~l~d~~~~~~~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~-~  126 (256)
T 3na7_A           48 ILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSE-K  126 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H
Confidence            33444444444444444444444444444444444444332  23445567777777777788777777777765422 2


Q ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHH
Q 025643          215 ALKLRAEVASMASLLKRQRAMMDKQIM  241 (250)
Q Consensus       215 A~~LRsEVAs~AS~lK~qR~aL~k~l~  241 (250)
                      --.+..+++.+..++...+..++..+.
T Consensus       127 l~~~~~~l~~~~~~l~~~~~~~~~~~~  153 (256)
T 3na7_A          127 QEDLKKEMLELEKLALELESLVENEVK  153 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            234555555555555555555554443

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

Probab=89.14  E-value=6.2  Score=30.21  Aligned_cols=93  Identities=18%  Similarity=0.244  Sum_probs=68.4

Q ss_pred             HHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCchhHHhHHHHHH
Q 025643          144 VNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVA  223 (250)
Q Consensus       144 V~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsreA~~LRsEVA  223 (250)
                      +...+..|..++.|.....||+..+|.+++.-.-...+...+|.+|-+.+-.+|...-.+-+.|.+     |..-=.+..
T Consensus         4 MdaIKkKm~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~e-----a~~kLee~e   78 (101)
T 3u1c_A            4 MDAIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHK-----SEDSLLFAE   78 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHH
Confidence            456788889999999999999999999999999999999999999999998888876666665543     222222333


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 025643          224 SMASLLKRQRAMMDKQIM  241 (250)
Q Consensus       224 s~AS~lK~qR~aL~k~l~  241 (250)
                      ..+++.-.+-.+|+++|.
T Consensus        79 k~~~~aE~ev~~L~Rriq   96 (101)
T 3u1c_A           79 ENAAKAESEVASLNRRIQ   96 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            444545555556666654

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

Probab=87.62  E-value=7.7  Score=29.45  Aligned_cols=93  Identities=17%  Similarity=0.245  Sum_probs=65.6

Q ss_pred             HHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCchhHHhHHHHHH
Q 025643          144 VNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGREALKLRAEVA  223 (250)
Q Consensus       144 V~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsreA~~LRsEVA  223 (250)
                      +...+..|..++-|.....||+-.+|.+++--.-...+...+|.+|-+.+-.+|...-..-+.|.+.-.     --.+.-
T Consensus         4 md~iKkKm~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~-----kLe~~e   78 (101)
T 3u59_A            4 MEAIKKKMQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQE-----KLEQAE   78 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHH
Confidence            456678888888899999999999999988888888888888888888888888777766666553322     112223


Q ss_pred             HHHHHHHHHHHHHHHHHH
Q 025643          224 SMASLLKRQRAMMDKQIM  241 (250)
Q Consensus       224 s~AS~lK~qR~aL~k~l~  241 (250)
                      ..+++.-.+..+|+++|.
T Consensus        79 k~~~~AE~evasLnRriq   96 (101)
T 3u59_A           79 KKATDAEAEVASLNRRIQ   96 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            334444555556666654

>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=86.56  E-value=8.7  Score=32.10  Aligned_cols=84  Identities=17%  Similarity=0.161  Sum_probs=71.3

Q ss_pred             hhHHHHHHhhhhhccHHHHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHH
Q 025643          118 PRRFLFRHTFGRLRSEEAMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVE  197 (250)
Q Consensus       118 PRRfLyr~TlgRF~SEEall~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E  197 (250)
                      .|.=-|-..+.-+.   ..++.|+.+.+.---+|.-+.+++.+|+|++..+.+.+..=.-.|.+|-.+|.++.+-.|-.+
T Consensus        70 qrEd~yEeqIk~L~---~kLKEAE~RAE~AERsv~kLEk~id~lEd~L~~~Kek~~~i~~eLd~tl~el~~~~~~~~~~~  146 (155)
T 2efr_A           70 QKEDKYEEEIKVLS---DKLKEAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEEMKQLEDKVEELLSKNYHLE  146 (155)
T ss_dssp             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHH
Confidence            35555655555553   578888888888888999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHH
Q 025643          198 TQAADLM  204 (250)
Q Consensus       198 ~~A~gL~  204 (250)
                      +..+.|+
T Consensus       147 ~~~~~~~  153 (155)
T 2efr_A          147 NEVARLK  153 (155)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            9888775

