Citrus Sinensis ID: 020328

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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-------260-------270-------280-------290-------300-------310-------320-------
Protein Sequence
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRSGSLHPLPLEPPSPSXXXXXXXIPMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Secondary Structure (PSIPRED)
cccccccEEEEEccccccEEEcccccccHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHcccccEEEEcccccccccEEHHHHEEEEEEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEEEccHHHHHHEcccccccHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEccccccccEEEEEEEEHHHHHEEEEcccccccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHccccccccccccccccccccccccccccccccccccccccHHHcccccHEEccccEEcccccccccHHHcccccHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MALTFGKLTFLVGAGILTSVLakegrlssvsdavgGTLKIVSKLikqddpgpsdrKLFNDLLAEVSSVQQELshvprsviietssgsgtgakkYGVIVVIVAVGYGYVwwkgwklpdmmfATRRSLSDACNSVARQLEDVYSSISAAQRQLSSkitsvdrdvNKIVEISQATQEEVTILRGrskligdefQSVRDIVQTLESKLIEIegkqdittLGVKKLCDRArelengrptelvqasrytlsrttlelpgitpssrsgslhplpleppspsxxxxxxxipmdlirltgrivsrplASRSSMELQNWGSHQGVLRFLMVLQLQKT
Flexible Loop (DISEMBL)
maltfgkltflVGAGILTSVLAKegrlssvsdavggTLKIVSklikqddpgpSDRKLFNDLLAEVSSVqqelshvprsviietssgsgtgakkyGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQrqlsskitsvdrdvNKIVeisqatqeevtilrgrskligdefqSVRDIVQTLESKlieiegkqdittlgVKKLCDRarelengrptelvqasrytlsrttlelpgitpssrsgslhplpleppspsxxxXXXXIPMDLIRLTGRIVSRPlasrssmelqnWGSHQGVLRFLMVLQLQKT
Low Complexity Region (SEG)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTgakkygvivvivavgygyvWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRSGslhplpleppspsxxxxxxxipMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Disordered region (IsUnstruct)
**LTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLI***************LL***************SVIIE******TGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSI*************VDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRA*******************************************************XIPMDLIRLTGRIVSRP********LQNWGSHQGVLRFLMVLQ****
Disordered Region (DISOPRED)
***TFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGG***************************EVSSVQQE*********************KYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVAR**EDVYSSISAAQRQLSSKITSVDRDVNK************TILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDR*********************************************************IPMDLIRLTGRIVSRPL**********WGSHQGVLRFLMVLQLQ**
Disordered Region (DISEMBL)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRSGSLHPLPLEPPSPSXXXXXXXIPMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Disordered Region (DISPRO)
**LTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIK********RKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELE***************************************************XIPMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRSGSLHPLPLEPPSPSXXXXXXXIPMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	327
225425366	360	PREDICTED: uncharacterized protein LOC10	0.810	0.736	0.575	3e-65
326417169	360	B-zip transcription factor [Vitis pseudo	0.810	0.736	0.575	3e-65
289466339	360	B-zip transcription factor [Vitis pseudo	0.810	0.736	0.575	1e-64
297738479	361	unnamed protein product [Vitis vinifera]	0.792	0.717	0.576	8e-64
397746441	362	bZIP9 [Tamarix hispida]	0.831	0.751	0.510	8e-62
449445554	366	PREDICTED: uncharacterized protein LOC10	0.788	0.704	0.538	2e-60
224072554	363	predicted protein [Populus trichocarpa]	0.730	0.658	0.572	6e-58
255578294	368	DNA binding protein, putative [Ricinus c	0.733	0.652	0.533	1e-57
407970990	349	bZIP transcription factor bZIP56 precurs	0.871	0.816	0.467	2e-55
22329773	348	uncharacterized protein [Arabidopsis tha	0.831	0.781	0.449	1e-54

>gi|225425366|ref|XP_002270179.1| PREDICTED: uncharacterized protein LOC100248973 [Vitis vinifera]

 Score =  254 bits (650), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 153/266 (57%), Positives = 188/266 (70%), Gaps = 1/266 (0%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
           MAL  GKLT LVGAGI+ SVLAKEGR+S VS+   G  KI  K +KQDD      K  ND
Sbjct: 1   MALPLGKLTLLVGAGIVGSVLAKEGRMSDVSNFFSGAFKIALKQLKQDDSTSPTVKPKND 60

Query: 61  -LLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMM 119
            LLA+V+S++QEL  +  +  I   + SGTG  KYGV+V+IV VGYGY WWKGWKLPDMM
Sbjct: 61  ALLAQVNSLRQELQILASNRSITIVTASGTGKSKYGVVVIIVVVGYGYAWWKGWKLPDMM 120

Query: 120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL 179
           FATRRSLSDAC+S+A+QLE+VYSSI+A +R LSS+I  VD  +++  E++ AT+EEV  L
Sbjct: 121 FATRRSLSDACSSIAKQLENVYSSIAATKRHLSSRIDRVDCSIDEFAELTSATKEEVFEL 180

Query: 180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQA 239
           RG  K+IG +  SV+  VQ LESK+IEIEGKQDIT  G+ +LC  A  LEN R TE +QA
Sbjct: 181 RGGMKMIGGDVASVQKAVQNLESKIIEIEGKQDITNEGLGRLCHYAWNLENSRTTERIQA 240

Query: 240 SRYTLSRTTLELPGITPSSRSGSLHP 265
           S  +  R  LEL   TP  R+ SL P
Sbjct: 241 SPSSSFRPALELRQTTPPLRTESLPP 266

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326417169|gb|ADZ73426.1| B-zip transcription factor [Vitis pseudoreticulata]

 Score =  254 bits (649), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 153/266 (57%), Positives = 188/266 (70%), Gaps = 1/266 (0%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
           MAL  GKLT LVGAGI+ SVLAKEGR+S VS+   G  KI  K +KQDD      K  ND
Sbjct: 1   MALPLGKLTLLVGAGIVGSVLAKEGRMSDVSNFFSGAFKIALKQLKQDDSTSPTVKPKND 60

Query: 61  -LLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMM 119
            LLA+V+S++QEL  +  +  I   + SGTG  KYGV+V+IV VGYGY WWKGWKLPDMM
Sbjct: 61  ALLAQVNSLRQELQILASNRSITIVTASGTGKSKYGVVVIIVVVGYGYAWWKGWKLPDMM 120

Query: 120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL 179
           FATRRSLSDAC+S+A+QLE+VYSSI+A +R LSS+I  VD  +++  E++ AT+EEV  L
Sbjct: 121 FATRRSLSDACSSIAKQLENVYSSIAATKRHLSSRIDRVDCSIDEFAELTSATKEEVFEL 180

Query: 180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQA 239
           RG  K+IG +  SV+  VQ LESK+IEIEGKQDIT  G+ +LC  A  LEN R TE +QA
Sbjct: 181 RGGMKMIGGDVASVQKAVQNLESKIIEIEGKQDITNEGLGRLCHYAWNLENSRTTERIQA 240

Query: 240 SRYTLSRTTLELPGITPSSRSGSLHP 265
           S  +  R  LEL   TP  R+ SL P
Sbjct: 241 SPSSSFRPALELRQTTPPLRTESLPP 266

Source: Vitis pseudoreticulata

Species: Vitis pseudoreticulata

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|289466339|gb|ADC94855.1| B-zip transcription factor [Vitis pseudoreticulata]

 Score =  253 bits (645), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 153/266 (57%), Positives = 188/266 (70%), Gaps = 1/266 (0%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
           MAL  GKLT LVGAGI+ SVLAKEGR+S VS+   G  KI  K +KQDD      K  ND
Sbjct: 1   MALPLGKLTLLVGAGIVGSVLAKEGRMSDVSNFFSGAPKIALKQLKQDDSTSPTVKPKND 60

Query: 61  -LLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMM 119
            LLA+V+S++QEL  +  +  I   + SGTG  KYGV+V+IV VGYGY WWKGWKLPDMM
Sbjct: 61  ALLAQVNSLRQELQILASNRSITIVTASGTGKSKYGVVVIIVVVGYGYAWWKGWKLPDMM 120

Query: 120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL 179
           FATRRSLSDAC+S+A+QLE+VYSSI+A +R LSS+I  VD  +++  E++ AT+EEV  L
Sbjct: 121 FATRRSLSDACSSIAKQLENVYSSIAATKRHLSSRIDRVDCSIDEFAELTSATKEEVFEL 180

Query: 180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQA 239
           RG  K+IG +  SV+  VQ LESK+IEIEGKQDIT  G+ +LC  A  LEN R TE +QA
Sbjct: 181 RGGMKMIGGDVASVQKAVQNLESKIIEIEGKQDITNEGLGRLCHYAWNLENSRTTERIQA 240

Query: 240 SRYTLSRTTLELPGITPSSRSGSLHP 265
           S  +  R  LEL   TP  R+ SL P
Sbjct: 241 SPSSSFRPALELRQTTPPLRTESLPP 266

Source: Vitis pseudoreticulata

Species: Vitis pseudoreticulata

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297738479|emb|CBI27680.3| unnamed protein product [Vitis vinifera]

 Score =  250 bits (638), Expect = 8e-64,   Method: Compositional matrix adjust.
 Identities = 150/260 (57%), Positives = 184/260 (70%), Gaps = 1/260 (0%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
           MAL  GKLT LVGAGI+ SVLAKEGR+S VS+   G  KI  K +KQDD      K  ND
Sbjct: 1   MALPLGKLTLLVGAGIVGSVLAKEGRMSDVSNFFSGAFKIALKQLKQDDSTSPTVKPKND 60

Query: 61  -LLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMM 119
            LLA+V+S++QEL  +  +  I   + SGTG  KYGV+V+IV VGYGY WWKGWKLPDMM
Sbjct: 61  ALLAQVNSLRQELQILASNRSITIVTASGTGKSKYGVVVIIVVVGYGYAWWKGWKLPDMM 120

Query: 120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL 179
           FATRRSLSDAC+S+A+QLE+VYSSI+A +R LSS+I  VD  +++  E++ AT+EEV  L
Sbjct: 121 FATRRSLSDACSSIAKQLENVYSSIAATKRHLSSRIDRVDCSIDEFAELTSATKEEVFEL 180

Query: 180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQA 239
           RG  K+IG +  SV+  VQ LESK+IEIEGKQDIT  G+ +LC  A  LEN R TE +QA
Sbjct: 181 RGGMKMIGGDVASVQKAVQNLESKIIEIEGKQDITNEGLGRLCHYAWNLENSRTTERIQA 240

Query: 240 SRYTLSRTTLELPGITPSSR 259
           S  +  R  LEL   TP  R
Sbjct: 241 SPSSSFRPALELRQTTPPLR 260

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|397746441|gb|AFO63288.1| bZIP9 [Tamarix hispida]

 Score =  243 bits (620), Expect = 8e-62,   Method: Compositional matrix adjust.
 Identities = 143/280 (51%), Positives = 189/280 (67%), Gaps = 8/280 (2%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
           M+L  GKL  LVGAGI+ SVLAKEGR+  VSD + G  +I  K +KQ D  PS  K  +D
Sbjct: 1   MSLPLGKLGILVGAGIVGSVLAKEGRMPGVSDILSGAFQIALKPLKQSDSSPSSSKPKSD 60

Query: 61  -LLAEVSSVQQELSHVP--RSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPD 117
            L+A+++S++QEL  +   RS+ I TS GS  G + YG+I+VIV  GYGY+WWKGWKLPD
Sbjct: 61  ALMAQINSLRQELQLLSGGRSITIVTS-GS-RGGRPYGIIIVIVVAGYGYIWWKGWKLPD 118

Query: 118 MMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVT 177
           + FATRR LSDAC+++A+QLE VYSS+SA +R LS KI  VD  +N   E   +TQ+EVT
Sbjct: 119 LSFATRRGLSDACSAIAKQLEQVYSSLSATRRDLSRKIERVDCSLNDCTENIASTQQEVT 178

Query: 178 ILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELV 237
            L+G  K  GD FQSVR +V+ LES++  ++GK++ T + V KL + A+ LE       +
Sbjct: 179 ELQGEVKTFGDSFQSVRHVVKALESRVSRMQGKEEATHVKVMKLVNTAKSLEGSAQAGFL 238

Query: 238 QASRYTLSRTTLELPGITPSSRSGSLHP---LPLEPPSPS 274
           Q S  + SR  LE P +T SSR+ SL P   + LEPPSPS
Sbjct: 239 QGSSTSASRPALEHPQMTTSSRAVSLPPCNRISLEPPSPS 278

Source: Tamarix hispida

Species: Tamarix hispida

Genus: Tamarix

Family: Tamaricaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445554|ref|XP_004140537.1| PREDICTED: uncharacterized protein LOC101217504 [Cucumis sativus]

 Score =  238 bits (608), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 140/260 (53%), Positives = 182/260 (70%), Gaps = 2/260 (0%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
           MA+ FGK+T LVGAGI+ SVLAKEGRL  V D V G  KI  + I +DD   S  K  ND
Sbjct: 1   MAIPFGKITILVGAGIVGSVLAKEGRLPYVQDFVSGAFKIALRRISRDDSSTSKTKPRND 60

Query: 61  -LLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMM 119
            L+A+V S+++EL  +  +  +   +  G G +KYGVI+++V VGYG +W KGWKLPDMM
Sbjct: 61  SLMAQVKSLREELQMLASNRQMTIVTTGGRGGRKYGVIILVVVVGYGIIWMKGWKLPDMM 120

Query: 120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL 179
           FAT+RSL+DAC SVARQLE+VYSSI+A +R LSSK+ SVD+ +++ ++++  TQE+V+ L
Sbjct: 121 FATKRSLADACTSVARQLENVYSSIAATKRNLSSKMDSVDKSLDETLDVTTDTQEQVSEL 180

Query: 180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQA 239
           RGRS+  G + +SV   VQTLE+KL   EGKQD T  GVKKLC+ A +LEN R  E  QA
Sbjct: 181 RGRSETFGRDIKSVHHAVQTLENKLCTFEGKQDRTYEGVKKLCNYAIDLENKRTAERTQA 240

Query: 240 SRYTLSRTTLELPGITPSSR 259
                SR  LELP  TPS +
Sbjct: 241 IPSGPSRQVLELP-PTPSPK 259

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224072554|ref|XP_002303779.1| predicted protein [Populus trichocarpa] gi|222841211|gb|EEE78758.1| predicted protein [Populus trichocarpa]

 Score =  230 bits (587), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 139/243 (57%), Positives = 176/243 (72%), Gaps = 4/243 (1%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLF-- 58
           MAL  GKLT LVGAGIL SVLAKEGRL  VS+ V G  KI  + +KQDD   S  K    
Sbjct: 1   MALPLGKLTILVGAGILGSVLAKEGRLPDVSNFVSGAFKIAFRQLKQDDSTSSVSKSSKP 60

Query: 59  -ND-LLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLP 116
            ND L+A+V+S++QEL  +  S  +   + +GTG+ KYGV++V+V VGYGYVWWKGWKLP
Sbjct: 61  PNDSLMAQVNSLRQELQMLASSRPVTIVTANGTGSNKYGVVIVVVVVGYGYVWWKGWKLP 120

Query: 117 DMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEV 176
           DMMFATRRSLSDAC S+A+QLE+VY+SI + +R LSSKI  VD ++N + E++ +TQE+V
Sbjct: 121 DMMFATRRSLSDACTSIAQQLENVYASIRSTRRHLSSKIDGVDSNLNAVAELTASTQEKV 180

Query: 177 TILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTEL 236
             LR  S  IG++ + VRD V+TLE K+  IEGKQD+TT GVK+LCD A  LEN    E 
Sbjct: 181 IELREDSSRIGNDVRYVRDAVETLELKISRIEGKQDLTTQGVKRLCDYASSLENNLLEEN 240

Query: 237 VQA 239
           +QA
Sbjct: 241 IQA 243

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255578294|ref|XP_002530014.1| DNA binding protein, putative [Ricinus communis] gi|223530493|gb|EEF32376.1| DNA binding protein, putative [Ricinus communis]

 Score =  229 bits (584), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 129/242 (53%), Positives = 158/242 (65%), Gaps = 2/242 (0%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
           MAL  GKLT LVGAGIL SVLAKEGRL SVSD V G  KI  K IK  D   S +    D
Sbjct: 1   MALPLGKLTVLVGAGILGSVLAKEGRLPSVSDFVSGAFKIAFKQIKPQDSNSSSKSKPID 60

Query: 61  --LLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDM 118
             L+A+V+S+QQEL  +  +  I   + SGTGA KYG IV+IV VGYGYVWWKGWKLPDM
Sbjct: 61  ASLIAQVNSLQQELQLLASNRPITIVTASGTGAGKYGTIVLIVVVGYGYVWWKGWKLPDM 120

Query: 119 MFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI 178
           MFATRRSLSDAC S+A+QLE+VY SI + +R+LSS I  +D  ++++  ++  T+E+V  
Sbjct: 121 MFATRRSLSDACTSIAQQLENVYGSIRSTRRELSSNIEHMDATLDQVAALTANTREKVAE 180

Query: 179 LRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQ 238
           L   S    ++ ++V   VQ L  K+  IE KQ  T  GVKKL D    LEN    E  Q
Sbjct: 181 LLEDSARYDNDVRNVHQTVQMLGQKISRIEEKQSFTMHGVKKLVDFTYNLENNLLQENTQ 240

Query: 239 AS 240
           AS
Sbjct: 241 AS 242

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|407970990|ref|NP_001236992.1| bZIP transcription factor bZIP56 precursor [Glycine max] gi|113367178|gb|ABI34646.1| bZIP transcription factor bZIP56 [Glycine max]

 Score =  222 bits (565), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 136/291 (46%), Positives = 188/291 (64%), Gaps = 6/291 (2%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKL-FN 59
           MAL+ GKL  LV AGI  SV+AKEGRL  VS    G  K+V + +K DDP P+ +K   N
Sbjct: 1   MALSLGKLVILVSAGIAGSVIAKEGRLPDVSGLASGAFKVVLRQLKSDDPAPTVKKQPHN 60

Query: 60  D-LLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDM 118
           D LLA+V+S++QEL  + R   I   + SGTG +KY  ++VIV VGYGYVWWKGWKLPD+
Sbjct: 61  DALLAQVNSLRQELQLLARDRSITIVNASGTGGRKYITVIVIVVVGYGYVWWKGWKLPDL 120

Query: 119 MFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI 178
           MFATRR LSDAC S+  Q+  +Y SI   +++LS++I  +D+++ +   I+++T+E++ +
Sbjct: 121 MFATRRGLSDACTSIGNQMGKLYESIGDTKKKLSARINGLDKNLEECAAITESTREDIYV 180

Query: 179 LRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQ 238
           ++ ++  I ++ +S    V  LESK+ EIE KQ  T  GV  LC   + LEN R TE +Q
Sbjct: 181 IQRKADTISEDSKSFHVAVHVLESKIKEIEEKQVATIEGVNMLCQFTKTLENSRSTEYIQ 240

Query: 239 ASRYTLSRTTLELPGITPSSR---SGSLHPLPLEPPSPSXXXXXXXIPMDL 286
           AS  + SR  LELP ++PSSR   SGS   L LEPPS +       +P  L
Sbjct: 241 ASSSSSSRPALELPPVSPSSRGSQSGSAR-LSLEPPSVTPSSRTASLPPTL 290

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22329773|ref|NP_683327.1| uncharacterized protein [Arabidopsis thaliana] gi|42571631|ref|NP_973906.1| uncharacterized protein [Arabidopsis thaliana] gi|17978962|gb|AAL47485.1| unknown protein [Arabidopsis thaliana] gi|21655283|gb|AAM65353.1| At1g24265/At1g24265 [Arabidopsis thaliana] gi|332192384|gb|AEE30505.1| uncharacterized protein [Arabidopsis thaliana] gi|332192385|gb|AEE30506.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  219 bits (558), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 124/276 (44%), Positives = 173/276 (62%), Gaps = 4/276 (1%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
           MAL  GKLT L+GAG++ S  +KEG L  VS+ V G  K+V + +KQD+P  S  K  +D
Sbjct: 1   MALPLGKLTILIGAGLIGSAFSKEGGLPDVSNLVSGAFKMVFRQLKQDEPSKSASKPHDD 60

Query: 61  LL-AEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMM 119
           +L A+V+S++ E+  +  +  I   S SG+G + YG+I+++  +GYGYVWWKGWKLPD M
Sbjct: 61  VLVAQVNSLRHEIQLLGSNRPITIVSPSGSGGRNYGLIIIVGVIGYGYVWWKGWKLPDFM 120

Query: 120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL 179
           FATRRSLSDACN+V  Q++  YSS+   +R+LSS+I  + R ++   E+ Q T +EV  L
Sbjct: 121 FATRRSLSDACNNVGNQIDGFYSSLKGTKRELSSEIDMMGRRLDANTEVIQETIQEVAKL 180

Query: 180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQA 239
           +  +  I D+ ++V D  + L SK+  IEG QDIT  GV  L   A+  EN R  E  +A
Sbjct: 181 QDGTSFIKDDVKAVFDAFENLASKVCRIEGNQDITLRGVGAL--HAQCQENQRIQESNKA 238

Query: 240 SRYTLSRTTLELPGITPSSRSGSLHPL-PLEPPSPS 274
              T S   LE   + PSS++ SL P  P E  SPS
Sbjct: 239 LPSTSSLPALEAAPMAPSSKTLSLPPASPDESQSPS 274

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	327
TAIR|locus:1005716745	344	AT1G24267 "AT1G24267" [Arabido	0.782	0.744	0.450	2.1e-45
TAIR|locus:2010602	334	AT1G04960 "AT1G04960" [Arabido	0.675	0.661	0.254	3.5e-20
TAIR|locus:2205734	304	AT1G27000 "AT1G27000" [Arabido	0.633	0.680	0.240	2.5e-17
TAIR|locus:2058832	276	AT2G02730 "AT2G02730" [Arabido	0.715	0.847	0.225	2.7e-15

TAIR|locus:1005716745 AT1G24267 "AT1G24267" [Arabidopsis thaliana (taxid:3702)]