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1

Probab=85.95  E-value=7  Score=32.06  Aligned_cols=60  Identities=23%  Similarity=0.287  Sum_probs=53.2

Q ss_pred             HHHHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHH
Q 025643          135 AMFVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVY  194 (250)
Q Consensus       135 all~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvy  194 (250)
                      .+...|++++.+....+..+.+++.+..+|+..||.....=...|+..|+.|++|--+--
T Consensus        66 ~~aeeadrKyeE~~RKl~~~E~dLeraeeRae~aE~k~~eLEeeL~~~~~nlKsLE~~ee  125 (147)
T 2b9c_A           66 HIAEDADRKYEEVARKLVIIESDLERAEERAELSEGKCAELEEELKTVTNNLKSLEDKVE  125 (147)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHhHH
Confidence            355678999999999999999999999999999999999999999999999999865433

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

Probab=85.61  E-value=4.4  Score=42.18  Aligned_cols=54  Identities=24%  Similarity=0.290  Sum_probs=12.0

Q ss_pred             hhHHHHHHhhhhhccHHHH-------HHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHH
Q 025643          118 PRRFLFRHTFGRLRSEEAM-------FVRAEKNVNELNLSGELMKKESKKLLERAALAEKE  171 (250)
Q Consensus       118 PRRfLyr~TlgRF~SEEal-------l~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~E  171 (250)
                      -|+++=|.-+.+++.|..-       -..-|.++++|+..++...+|.+.|++++...|+.
T Consensus       897 ~R~~laRr~~~~Lk~ear~~~~l~~~~~~LE~kl~eLq~rL~~~e~~n~~L~~~~~~~~~~  957 (1080)
T 2dfs_A          897 YRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEIT  957 (1080)
T ss_dssp             HHHHHHHHHTTTC-----------------------------------------CHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            4666777777777666532       34556778888888887777776666655433333

>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=85.49  E-value=15  Score=30.68  Aligned_cols=83  Identities=27%  Similarity=0.296  Sum_probs=59.2

Q ss_pred             HHHHHHhHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhcccCCch-hH
Q 025643          137 FVRAEKNVNELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGLREIPGR-EA  215 (250)
Q Consensus       137 l~~Ae~kV~eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~LR~LPsr-eA  215 (250)
                      ...|+.++.+...    +.+++.+-++|+..||.....=-..|+.+|+.+++|--+--|...+=...-+.++.|-.+ ..
T Consensus        13 ae~ad~KyeEvaR----~E~dLEraEERae~aE~k~~eLEeeL~~v~~nlKsLE~seekasqrEd~yEeqIk~L~~kLKE   88 (155)
T 2efr_A           13 LSKNYHLENEVAR----LKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKE   88 (155)
T ss_dssp             HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            4567777777655    889999999999999999888889999999999999766665554444455555444443 33


Q ss_pred             HhHHHHHH
Q 025643          216 LKLRAEVA  223 (250)
Q Consensus       216 ~~LRsEVA  223 (250)
                      .+-|+|.|
T Consensus        89 AE~RAE~A   96 (155)
T 2efr_A           89 AETRAEFA   96 (155)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            34444444

>1ic2_A Tropomyosin alpha chain, skeletal muscle; alpha-helical coiled coil, alanine, symmetry, axial stagger, BEND, contractIle protein; 2.00A {Gallus gallus} SCOP: h.1.5.1

Probab=84.26  E-value=6.8  Score=28.68  Aligned_cols=62  Identities=21%  Similarity=0.283  Sum_probs=45.3

Q ss_pred             HHHHhHHhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhc
Q 025643          146 ELNLSGELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVETQAADLMEGL  207 (250)
Q Consensus       146 eLr~svdl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E~~A~gL~d~L  207 (250)
                      .++..|..++.|.....+++..+|.++..-.-...++..+|.+|-+.+--+|...-..-+.|
T Consensus         3 ~ikkKm~~lk~e~d~a~~~~~~~e~~l~~~e~~~~~~E~ev~~L~kKiq~lE~eld~~ee~l   64 (81)
T 1ic2_A            3 AIKKKMQMLKLDKENALDRAEQAEADKKAAEERSKQLEDELVALQKKLKGTEDELDKYSESL   64 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46677778888888888888888888877777777777777777777777666555444443