 Score = 477 (173.0 bits), Expect = 2.1e-45, P = 2.1e-45
 Identities = 119/264 (45%), Positives = 159/264 (60%)

Query:     1 MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFND 60
             MA+  GKLT L+GAG++ SVLAKEG L  VS  V G LK+V + +KQ++P  S  K  ND
Sbjct:     1 MAIPLGKLTILIGAGLVGSVLAKEGSLPDVSSFVSGALKMVFRQLKQEEPAKSASKPRND 60

Query:    61 -LLAEVSSVQQELSHVP--RSVIIETSSGSGTXXXXXXXXXXXXXXXXXXXWWKGWKLPD 117
              L+A+V+S++ ELS +   R + I T++GSG                    WWKGWKLPD
Sbjct:    61 TLMAQVNSLRHELSLLSSNRPITIVTTAGSG--GKKYGYIIIIGVIGYGYVWWKGWKLPD 118

Query:   118 MMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVT 177
             +MFATRRSLSDACNSV  Q++  Y+S+S  +++LSSKI  + R ++   EI Q T  EV 
Sbjct:   119 LMFATRRSLSDACNSVGSQIDGFYTSLSGTKKELSSKIDGMGRSLDANTEIIQDTGREVM 178

Query:   178 ILRGRSKLIGDEFQSVRDIVQTLESKLI-EIEGKQDITTLGVKKLCDRARELENGRPTEL 236
              L+  ++ I D+ + V D V+ L  KLI  IEG QDIT  GV  L  + RE  N R  E 
Sbjct:   179 ELQRGTENIKDDVKFVFDAVENLVRKLIYRIEGNQDITLKGVGALHAQVRE--NKRIQES 236

Query:   237 VQASRYTLSRTTLELPGITPSSRS 260
              +A   T +   LE   +TPSSR+
Sbjct:   237 NKALPSTSAVPALEAAPMTPSSRT 260

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0031307 "integral to mitochondrial outer membrane" evidence=IDA

TAIR|locus:2010602 AT1G04960 "AT1G04960" [Arabidopsis thaliana (taxid:3702)]

 Score = 239 (89.2 bits), Expect = 3.5e-20, P = 3.5e-20
 Identities = 57/224 (25%), Positives = 110/224 (49%)

Query:    15 GILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSH 74
             G+  S++ + GRLS +   +   L     +  +  P   D  L    + ++++  +EL+ 
Sbjct:    36 GVSGSIVLRHGRLSDLIAQLQDLLNGAQGV--ESTPFKYDGALLAAQIRQLANEIKELTM 93

Query:    75 VPRSVIIETSSGSGTXXXXXXXXXXXXXXXXXXXWWKGWKLPDMMFATRRSLSDACNSVA 134
                  I    S S                     WWKGW   D MF T+++++DA  SV+
Sbjct:    94 TNPVTIFNGDSNSSGYASYLVPAAAVGAMGYCYMWWKGWSFSDAMFVTKKNMADAVASVS 153

Query:   135 RQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR 194
             +QL+D+  ++++ ++ LS K+ ++D  V +  E S+    +VT +R     IG +F+ + 
Sbjct:   154 KQLDDLSDTLASTRKHLSQKLATLDWKVEEQNETSKMILSDVTEMRSSISQIGFDFKQLN 213

Query:   195 DIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQ 238
             +++  +E K+  +E KQD+T  G+  LC  A  +++   T++ Q
Sbjct:   214 EMISGIEGKIESLESKQDVTLSGLWHLCQVAG-VKDSTSTKVFQ 256

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2205734 AT1G27000 "AT1G27000" [Arabidopsis thaliana (taxid:3702)]

 Score = 212 (79.7 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 51/212 (24%), Positives = 102/212 (48%)

Query:     7 KLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVS 66
             ++  L GAG   +++ K G+LS   D +G    +V  + K  +    D  + + + A+V 
Sbjct:    11 RIFLLAGAGYTGTIMMKNGKLS---DLLGELQSLVKGMEKSGEGSEGDSDVSDAIAAQVR 67

Query:    67 SVQQELSHVPRSVIIETSSG-SGTXXXXXXX-XXXXXXXXXXXXWWKGWKLPDMMFATRR 124
              +  E+  +     I   +G SG                     WWKG    D+M+ T+ 
Sbjct:    68 RLAMEIRQLASQQHITVMNGVSGANLQALAVPAAALGALGYGYMWWKGLSFTDLMYVTKA 127

Query:   125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSK 184
             +++ A  ++ + LE V  +++AA+R L+ +I ++D  V K +++S+    +V   R    
Sbjct:   128 NMAAAVANLTKNLEQVSETLAAAKRHLTQRIQNLDDKVEKQIDLSKEINSQVISARENIS 187

Query:   185 LIGDEFQSVRDIVQTLESKLIEIEGKQDITTL 216
              +  + +S+ +++  L+ KL  +E KQD+T +
Sbjct:   188 SLEMDLESLHNLITGLDGKLDTLEYKQDVTNV 219

GO:0003677 "DNA binding" evidence=ISS

GO:0006355 "regulation of transcription, DNA-dependent" evidence=ISS

TAIR|locus:2058832 AT2G02730 "AT2G02730" [Arabidopsis thaliana (taxid:3702)]

 Score = 198 (74.8 bits), Expect = 2.7e-15, P = 2.7e-15
 Identities = 54/239 (22%), Positives = 108/239 (45%)

Query:     7 KLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVS 66
             K+  L GAG  +++L K G+++   D +G    +V +  K  D    D       +  ++
Sbjct:    11 KILILAGAGYTSTILVKNGKMA---DILGELQALVKRFEKSGDHVDDDSDAMTTQMQRLA 67

Query:    67 SVQQELSHVPRSVIIETSSGSGTXXXXXXXXXXXXXXXXXXXWWKGWKLPDMMFATRRSL 126
                ++L+   R + +   +                       W+KG    D+M  T+R++
Sbjct:    68 MEVRQLAS-SRQITVMNGAQGADFTPFIVPAATLGALGYGYMWFKGISFSDIMCVTKRNM 126

Query:   127 SDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLI 186
              +A +++ + L+ V  +I  A++ LS ++  VD  ++   ++ +  Q+ V +       I
Sbjct:   127 ENAVSNLTKHLDTVSEAILNAKKHLSQRLQKVDDKLDLQKDLLKGVQDNVGLALEDLANI 186

Query:   187 GDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLS 245
             GD+F ++  I   +  KL  IE KQ+I  +G+  LCD     EN +  +++   +  LS
Sbjct:   187 GDDFDAMHSIFGGMGGKLDSIEYKQNIANMGLIYLCDSLGG-ENHKMPDILMQEKLRLS 244


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        0.315   0.130   0.357    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      327       286   0.00086  115 3  11 22  0.40    34
                                                     33  0.42    37


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:  4
  No. of states in DFA:  581 (62 KB)
  Total size of DFA:  161 KB (2097 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  24.04u 0.13s 24.17t   Elapsed:  00:00:01
  Total cpu time:  24.04u 0.13s 24.17t   Elapsed:  00:00:01
  Start:  Sat May 11 13:58:15 2013   End:  Sat May 11 13:58:16 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	327
pfam07889	125	pfam07889, DUF1664, Protein of unknown function (D	4e-47

>gnl|CDD|203795 pfam07889, DUF1664, Protein of unknown function (DUF1664)

 Score =  154 bits (392), Expect = 4e-47
 Identities = 57/126 (45%), Positives = 87/126 (69%), Gaps = 3/126 (2%)

Query: 88  GTGAKKYGVI--VVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSIS 145
           G+G +KY ++    + A+GYGY+WWKGW   D+MF T+R++SDA  SV +QLE V  SI+
Sbjct: 1   GSG-RKYLIVPAAALGALGYGYMWWKGWSFSDLMFVTKRNMSDAVASVGKQLEKVSESIA 59

Query: 146 AAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLI 205
           AA++ LS +I ++D  +++  EIS++T++EVT +R     IG++ +SV   V+ LE KL 
Sbjct: 60  AAKKHLSQRIDNLDDKLDEQKEISESTRDEVTEIREDLSNIGEDVKSVHQAVEGLEGKLD 119

Query: 206 EIEGKQ 211
            IE KQ
Sbjct: 120 SIEYKQ 125

The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long. Length = 125

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	327
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	100.0
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	97.04
PRK10884	206	SH3 domain-containing protein; Provisional	95.74
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	95.53
KOG2629	300	consensus Peroxisomal membrane anchor protein (per	94.76
PF01519	102	DUF16: Protein of unknown function DUF16; InterPro	94.18
PF00038	312	Filament: Intermediate filament protein; InterPro:	93.28
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	93.15
PHA02562	562	46 endonuclease subunit; Provisional	92.87
PRK15048	553	methyl-accepting chemotaxis protein II; Provisiona	92.46
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	92.14
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.02
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	91.79
PRK14011	144	prefoldin subunit alpha; Provisional	91.7
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	91.55
PRK11637	428	AmiB activator; Provisional	91.21
PF10158	131	LOH1CR12: Tumour suppressor protein; InterPro: IPR	90.96
PRK11637	428	AmiB activator; Provisional	90.72
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	90.61
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	90.08
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	89.73
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	89.36
PRK10920	390	putative uroporphyrinogen III C-methyltransferase;	89.27
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	89.1
PF06419	618	COG6: Conserved oligomeric complex COG6; InterPro:	88.8
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	88.53
PF02996	120	Prefoldin: Prefoldin subunit; InterPro: IPR004127	88.52
PRK03947	140	prefoldin subunit alpha; Reviewed	88.5
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	88.49
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	88.43
PRK06975	656	bifunctional uroporphyrinogen-III synthetase/uropo	87.88
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	86.74
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	86.52
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	85.88
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	85.47
PRK04778	569	septation ring formation regulator EzrA; Provision	85.21
PF05478	806	Prominin: Prominin; InterPro: IPR008795 The promin	85.13
PF05816	333	TelA: Toxic anion resistance protein (TelA); Inter	85.12
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	84.92
PHA02562	562	46 endonuclease subunit; Provisional	84.81
PF10046	99	BLOC1_2: Biogenesis of lysosome-related organelles	84.66
PF10241	88	KxDL: Uncharacterized conserved protein; InterPro:	84.14
PF04513	140	Baculo_PEP_C: Baculovirus polyhedron envelope prot	83.79
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	83.75
TIGR02132	189	phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR	83.42
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	83.37
COG4942	420	Membrane-bound metallopeptidase [Cell division and	83.03
PRK10884	206	SH3 domain-containing protein; Provisional	82.63
smart00283	262	MA Methyl-accepting chemotaxis-like domains (chemo	82.56
PRK15048	553	methyl-accepting chemotaxis protein II; Provisiona	82.39
PF05531	75	NPV_P10: Nucleopolyhedrovirus P10 protein; InterPr	81.18
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	81.07
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	81.05
PF04100	383	Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007	80.81
PF05739	63	SNARE: SNARE domain; InterPro: IPR000727 The proce	80.71
PF10226	195	DUF2216: Uncharacterized conserved proteins (DUF22	80.48
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	80.4
PF10828	110	DUF2570: Protein of unknown function (DUF2570); In	80.14
PRK04778	569	septation ring formation regulator EzrA; Provision	80.13
PRK09039	343	hypothetical protein; Validated	80.11

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=100.00  E-value=8.7e-59  Score=394.67  Aligned_cols=119  Identities=48%  Similarity=0.781  Sum_probs=116.0

Q ss_pred             chhh-hHHHhhhheeeEEecccCCCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHH
Q 020328           93 KYGV-IVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQA  171 (327)
Q Consensus        93 ~y~l-~a~iGavGYgYmwWKGws~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~  171 (327)
                      .|++ +|++||+|||||||||||||||||||||||+|||++|+|||||||++|++|||||+||||+||+|||+|.|++++
T Consensus         7 ~~i~paa~~gavGY~Y~wwKGws~sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLsqRId~vd~klDe~~ei~~~   86 (126)
T PF07889_consen    7 SLIVPAAAIGAVGYGYMWWKGWSFSDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKHLSQRIDRVDDKLDEQKEISKQ   86 (126)
T ss_pred             chhhHHHHHHHHHheeeeecCCchhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            4444 689999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020328          172 TQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (327)
Q Consensus       172 ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (327)
                      |++||+++++|+++|++|+++||++|++||+||++||+||
T Consensus        87 i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie~~Q  126 (126)
T PF07889_consen   87 IKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEIEEKQ  126 (126)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            9999999999999999999999999999999999999998

The region featured in this family is approximately 100 amino acids long.

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=97.04  E-value=0.0017  Score=53.96  Aligned_cols=88  Identities=17%  Similarity=0.329  Sum_probs=49.2

Q ss_pred             hhhhHHHhhhheeeEEecccCCCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHH-
Q 020328           94 YGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQAT-  172 (327)
Q Consensus        94 y~l~a~iGavGYgYmwWKGws~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~i-  172 (327)
                      ++++.++.+++|++.||+   ++- =||+|..+..                      |.+|+++.|.++++...-.+.. 
T Consensus         9 w~ii~a~~~~~~~~~~~~---l~~-~~a~~~~~~~----------------------l~~~~~~~~~Rl~~lE~~l~~LP   62 (106)
T PF10805_consen    9 WGIIWAVFGIAGGIFWLW---LRR-TYAKREDIEK----------------------LEERLDEHDRRLQALETKLEHLP   62 (106)
T ss_pred             cHHHHHHHHHHHHHHHHH---HHH-hhccHHHHHH----------------------HHHHHHHHHHHHHHHHHHHHhCC
Confidence            445556667778888886   322 3666655443                      3344444444444444444444 


Q ss_pred             -HHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020328          173 -QEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (327)
Q Consensus       173 -k~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (327)
                       ++||..++..++++.+|++.+..-+++++-.++.+
T Consensus        63 t~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lL   98 (106)
T PF10805_consen   63 TRDDVHDLQLELAELRGELKELSARLQGVSHQLDLL   98 (106)
T ss_pred             CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence             56666666666666666666665555555555444

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.74  E-value=0.33  Score=45.06  Aligned_cols=99  Identities=13%  Similarity=0.233  Sum_probs=74.0

Q ss_pred             heeeEEe----cccCCCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHh
Q 020328          104 GYGYVWW----KGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (327)
Q Consensus       104 GYgYmwW----KGws~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v  179 (327)
                      ||+++.-    .|| +.+=+-.+..++..-+..+-++|+.+.+.|+.+...+.+|-..+..++++....+..+++|-..+
T Consensus        66 ~w~~Vr~~~G~~GW-V~~~~Ls~~p~~~~rlp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L  144 (206)
T PRK10884         66 NYAQIRDSKGRTAW-IPLKQLSTTPSLRTRVPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKL  144 (206)
T ss_pred             CEEEEEeCCCCEEe-EEHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5888873    378 55555566778899999999999999999999999999999999888888766665555555444


Q ss_pred             hcchhhhhhHHHHHHHHHHHHHHHHHHhhhh
Q 020328          180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGK  210 (327)
Q Consensus       180 ~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~k  210 (327)
                             ..+++..+.-++.|+.+++.+..+
T Consensus       145 -------~~~l~~~~~~~~~l~~~~~~~~~~  168 (206)
T PRK10884        145 -------KNQLIVAQKKVDAANLQLDDKQRT  168 (206)
T ss_pred             -------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence                   455566666666666777766554

>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2

Probab=95.53  E-value=0.085  Score=52.14  Aligned_cols=44  Identities=11%  Similarity=0.154  Sum_probs=21.1

Q ss_pred             HHHhhcchhhhhhHHHHHHHHHHHHHH------HHHHhhhhhhhHhHHHH
Q 020328          176 VTILRGRSKLIGDEFQSVRDIVQTLES------KLIEIEGKQDITTLGVK  219 (327)
Q Consensus       176 V~~v~~dls~ig~Dv~~v~~~V~~Le~------Ki~~ie~kQd~Tn~GV~  219 (327)
                      +..++..+......++.+++-+..|++      .+.++|+=-..++.-++
T Consensus        95 ~~~l~~~l~~~~~~l~~l~~~~~~l~~~~~~dW~LaEaeyLlrlA~qrL~  144 (372)
T PF04375_consen   95 LQQLQQELAQLQQQLAELQQQLAALSQRSRDDWLLAEAEYLLRLANQRLQ  144 (372)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCChHhHHHHHHHHHHHHHHHHHH
Confidence            333333334444445555555555554      44555555555444443

1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].

>KOG2629 consensus Peroxisomal membrane anchor protein (peroxin) [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=94.76  E-value=0.094  Score=51.47  Aligned_cols=103  Identities=16%  Similarity=0.321  Sum_probs=50.7

Q ss_pred             HHHHHHH---HHHHHhcC-CCceEEEeCCC----------CCCCCcchhh-hHHHhhhhee-eEEecccCCCchhhhhhh
Q 020328           61 LLAEVSS---VQQELSHV-PRSVIIETSSG----------SGTGAKKYGV-IVVIVAVGYG-YVWWKGWKLPDMMFATRR  124 (327)
Q Consensus        61 L~aQV~~---LaqElr~L-sr~iTVvn~~s----------sg~gg~~y~l-~a~iGavGYg-YmwWKGws~SDlMfVTKR  124 (327)
                      |.-..++   .++|++.. ..+-+|+-++.          ..+-++-|++ +++.+++-|+ |-.||-|=+ =+||.-.+
T Consensus        39 I~eAfk~~gi~~~d~s~~~p~~~~~~~~~p~~~~~~P~~~~~~rwrdy~vmAvi~aGi~y~~y~~~K~YV~-P~~l~~~~  117 (300)
T KOG2629|consen   39 IQEAFKRDGIPAQDVSKQIPTANQVVSGGPPLLIIQPQQNVLRRWRDYFVMAVILAGIAYAAYRFVKSYVL-PRFLGESK  117 (300)
T ss_pred             HHHHHHhcCCccccccccCCCcccccCCCchhhhcCCCccchhhHHHHHHHHHHHhhHHHHHHHHHHHHHH-HHhhCccc
Confidence            5555565   67777755 32222322210          0122346776 4455567774 888999844 45554443


Q ss_pred             h--------HHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHH
Q 020328          125 S--------LSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNK  164 (327)
Q Consensus       125 n--------msnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDe  164 (327)
                      +        |.+=...+.|-+.++-+.++..++.++..-+.++..|++
T Consensus       118 ~k~e~~k~~Ld~~~~~~~~~~~~l~~~va~v~q~~~~qq~Els~~L~~  165 (300)
T KOG2629|consen  118 DKLEADKRQLDDQFDKAAKSLNALMDEVAQVSQLLATQQSELSRALAS  165 (300)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3        444444444444444444444444444443333333333

>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function

Probab=94.18  E-value=0.3  Score=41.41  Aligned_cols=82  Identities=18%  Similarity=0.276  Sum_probs=43.1

Q ss_pred             hhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHH
Q 020328          119 MFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQ  198 (327)
Q Consensus       119 MfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~  198 (327)
                      =|||++-+...=.+--.-|..+-..|...  -...+|+-|..+.+.|-|-++..+.++       ..-+.-++.|-....
T Consensus        21 ~YVT~kef~efKd~~~q~L~kiE~~~~~l--~qgeqI~kL~e~V~~QGEqIkel~~e~-------k~qgktL~~I~~~L~   91 (102)
T PF01519_consen   21 KYVTHKEFDEFKDSNNQRLTKIENKLDQL--AQGEQINKLTEKVDKQGEQIKELQVEQ-------KAQGKTLQLILKTLQ   91 (102)
T ss_dssp             TB-BHHHHHHH---HTTB-BHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHhhccHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence            38999988855443333344444444322  333344444444444444444444444       455566677777777


Q ss_pred             HHHHHHHHhhh
Q 020328          199 TLESKLIEIEG  209 (327)
Q Consensus       199 ~Le~Ki~~ie~  209 (327)
                      .+..+||+||+
T Consensus        92 ~inkRLD~~E~  102 (102)
T PF01519_consen   92 SINKRLDKMES  102 (102)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHhhccC
Confidence            77789998874

It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.

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

Probab=93.28  E-value=3.1  Score=39.20  Aligned_cols=92  Identities=24%  Similarity=0.254  Sum_probs=78.9

Q ss_pred             HHHHHHHHHhhhH-HHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHH
Q 020328          126 LSDACNSVARQLE-DVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKL  204 (327)
Q Consensus       126 msnAv~svtKqLe-qVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki  204 (327)
                      |++|...|-.+.+ .+...-..+......+|+.+........+-....++|+.+++..+.....++++++.....||..|
T Consensus       167 L~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l  246 (312)
T PF00038_consen  167 LSAALREIRAQYEEIAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASLERQL  246 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhhhhHHHHHHHHHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhH
Confidence            8889999988877 445666688889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhhhhHhHH
Q 020328          205 IEIEGKQDITTLG  217 (327)
Q Consensus       205 ~~ie~kQd~Tn~G  217 (327)
                      ..++..-+.....
T Consensus       247 ~~le~~~~~~~~~  259 (312)
T PF00038_consen  247 RELEQRLDEEREE  259 (312)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9887665544433

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

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=93.15  E-value=1.4  Score=34.86  Aligned_cols=72  Identities=13%  Similarity=0.237  Sum_probs=57.3

Q ss_pred             hhHHHHHH---HHHHHHHHHHhhhhhhhhHHHHHHHHHHH--HHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhh
Q 020328          136 QLEDVYSS---ISAAQRQLSSKITSVDRDVNKIVEISQAT--QEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIE  208 (327)
Q Consensus       136 qLeqVs~s---LaaaKrHLsqRId~vD~kLDeq~eis~~i--k~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie  208 (327)
                      .|+++.+.   +.....+|..+|+++..+|+++.++....  -+.+. -..++.+|..+|.+++..+..|..|+..|+
T Consensus        15 ~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L~~~~~~~~~~~~~~~~~-y~~KL~~ikkrm~~l~~~l~~lk~R~~~L~   91 (92)
T PF14712_consen   15 DLDRLDQQLQELRQSQEELLQQIDRLNEKLKELNEVEQINEPFDLDP-YVKKLVNIKKRMSNLHERLQKLKKRADKLQ   91 (92)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            44445444   44557799999999999999999966544  34444 888999999999999999999999998775