>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=82.09  E-value=22  Score=32.79  Aligned_cols=100  Identities=17%  Similarity=0.131  Sum_probs=59.4

Q ss_pred             hhccHHHHHHHHHHhHHHHHHhH-----------HhhHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHHHHHHHHHHHH
Q 025643          129 RLRSEEAMFVRAEKNVNELNLSG-----------ELMKKESKKLLERAALAEKEMIRGETELKNAGNQVQRLAKQVYKVE  197 (250)
Q Consensus       129 RF~SEEall~~Ae~kV~eLr~sv-----------dl~k~Es~KL~eraa~AE~Em~RGrtkLr~aG~qIq~L~ssvyK~E  197 (250)
                      +....|..++..+.+.++.++..           +.++++.+++.++.+..|.+.++=.....+-..+++.+-+.+-.+|
T Consensus       471 ~~~~~~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le  550 (597)
T 3oja_B          471 EQIQQEQLLQGLHAEIDTNLRRYRLPKDGLARSSDNLNKVFTHLKERQAFKLRETQARRTEADAKQKETEDLEQENIALE  550 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhhhhhcCccccccCCHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhhHHhhhHHHH
Confidence            33344555555555555554442           4666677777777777777777655555555566666666666666


Q ss_pred             hhHHHHHHhcccCCchhHHhHHHHHHHHHHHHHHHHHHH
Q 025643          198 TQAADLMEGLREIPGREALKLRAEVASMASLLKRQRAMM  236 (250)
Q Consensus       198 ~~A~gL~d~LR~LPsreA~~LRsEVAs~AS~lK~qR~aL  236 (250)
                      ++-..-++.+        .+++.|.+.+..++|+.=..+
T Consensus       551 ~~~~~~~~~~--------~~l~~e~~~~~~~~~~l~~~~  581 (597)
T 3oja_B          551 KQLDNKRAKQ--------AELRQETSLKRQKVKQLEAKK  581 (597)
T ss_dssp             HHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhhHH--------HHHHHHHHHHHHHHHHHHHHh
Confidence            6666555544        455666666655555544333

---

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	250
d1k4ta1	72	Eukaryotic DNA topoisomerase I, dispensable insert	81.42

>d1k4ta1 a.2.8.1 (A:641-712) Eukaryotic DNA topoisomerase I, dispensable insert domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Eukaryotic DNA topoisomerase I, dispensable insert domain
family: Eukaryotic DNA topoisomerase I, dispensable insert domain
domain: Eukaryotic DNA topoisomerase I, dispensable insert domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.42  E-value=4.2  Score=28.84  Aligned_cols=60  Identities=23%  Similarity=0.243  Sum_probs=37.8

Q ss_pred             hHHHHHHhHHhhHHHHHHHHHHHHHHHHHHH-chHHHHH----HHHHHHHHHHHHHHHHHhhHHH
Q 025643          143 NVNELNLSGELMKKESKKLLERAALAEKEMI-RGETELK----NAGNQVQRLAKQVYKVETQAAD  202 (250)
Q Consensus       143 kV~eLr~svdl~k~Es~KL~eraa~AE~Em~-RGrtkLr----~aG~qIq~L~ssvyK~E~~A~g  202 (250)
                      .|+-|+..|+.-+..+.-...-.-.|..++. +|-.+.+    --.+++++|--+..|.|-||++
T Consensus         3 sMenLq~KI~~Kk~qi~~a~~e~K~ak~d~k~~~~~k~k~~~ekKkK~leRL~EQL~KLevqaTD   67 (72)
T d1k4ta1           3 SMMNLQTKIDAKKEQLADARRDLKSAKADAKVMKDAKTKKVVESKKKAVQRLEEQLMKLEVQATD   67 (72)
T ss_dssp             GHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Confidence            4455555555555444444444444444444 4544433    3678999999999999999986