>PHA02562 46 endonuclease subunit; Provisional

Probab=92.87  E-value=1.2  Score=44.98  Aligned_cols=86  Identities=12%  Similarity=0.171  Sum_probs=63.2

Q ss_pred             HHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020328          132 SVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (327)
Q Consensus       132 svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (327)
                      .+..++++....+...++.+...|+.+..++++...-...++.++..++.++.+++.+++.+...+..++.++..++.+-
T Consensus       192 ~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~l  271 (562)
T PHA02562        192 HIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKI  271 (562)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHH
Confidence            33344444445555566666677888888888888888888888889999998888888888888888888887777665


Q ss_pred             hhHhHH
Q 020328          212 DITTLG  217 (327)
Q Consensus       212 d~Tn~G  217 (327)
                      +.....
T Consensus       272 ~~~~~~  277 (562)
T PHA02562        272 EQFQKV  277 (562)
T ss_pred             HHHHHH
Confidence            544433

>PRK15048 methyl-accepting chemotaxis protein II; Provisional

Probab=92.46  E-value=6.9  Score=39.67  Aligned_cols=21  Identities=33%  Similarity=0.303  Sum_probs=11.1

Q ss_pred             ccCcccccccCCCCCCCCCCC
Q 020328          241 RYTLSRTTLELPGITPSSRSG  261 (327)
Q Consensus       241 ~s~s~~~ale~~~~~p~sr~~  261 (327)
                      +-.|.+|+=|+||.-|-.|..
T Consensus       524 ~~~~~~~~~~~~~~~~~~~~~  544 (553)
T PRK15048        524 PQTPSRPASEQPPAQPRLRIA  544 (553)
T ss_pred             ccccccccccCCccCccCCcC
Confidence            444555666665555544443

>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer

Probab=92.14  E-value=0.19  Score=49.86  Aligned_cols=86  Identities=17%  Similarity=0.246  Sum_probs=30.3

Q ss_pred             hHHHHHHHHHhhhHHHHHHHHHHH---HHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHH
Q 020328          125 SLSDACNSVARQLEDVYSSISAAQ---RQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLE  201 (327)
Q Consensus       125 nmsnAv~svtKqLeqVs~sLaaaK---rHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le  201 (327)
                      +|+.++.++...|..++..|++-+   .+|+..|..+...+.+.....-..+..|..+..|+.+.+.||-...-.|..||
T Consensus        67 ~l~~sl~~~~s~L~sLsstV~~lq~Sl~~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTdvsNLksdVSt~aL~ItdLe  146 (326)
T PF04582_consen   67 DLASSLADMTSELNSLSSTVTSLQSSLSSLSSSVSSLSSTLSDHSSSISDLQSSVSALSTDVSNLKSDVSTQALNITDLE  146 (326)
T ss_dssp             ---------------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhhhcchHhhHH
Confidence            444444555555555544444433   34566677777777777777777777788888888888888888888888888


Q ss_pred             HHHHHhhhh
Q 020328          202 SKLIEIEGK  210 (327)
Q Consensus       202 ~Ki~~ie~k  210 (327)
                      .++..+|..
T Consensus       147 ~RV~~LEs~  155 (326)
T PF04582_consen  147 SRVKALESG  155 (326)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHhcC
Confidence            888877765

It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.

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

Probab=92.02  E-value=3.6  Score=38.28  Aligned_cols=78  Identities=17%  Similarity=0.219  Sum_probs=58.3

Q ss_pred             hhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 020328          135 RQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQD  212 (327)
Q Consensus       135 KqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd  212 (327)
                      +++.++......+.++..+||+..++.-++..+-.++.++|+..++.-.++...-+++.+.-+..|+.+++.++..+.
T Consensus        24 ~~~~~~~~~~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~  101 (251)
T PF11932_consen   24 DQAQQVQQQWVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQ  101 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555555666777788888888888888888888888888777777777777777777777777777777766543

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

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=91.79  E-value=0.43  Score=39.70  Aligned_cols=55  Identities=22%  Similarity=0.346  Sum_probs=47.8

Q ss_pred             HHhhhheeeEEecccCCCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH
Q 020328           99 VIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI  178 (327)
Q Consensus        99 ~iGavGYgYmwWKGws~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~  178 (327)
                      ++.-+|.||+=.+                               ++..|+++|..||+.++..+++..+..+..+++++.
T Consensus        70 v~v~iG~g~~vE~-------------------------------~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~  118 (126)
T TIGR00293        70 VLVSIGSGYYVEK-------------------------------DAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQ  118 (126)
T ss_pred             EEEEcCCCEEEEe-------------------------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5668999999988                               458999999999999999999999999999999888


Q ss_pred             hhcchh
Q 020328          179 LRGRSK  184 (327)
Q Consensus       179 v~~dls  184 (327)
                      +...+.
T Consensus       119 i~~~l~  124 (126)
T TIGR00293       119 LEQEAQ  124 (126)
T ss_pred             HHHHHh
Confidence            766543

This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.

>PRK14011 prefoldin subunit alpha; Provisional

Probab=91.70  E-value=0.6  Score=41.27  Aligned_cols=53  Identities=19%  Similarity=0.249  Sum_probs=45.4

Q ss_pred             HHhhhheeeEEecccCCCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH
Q 020328           99 VIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI  178 (327)
Q Consensus        99 ~iGavGYgYmwWKGws~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~  178 (327)
                      ++..||.||.-=|                               ++..|+++|..||+.|+..+++..+..+.+.+++.+
T Consensus        72 VlVdIGtGy~VEk-------------------------------~~~eA~~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~  120 (144)
T PRK14011         72 AILGVGSDIYLEK-------------------------------DVSEVIEDFKKSVEELDKTKKEGNKKIEELNKEITK  120 (144)
T ss_pred             EEEEccCCeEEEe-------------------------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6779999997655                               567899999999999999999999999999988877


Q ss_pred             hhcc
Q 020328          179 LRGR  182 (327)
Q Consensus       179 v~~d  182 (327)
                      ++..
T Consensus       121 l~~~  124 (144)
T PRK14011        121 LRKE  124 (144)
T ss_pred             HHHH
Confidence            7654

>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function

Probab=91.55  E-value=3  Score=36.43  Aligned_cols=85  Identities=13%  Similarity=0.262  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHhHHHH
Q 020328          140 VYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVK  219 (327)
Q Consensus       140 Vs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~  219 (327)
                      +++-.=+|||.|+.=...|..+||+.-|-...+|++++   ..+.+.+.-++....+......++..+..+-.....=|.
T Consensus        30 ~sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLs---qRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~  106 (126)
T PF07889_consen   30 FSDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKHLS---QRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVD  106 (126)
T ss_pred             hhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            45666678888888888888888887777777776654   233333333443333333334444433333333333333


Q ss_pred             HHHHHHHh
Q 020328          220 KLCDRARE  227 (327)
Q Consensus       220 ~LC~f~~~  227 (327)
                      .+=+.+++
T Consensus       107 ~v~~~V~~  114 (126)
T PF07889_consen  107 SVQQMVEG  114 (126)
T ss_pred             HHHHHHHH
Confidence            33333333

The region featured in this family is approximately 100 amino acids long.

>PRK11637 AmiB activator; Provisional

Probab=91.21  E-value=2.3  Score=42.41  Aligned_cols=81  Identities=11%  Similarity=0.154  Sum_probs=49.4

Q ss_pred             hHHHHHHHHHhhhHHHHHHHH---HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHH
Q 020328          125 SLSDACNSVARQLEDVYSSIS---AAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLE  201 (327)
Q Consensus       125 nmsnAv~svtKqLeqVs~sLa---aaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le  201 (327)
                      ...+=...+-+++++....+.   .-++++.+.|+.++.++++..+-...++.++..+..+++....++...+.-+..++
T Consensus        44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~  123 (428)
T PRK11637         44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQE  123 (428)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555554   34444556677777777777776777777777777777777776666666666555


Q ss_pred             HHHH
Q 020328          202 SKLI  205 (327)
Q Consensus       202 ~Ki~  205 (327)
                      ..+.
T Consensus       124 ~~l~  127 (428)
T PRK11637        124 RLLA  127 (428)
T ss_pred             HHHH
Confidence            5554

>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []

Probab=90.96  E-value=4.6  Score=35.30  Aligned_cols=48  Identities=19%  Similarity=0.398  Sum_probs=41.7

Q ss_pred             hhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHH
Q 020328          124 RSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQA  171 (327)
Q Consensus       124 RnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~  171 (327)
                      |.+-+-|.-...||.+-.+.++....+|.+||-.+|..+....+....
T Consensus        27 ~~~l~Lc~R~Q~HL~~cA~~Va~~Q~~L~~riKevd~~~~~l~~~~~e   74 (131)
T PF10158_consen   27 RPVLRLCSRYQEHLNQCAEAVAFDQNALAKRIKEVDQEIAKLLQQMVE   74 (131)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            567789999999999999999999999999999999988776554443

The exact function of these proteins is not known.

>PRK11637 AmiB activator; Provisional

Probab=90.72  E-value=2.1  Score=42.74  Aligned_cols=78  Identities=13%  Similarity=0.187  Sum_probs=38.9

Q ss_pred             HHHHhhhHHHHHHHHHHHHHHH---HhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020328          131 NSVARQLEDVYSSISAAQRQLS---SKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (327)
Q Consensus       131 ~svtKqLeqVs~sLaaaKrHLs---qRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (327)
                      +.+-++|+++...|...++.+.   .++..+..++++..+=...+.+++..++.+++.+..+++.++.-+..++.+|+..
T Consensus        43 ~~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~  122 (428)
T PRK11637         43 SDNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQ  122 (428)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455555555555555555444   4444444444444444444444455555555555555555555555555444444


Q ss_pred             h
Q 020328          208 E  208 (327)
Q Consensus       208 e  208 (327)
                      +
T Consensus       123 ~  123 (428)
T PRK11637        123 E  123 (428)
T ss_pred             H
Confidence            3

>smart00502 BBC B-Box C-terminal domain

Probab=90.61  E-value=2.7  Score=33.34  Aligned_cols=32  Identities=22%  Similarity=0.266  Sum_probs=21.4

Q ss_pred             hhHhHHHHHHHHHHHhhcc-CCCccceeccccC
Q 020328          212 DITTLGVKKLCDRARELEN-GRPTELVQASRYT  243 (327)
Q Consensus       212 d~Tn~GV~~LC~f~~~~~~-~~~~~~~Q~~~s~  243 (327)
                      ......+..+|.|++..-. +...+++|..++.
T Consensus        85 ~~~l~~l~~~~~~~e~~l~~~~~~e~L~~~~~i  117 (127)
T smart00502       85 TQKQEKLSHAINFTEEALNSGDPTELLLSKKLI  117 (127)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHH
Confidence            3456778888999876544 4666777765443

Coiled coil region C-terminal to (some) B-Box domains

>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins

Probab=90.08  E-value=13  Score=33.16  Aligned_cols=97  Identities=21%  Similarity=0.313  Sum_probs=51.1

Q ss_pred             hhhhhhHHHHHHHHHhhhHHHHHHHHHHHHH----HHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchh-hhhhHHHHHH
Q 020328          120 FATRRSLSDACNSVARQLEDVYSSISAAQRQ----LSSKITSVDRDVNKIVEISQATQEEVTILRGRSK-LIGDEFQSVR  194 (327)
Q Consensus       120 fVTKRnmsnAv~svtKqLeqVs~sLaaaKrH----LsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls-~ig~Dv~~v~  194 (327)
                      ||||..+.+..-..-..+.++-..+....|+    |....+.|...+|..   -+.+++|+..++.++. .|..+=..++
T Consensus        43 ~vtk~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l---~~~L~~ei~~l~a~~klD~n~eK~~~r  119 (177)
T PF07798_consen   43 LVTKSDLENQEYLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKL---RQELREEINKLRAEVKLDLNLEKGRIR  119 (177)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence            6888888887777777777777666655554    333334444444333   2344555554444332 1111122344


Q ss_pred             HHHHHHHHHHHHhhhhhhhHhHHHH
Q 020328          195 DIVQTLESKLIEIEGKQDITTLGVK  219 (327)
Q Consensus       195 ~~V~~Le~Ki~~ie~kQd~Tn~GV~  219 (327)
                      .....+|.||..++.+-+....++.
T Consensus       120 ~e~~~~~~ki~e~~~ki~~ei~~lr  144 (177)
T PF07798_consen  120 EEQAKQELKIQELNNKIDTEIANLR  144 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555544444443

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=89.73  E-value=5.4  Score=34.94  Aligned_cols=63  Identities=16%  Similarity=0.222  Sum_probs=53.2

Q ss_pred             HHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 020328          150 QLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQD  212 (327)
Q Consensus       150 HLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd  212 (327)
                      .|+.||+-|...||+...--+.+.+.+.++....+.+..-+..+..-...+|.|++.++.+-.
T Consensus        77 ~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~~  139 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKYK  139 (143)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            477888888888888888888888888888888888888888888888888888888877643

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 [].

>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []

Probab=89.36  E-value=12  Score=32.33  Aligned_cols=15  Identities=7%  Similarity=0.337  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHHHhcC
Q 020328           61 LLAEVSSVQQELSHV   75 (327)
Q Consensus        61 L~aQV~~LaqElr~L   75 (327)
                      +...++.++++.+.|
T Consensus        45 ~~~~i~~ia~qt~lL   59 (213)
T PF00015_consen   45 ILSLINEIAEQTNLL   59 (213)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHh
Confidence            777788888888877

Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.

>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional

Probab=89.27  E-value=1.3  Score=44.79  Aligned_cols=63  Identities=14%  Similarity=0.260  Sum_probs=27.5

Q ss_pred             CCcchhh--hHHHhhhheeeEEecccCCCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhh
Q 020328           90 GAKKYGV--IVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDR  160 (327)
Q Consensus        90 gg~~y~l--~a~iGavGYgYmwWKGws~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~  160 (327)
                      +|..+++  ++++-++|+||-|| |.       --.......-+.+..+|+.......+.+..|.+.+..++.
T Consensus        35 ~g~~l~~~aili~la~g~g~y~~-~~-------qq~~~~~~~~~~L~~ql~~~~~~~~~~~~~l~~~~~~~~~   99 (390)
T PRK10920         35 TGLVLSAVAIAIALAAGAGLYYH-GK-------QQAQNQTATNDALANQLTALQKAQESQKQELEGILKQQAK   99 (390)
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHH-HH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444  23334777777666 11       1111233344444444444444444444444433333333

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=89.10  E-value=4.6  Score=32.99  Aligned_cols=81  Identities=12%  Similarity=0.168  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHH
Q 020328          141 YSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKK  220 (327)
Q Consensus       141 s~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~  220 (327)
                      ..+|.++-+.|.+-|++|+..++.-.+.....    .++..++..++.|-..+-+-..+.+.+...+|..|.-....+.+
T Consensus         3 ~~~le~al~rL~~aid~LE~~v~~r~~~~~~~----~~~e~ei~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~   78 (89)
T PF13747_consen    3 TYSLEAALTRLEAAIDRLEKAVDRRLERDRKR----DELEEEIQRLDADRSRLAQELDQAEARANRLEEANREVSRRLDS   78 (89)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHhhhhh----hhHHHHHHHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            45666777777777777777777766544433    44445555566666666666666667777777666665555555


Q ss_pred             HHHHH
Q 020328          221 LCDRA  225 (327)
Q Consensus       221 LC~f~  225 (327)
                      ..+-+
T Consensus        79 a~e~I   83 (89)
T PF13747_consen   79 AIETI   83 (89)
T ss_pred             HHHHH
Confidence            54444

>PF06419 COG6: Conserved oligomeric complex COG6; InterPro: IPR010490 COG6 is a component of the conserved oligomeric golgi complex, which is composed of eight different subunits and is required for normal golgi morphology and localisation

Probab=88.80  E-value=3.3  Score=43.83  Aligned_cols=88  Identities=17%  Similarity=0.282  Sum_probs=69.2

Q ss_pred             CCchhhh----hhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHH
Q 020328          115 LPDMMFA----TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEF  190 (327)
Q Consensus       115 ~SDlMfV----TKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv  190 (327)
                      ++++.|+    +||||...+   -+.+=.....+-..=+.+..+|+++...++++++....+++.+...+.+...+-.++
T Consensus         6 L~~~~~~nt~~aRr~LR~~i---E~~~l~~~~~~L~~f~~v~~~l~~~~~~v~~l~~~~~~~~~~l~~~~~~t~~ll~~~   82 (618)
T PF06419_consen    6 LSEFGFENTLEARRNLRSDI---EKRLLKINQEFLKEFSPVNRQLKRLQSDVDKLNSSCDQMQDRLSAAKSETSDLLEEA   82 (618)
T ss_pred             hcccccCCcHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666666    889887654   455666666677777788889999999999999999999999999998888888888


Q ss_pred             HHHHHHHHHHHHHHH
Q 020328          191 QSVRDIVQTLESKLI  205 (327)
Q Consensus       191 ~~v~~~V~~Le~Ki~  205 (327)
                      +.++.--..+|.|-.
T Consensus        83 ~~L~~~~~~~~~k~~   97 (618)
T PF06419_consen   83 SELREQKEELELKKK   97 (618)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            888755555555544

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

Probab=88.53  E-value=5.7  Score=45.12  Aligned_cols=98  Identities=15%  Similarity=0.207  Sum_probs=79.3

Q ss_pred             HhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 020328          134 ARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDI  213 (327)
Q Consensus       134 tKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~  213 (327)
                      -+..++.-+.+...=+...+++...+.++-+..+-.+.+++||+.-.+.++.+..|++..+..+..++.++.+++..-+-
T Consensus       290 i~~~qek~~~l~~ki~~~~~k~~~~r~k~teiea~i~~~~~e~~~~d~Ei~~~r~~~~~~~re~~~~~~~~~~~~n~i~~  369 (1074)
T KOG0250|consen  290 IKKKQEKVDTLQEKIEEKQGKIEEARQKLTEIEAKIGELKDEVDAQDEEIEEARKDLDDLRREVNDLKEEIREIENSIRK  369 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555556667777778888888888888899999999999999999999999999999999999998888


Q ss_pred             HhHHHHHHHHHHHhhccC
Q 020328          214 TTLGVKKLCDRARELENG  231 (327)
Q Consensus       214 Tn~GV~~LC~f~~~~~~~  231 (327)
                      .-.-+++||.-+..++..
T Consensus       370 ~k~~~d~l~k~I~~~~~~  387 (1074)
T KOG0250|consen  370 LKKEVDRLEKQIADLEKQ  387 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            888999999888765543

>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits

Probab=88.52  E-value=0.7  Score=37.64  Aligned_cols=56  Identities=21%  Similarity=0.303  Sum_probs=44.1

Q ss_pred             HHhhhheeeEEecccCCCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH
Q 020328           99 VIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI  178 (327)
Q Consensus        99 ~iGavGYgYmwWKGws~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~  178 (327)
                      ++.-+|.||+=++                               ++..|++.|..||+.+..++++..+-.+.+++++..
T Consensus        61 vlV~lG~~~~vE~-------------------------------s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~  109 (120)
T PF02996_consen   61 VLVSLGAGYYVEM-------------------------------SLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQ  109 (120)
T ss_dssp             EEEEEETTEEEEE-------------------------------EHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             EEEEeeCCeEEEe-------------------------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5568999999888                               457888889999999998888888887777777766


Q ss_pred             hhcchhh
Q 020328          179 LRGRSKL  185 (327)
Q Consensus       179 v~~dls~  185 (327)
                      +...+++
T Consensus       110 ~~~~l~~  116 (120)
T PF02996_consen  110 LEQTLQQ  116 (120)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6655443

Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.

>PRK03947 prefoldin subunit alpha; Reviewed

Probab=88.50  E-value=1.9  Score=36.59  Aligned_cols=56  Identities=23%  Similarity=0.318  Sum_probs=41.4

Q ss_pred             HHhhhheeeEEecccCCCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH
Q 020328           99 VIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI  178 (327)
Q Consensus        99 ~iGavGYgYmwWKGws~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~  178 (327)
                      ++.-+|+||+=.+                               .+..|++.|..||+.++..+++..+....+++++..
T Consensus        78 V~v~lG~g~~vE~-------------------------------~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~  126 (140)
T PRK03947         78 VIVSLGAGYSAEK-------------------------------DLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQ  126 (140)
T ss_pred             EEEEcCCCEEEEe-------------------------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667999999988                               347788888888888888888877777777776655


Q ss_pred             hhcchhh
Q 020328          179 LRGRSKL  185 (327)
Q Consensus       179 v~~dls~  185 (327)
                      ++..+.+
T Consensus       127 ~~~~l~~  133 (140)
T PRK03947        127 LAQELQQ  133 (140)
T ss_pred             HHHHHHH
Confidence            5554433

>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []

Probab=88.49  E-value=15  Score=31.65  Aligned_cols=58  Identities=14%  Similarity=0.193  Sum_probs=21.7

Q ss_pred             HHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020328          150 QLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (327)
Q Consensus       150 HLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (327)
                      ++...++.+-..+++..+......+.+......+..|...++.+...+..+...+.++
T Consensus       104 ~i~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~i~~~~~~i~~~i~~i~~~~~~~  161 (213)
T PF00015_consen  104 EIQEQISQVVESMEESREQIEEGSESVEETSESLEEIAESVEEISDSIEEISESAEEQ  161 (213)
T ss_dssp             HHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhhhcchhhhhhhcccchhcchhhhhhhhhhhHHhhhhHHHHhhHHHH
Confidence            3333333333333333333333333333333333444444444444443333333333

Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.

>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins

Probab=88.43  E-value=2  Score=35.81  Aligned_cols=65  Identities=11%  Similarity=0.235  Sum_probs=48.8

Q ss_pred             HHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhh--hhHHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHH
Q 020328          152 SSKITSVDRDVNKIVEISQATQEEVTILRGRSKLI--GDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCD  223 (327)
Q Consensus       152 sqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~i--g~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~  223 (327)
                      ..+++.+++++++       ..+-++.+..++.+.  .+|+..++..+..++++++.+++.=+--++-+.+|.+
T Consensus        34 ~~~~~~l~~~~~~-------~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lLlE  100 (106)
T PF10805_consen   34 REDIEKLEERLDE-------HDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLLLE  100 (106)
T ss_pred             HHHHHHHHHHHHH-------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            4566666666555       455677777777888  8888889988999999999998887777777777754

The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.

>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed

Probab=87.88  E-value=2.9  Score=44.62  Aligned_cols=33  Identities=21%  Similarity=0.282  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHH
Q 020328          144 ISAAQRQLSSKITSVDRDVNKIVEISQATQEEV  176 (327)
Q Consensus       144 LaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV  176 (327)
                      ...+.+.+.+|+..++.++.+...-..+++.-+
T Consensus       376 ~~~~~~~~~~~l~~le~~l~~~~~~~~~L~~~~  408 (656)
T PRK06975        376 AQASVHQLDSQFAQLDGKLADAQSAQQALEQQY  408 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444555555555555554444444444333

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

Probab=86.74  E-value=11  Score=35.24  Aligned_cols=76  Identities=9%  Similarity=0.170  Sum_probs=57.7

Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHH
Q 020328          130 CNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLI  205 (327)
Q Consensus       130 v~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~  205 (327)
                      .....++..+--+.+...|+.|.++|+.+...++....-.+..+..|...+..+..+..+++++..+-..|..=|.
T Consensus        33 ~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~  108 (251)
T PF11932_consen   33 WVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVPLME  108 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344556666677788888889999988888888888888888888888888888888888888766555555443

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

>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins

Probab=86.52  E-value=6.1  Score=31.23  Aligned_cols=26  Identities=15%  Similarity=0.139  Sum_probs=12.0

Q ss_pred             chhhhhhHHHHHHHHHHHHHHHHHHh
Q 020328          182 RSKLIGDEFQSVRDIVQTLESKLIEI  207 (327)
Q Consensus       182 dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (327)
                      |+...-+.++.+-+.|..++..+..+
T Consensus        62 dv~~k~~~v~~~~~~v~~~g~~v~~l   87 (90)
T PF06103_consen   62 DVNEKLEKVDPVFEAVADLGESVSEL   87 (90)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            33333344445555555555554443

>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene

Probab=85.88  E-value=7.4  Score=32.64  Aligned_cols=19  Identities=21%  Similarity=0.398  Sum_probs=8.1

Q ss_pred             HHHHHHHHHhhhHHHHHHH
Q 020328          126 LSDACNSVARQLEDVYSSI  144 (327)
Q Consensus       126 msnAv~svtKqLeqVs~sL  144 (327)
                      |.+.+..+..+++.+.+.|
T Consensus         3 l~~~~~~l~~~~~~l~~~l   21 (202)
T PF01442_consen    3 LDDRLDSLSSRTEELEERL   21 (202)
T ss_dssp             HHHHHHHHHHHHHHHHHCH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444333

This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=85.47  E-value=10  Score=39.84  Aligned_cols=50  Identities=6%  Similarity=0.102  Sum_probs=20.9

Q ss_pred             hHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhh
Q 020328          161 DVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGK  210 (327)
Q Consensus       161 kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~k  210 (327)
                      +|.++++-++++++++..+|.+++.+....+..++.++.||..+.+++..
T Consensus        70 ALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Q  119 (475)
T PRK13729         70 ATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQ  119 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            34444444444444444444433333333333344444444444444433

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=85.21  E-value=16  Score=38.18  Aligned_cols=121  Identities=13%  Similarity=0.267  Sum_probs=75.9

Q ss_pred             hheeeEEecccCCCchhhhhh--------------------hhHHHHHHHHHhhhHHHHHHHH---HHHHHHHHhhhhhh
Q 020328          103 VGYGYVWWKGWKLPDMMFATR--------------------RSLSDACNSVARQLEDVYSSIS---AAQRQLSSKITSVD  159 (327)
Q Consensus       103 vGYgYmwWKGws~SDlMfVTK--------------------RnmsnAv~svtKqLeqVs~sLa---aaKrHLsqRId~vD  159 (327)
                      -||-=|-=+|..|.++=.-.+                    +.....+..+.+++|++|+.|.   .||+...+.+..+.
T Consensus       237 ~gy~~m~~~gy~~~~~~i~~~i~~l~~~i~~~~~~l~~l~l~~~~~~~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~  316 (569)
T PRK04778        237 AGYRELVEEGYHLDHLDIEKEIQDLKEQIDENLALLEELDLDEAEEKNEEIQERIDQLYDILEREVKARKYVEKNSDTLP  316 (569)
T ss_pred             HHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            355556677888887532222                    2344566778888888888886   47777777777777


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcc----------hhhhhhHHHHHHHH---------------------HHHHHHHHHHhh
Q 020328          160 RDVNKIVEISQATQEEVTILRGR----------SKLIGDEFQSVRDI---------------------VQTLESKLIEIE  208 (327)
Q Consensus       160 ~kLDeq~eis~~ik~eV~~v~~d----------ls~ig~Dv~~v~~~---------------------V~~Le~Ki~~ie  208 (327)
                      +.++...+-.+.++.|+..++..          +..+..+++.+...                     ...|..++..++
T Consensus       317 ~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie  396 (569)
T PRK04778        317 DFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIE  396 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            77777777777777776666665          44444444443333                     344555555666


Q ss_pred             hhhhhHhHHHHHHHH
Q 020328          209 GKQDITTLGVKKLCD  223 (327)
Q Consensus       209 ~kQd~Tn~GV~~LC~  223 (327)
                      ..|.--..-|..|+.
T Consensus       397 ~eq~ei~e~l~~Lrk  411 (569)
T PRK04778        397 KEQEKLSEMLQGLRK  411 (569)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            666655555555543

>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology

Probab=85.13  E-value=9.2  Score=41.71  Aligned_cols=33  Identities=15%  Similarity=0.285  Sum_probs=24.2

Q ss_pred             HHHHHhhhHHHHHH-HHHHHHHHHHhhhhhhhhH
Q 020328          130 CNSVARQLEDVYSS-ISAAQRQLSSKITSVDRDV  162 (327)
Q Consensus       130 v~svtKqLeqVs~s-LaaaKrHLsqRId~vD~kL  162 (327)
                      ++++.+|+++|-.. ...++.|+...|++.+..+
T Consensus       189 l~~~~~qi~~l~~~ny~~~~~~v~~~L~~~~~~l  222 (806)
T PF05478_consen  189 LNDTPQQIDHLLVQNYSELKDHVSSDLDNIGSLL  222 (806)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHhccchh
Confidence            45666777777777 7778888888888777654

Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane

>PF05816 TelA: Toxic anion resistance protein (TelA); InterPro: IPR008863 This family consists of several prokaryotic TelA like proteins

Probab=85.12  E-value=12  Score=36.70  Aligned_cols=100  Identities=12%  Similarity=0.168  Sum_probs=73.6

Q ss_pred             hhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhh--------------
Q 020328          122 TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIG--------------  187 (327)
Q Consensus       122 TKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig--------------  187 (327)
                      .-+.+-.=..++..|+|.++..|...+.+|...+..+|.--++..+..+++..-+......+..+.              
T Consensus        85 ~~~~~~~ky~sv~~qId~I~~~L~~~~~~L~~d~~~L~~l~~~n~~~~~~L~~~I~ag~~~~~~l~~~~~~~~~~~~~~d  164 (333)
T PF05816_consen   85 SLERYFAKYQSVQSQIDKIIAELESGQDELLRDNAMLDQLYEKNWEYYQELEKYIAAGELKLEELEAELLPALQADAEGD  164 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhccccC
Confidence            334444456899999999999999999999999999998877777666666544433333333322              


Q ss_pred             ----hHHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHH
Q 020328          188 ----DEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKL  221 (327)
Q Consensus       188 ----~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~L  221 (327)
                          ..+..+.+.+..||.|+..++-.+.++..+.--+
T Consensus       165 ~~~~q~~~~~~~~l~~leqRi~DL~~~~~va~Q~~pqi  202 (333)
T PF05816_consen  165 QMDAQELADLEQALFRLEQRIQDLQLSRQVAIQTAPQI  202 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence                2345667788999999999998888888776543

TelA and KlA are associated with tellurite resistance [] and plasmid fertility inhibition [].

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

Probab=84.92  E-value=17  Score=31.96  Aligned_cols=6  Identities=17%  Similarity=0.396  Sum_probs=2.4

Q ss_pred             HHHHHH
Q 020328          220 KLCDRA  225 (327)
Q Consensus       220 ~LC~f~  225 (327)
                      +|++.+
T Consensus       176 ~l~~~~  181 (191)
T PF04156_consen  176 QLEEKI  181 (191)
T ss_pred             HHHHHH
Confidence            344433

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 [].

>PHA02562 46 endonuclease subunit; Provisional

Probab=84.81  E-value=14  Score=37.41  Aligned_cols=50  Identities=6%  Similarity=0.130  Sum_probs=23.5

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHH
Q 020328          157 SVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIE  206 (327)
Q Consensus       157 ~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~  206 (327)
                      .+..++.+........++++.........+..++++++..+..++.++.+
T Consensus       334 ~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~  383 (562)
T PHA02562        334 EQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAK  383 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHH
Confidence            33333333333334444444444444555555555555555555444443

>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system []

Probab=84.66  E-value=19  Score=29.53  Aligned_cols=67  Identities=13%  Similarity=0.130  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhh---HHHHHHHHHHHHHHHHHHhhhh
Q 020328          144 ISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGD---EFQSVRDIVQTLESKLIEIEGK  210 (327)
Q Consensus       144 LaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~---Dv~~v~~~V~~Le~Ki~~ie~k  210 (327)
                      |...=+..+.|...+++.......-.+.......+++.-+.+|..   .|..+-.+|..||.=..++|.|
T Consensus        26 Le~mN~~~~~kY~~~~~~~~~l~~~~~~l~~k~~~l~~~l~~Id~Ie~~V~~LE~~v~~LD~ysk~LE~k   95 (99)
T PF10046_consen   26 LENMNKATSLKYKKMKDIAAGLEKNLEDLNQKYEELQPYLQQIDQIEEQVTELEQTVYELDEYSKELESK   95 (99)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444455555555555555555555555555555544444444   6666666666666666666554

>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins

Probab=84.14  E-value=9.4  Score=30.86  Aligned_cols=63  Identities=17%  Similarity=0.254  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHhhhhhhhhHHHHHHHHHH----HHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHH
Q 020328          144 ISAAQRQLSSKITSVDRDVNKIVEISQA----TQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIE  206 (327)
Q Consensus       144 LaaaKrHLsqRId~vD~kLDeq~eis~~----ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~  206 (327)
                      +-++.+++.+|++.=-..|.++++.++.    ++.+...=...+..+..|++.++.-++.|..|+..
T Consensus        16 ~l~~Q~~~l~~ln~tn~~L~~~n~~s~~rl~~~~~~f~~~~~~l~~mK~DLd~i~krir~lk~kl~~   82 (88)
T PF10241_consen   16 ILALQAQTLGRLNKTNEELLNLNDLSQQRLAEARERFARHTKLLKEMKKDLDYIFKRIRSLKAKLAK   82 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556677788888877777777777653    44556666667788899999999999999988864

There is a characteristic KxDL motif towards the C terminus. The function is unknown.

>PF04513 Baculo_PEP_C: Baculovirus polyhedron envelope protein, PEP, C terminus ; InterPro: IPR007601 Polyhedra are large crystalline occlusion bodies containing nucleopolyhedrovirus virions, and surrounded by an electron-dense structure called the polyhedron envelope or polyhedron calyx

Probab=83.79  E-value=17  Score=32.48  Aligned_cols=83  Identities=12%  Similarity=0.247  Sum_probs=61.2

Q ss_pred             hHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHH-HHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHH
Q 020328          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKI-VEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESK  203 (327)
Q Consensus       125 nmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq-~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~K  203 (327)
                      .++..+..+-.||..+.+.|...-..+..|++.+-.+|++. ..+++.++.|.+.+..++.+.-..|-++......|-..
T Consensus        35 ql~~~~d~i~~~L~~l~~~l~~ll~~l~~~l~~l~~~L~~aln~Lq~~~rneLtnlnsil~nL~ssvTNin~tLnnLl~a  114 (140)
T PF04513_consen   35 QLTTILDAIQTQLNALSTDLTNLLADLDTRLDTLLTNLNDALNQLQDTLRNELTNLNSILNNLTSSVTNINATLNNLLQA  114 (140)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            35677888888888888888888888888888777777654 45667788888888888777777777766665555555


Q ss_pred             HHHh
Q 020328          204 LIEI  207 (327)
Q Consensus       204 i~~i  207 (327)
                      +.-+
T Consensus       115 ln~l  118 (140)
T PF04513_consen  115 LNNL  118 (140)
T ss_pred             HHHh
Confidence            5444

The polyhedron envelope (associated) protein PEP is thought to be an integral part of the polyhedron envelope. PEP is concentrated at the surface of polyhedra, and is thought to be important for the proper formation of the periphery of polyhedra. It is thought that PEP may stabilise polyhedra and protect them from fusion or aggregation [].; GO: 0005198 structural molecule activity, 0019028 viral capsid, 0019031 viral envelope

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.75  E-value=7.1  Score=38.05  Aligned_cols=67  Identities=15%  Similarity=0.289  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHH
Q 020328          138 EDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKL  204 (327)
Q Consensus       138 eqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki  204 (327)
                      |.-+..+...++.+...|+.+|.++++...=....++++++.+.++.....||+.+..-+.....++
T Consensus        37 ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l  103 (265)
T COG3883          37 DSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELL  103 (265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455667777888888999999999998888888888888888888888888887776655444443

>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit

Probab=83.42  E-value=4.7  Score=37.61  Aligned_cols=57  Identities=16%  Similarity=0.309  Sum_probs=36.7

Q ss_pred             HHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020328          151 LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (327)
Q Consensus       151 LsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (327)
                      +..|+-+|..|+|...|.-..+-+.+.+-++--...+.|+..+.+-+..||.|+|.|
T Consensus        77 vA~lvinlE~kvD~lee~fdd~~d~l~~q~eq~~~~~~~v~~~~q~~~~l~~K~D~~  133 (189)
T TIGR02132        77 VASLVINLEEKVDLIEEFFDDKFDELEAQQEQAPALKKDVTKLKQDIKSLDKKLDKI  133 (189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchHHhHHHHHHHHHHHHHHHHHHH
Confidence            445666666666666665555555555545555566777777777777777777755

This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.

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

Probab=83.37  E-value=56  Score=36.04  Aligned_cols=102  Identities=10%  Similarity=0.185  Sum_probs=62.4

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHH
Q 020328          127 SDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIE  206 (327)
Q Consensus       127 snAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~  206 (327)
                      .+-+..+-..+......-...|..+..+++.+..++.......+.-++.+       ..+..|+..+..++..-.++|..
T Consensus       372 k~ELk~Lk~k~~~~~~~~~~ek~~~~~e~q~L~ekl~~lek~~re~qeri-------~~LE~ELr~l~~~A~E~q~~Lns  444 (717)
T PF09730_consen  372 KAELKALKSKYNELEERYKQEKDRLESEVQNLKEKLMSLEKSSREDQERI-------SELEKELRALSKLAGESQGSLNS  444 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH-------HHHHHHHHHHHHHHHhHHHHHHH
Confidence            34444444555555566666777777777888777777765555555544       44455566677777766677766


Q ss_pred             hhhhhhhHhHHHHHHHHHHHhhccCCCccc
Q 020328          207 IEGKQDITTLGVKKLCDRARELENGRPTEL  236 (327)
Q Consensus       207 ie~kQd~Tn~GV~~LC~f~~~~~~~~~~~~  236 (327)
                      -..-=..--..+.-|+.++ ++-|+-.|+.
T Consensus       445 AQDELvtfSEeLAqLYHHV-C~cNgeTPnR  473 (717)
T PF09730_consen  445 AQDELVTFSEELAQLYHHV-CMCNGETPNR  473 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHccCCCCcc
Confidence            5555444455666666666 5555555554

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

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

Probab=83.03  E-value=12  Score=38.72  Aligned_cols=82  Identities=17%  Similarity=0.235  Sum_probs=63.7

Q ss_pred             hhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhH
Q 020328          135 RQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDIT  214 (327)
Q Consensus       135 KqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~T  214 (327)
                      ++|+|....|++..    ++|...+++..+...-.+..+.|+..+..-+.++..|++.+++.+..++..|..++..+ ..
T Consensus        38 ~~l~q~q~ei~~~~----~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql~~s~~~l~~~~~~I~~~~~~l~~l~~q~-r~  112 (420)
T COG4942          38 KQLKQIQKEIAALE----KKIREQQDQRAKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLNALEVQE-RE  112 (420)
T ss_pred             HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHH-HH
Confidence            88888887777654    45556666777777777778888888888889999999999999999999998888766 66


Q ss_pred             hHHHHHH
Q 020328          215 TLGVKKL  221 (327)
Q Consensus       215 n~GV~~L  221 (327)
                      ..++...
T Consensus       113 qr~~La~  119 (420)
T COG4942         113 QRRRLAE  119 (420)
T ss_pred             HHHHHHH
Confidence            6666544

>PRK10884 SH3 domain-containing protein; Provisional

Probab=82.63  E-value=14  Score=34.35  Aligned_cols=69  Identities=10%  Similarity=0.243  Sum_probs=37.9

Q ss_pred             hHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHH
Q 020328          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSV  193 (327)
Q Consensus       125 nmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v  193 (327)
                      .+.+-++.+..+|++.......-+.++.++++..+...++.++=-++.++|+..++.++....-+.+.+
T Consensus        97 ~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~  165 (206)
T PRK10884         97 DLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDK  165 (206)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            355555555566666666666666666666666555555555555555555555555444333333333

>smart00283 MA Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer)

Probab=82.56  E-value=33  Score=30.08  Aligned_cols=48  Identities=17%  Similarity=0.211  Sum_probs=17.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020328          160 RDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (327)
Q Consensus       160 ~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (327)
                      ..+++..+.+..+.+.+..+...+.+....++.....+..+..++..+
T Consensus        39 ~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i   86 (262)
T smart00283       39 ANADEIAATAQSAAEAAEEGREAVEDAITAMDQIREVVEEAVSAVEEL   86 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333333333

Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.

>PRK15048 methyl-accepting chemotaxis protein II; Provisional

Probab=82.39  E-value=33  Score=34.85  Aligned_cols=60  Identities=13%  Similarity=0.166  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHH
Q 020328          138 EDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIV  197 (327)
Q Consensus       138 eqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V  197 (327)
                      .+.++.+...=.+++.-.+.+....+++.+..+++...+.++...+.++-...+.+...+
T Consensus       269 ~~~s~~v~~~s~el~~~~~~ls~~~~~qa~~i~~i~~s~eeis~~~~e~~~~~~~~~~~~  328 (553)
T PRK15048        269 REGSDAIYAGTREIAAGNTDLSSRTEQQASALEETAASMEQLTATVKQNADNARQASQLA  328 (553)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444555555566666666666666666655555555555555544444444433

>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra []

Probab=81.18  E-value=5.8  Score=32.08  Aligned_cols=51  Identities=8%  Similarity=0.235  Sum_probs=22.1

Q ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHh
Q 020328          128 DACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (327)
Q Consensus       128 nAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v  179 (327)
                      ++++.|..+.+.++..+...+..+ .+++.+..|||.+.+-...+.+.|+++
T Consensus        11 ~dIk~vd~KVdaLq~~V~~l~~~~-~~v~~l~~klDa~~~~l~~l~~~V~~I   61 (75)
T PF05531_consen   11 QDIKAVDDKVDALQTQVDDLESNL-PDVTELNKKLDAQSAQLTTLNTKVNEI   61 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444444443333333 333334444444444444444444333

; GO: 0019028 viral capsid

>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms

Probab=81.07  E-value=18  Score=36.47  Aligned_cols=78  Identities=15%  Similarity=0.288  Sum_probs=38.3

Q ss_pred             hhhhhHHHHHHHHHhhhHHHHHHHHHHH-------HHHHHhhhhh-------hhhHHHHHHHHHHHHHHHHHhhcchhhh
Q 020328          121 ATRRSLSDACNSVARQLEDVYSSISAAQ-------RQLSSKITSV-------DRDVNKIVEISQATQEEVTILRGRSKLI  186 (327)
Q Consensus       121 VTKRnmsnAv~svtKqLeqVs~sLaaaK-------rHLsqRId~v-------D~kLDeq~eis~~ik~eV~~v~~dls~i  186 (327)
                      -=+.+++++...+..||+.+++.+..+-       |||.++++.+       -++|.+.++--++...-|++....|.+|
T Consensus       227 ~~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~I  306 (359)
T PF10498_consen  227 QHKKSIESALPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEI  306 (359)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3344445555555555555555544444       4444444433       2333333333344444466666666666


Q ss_pred             hhHHHHHHHHHH
Q 020328          187 GDEFQSVRDIVQ  198 (327)
Q Consensus       187 g~Dv~~v~~~V~  198 (327)
                      .++++.+++-+.
T Consensus       307 seeLe~vK~eme  318 (359)
T PF10498_consen  307 SEELEQVKQEME  318 (359)
T ss_pred             HHHHHHHHHHHH
Confidence            666666664433

Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.

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

Probab=81.05  E-value=23  Score=32.88  Aligned_cols=68  Identities=13%  Similarity=0.264  Sum_probs=49.4

Q ss_pred             HHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHhHHHH
Q 020328          152 SSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVK  219 (327)
Q Consensus       152 sqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~  219 (327)
                      ..||+.|..+|.+...+.........++...+..+-.|++....-+..+|.|+..++..-.....-+.
T Consensus        91 eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk  158 (237)
T PF00261_consen   91 EERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLK  158 (237)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHH
Confidence            45666666667777777777777777888888888888888888888888888877765444444443

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 ....

>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events []

Probab=80.81  E-value=6.2  Score=39.56  Aligned_cols=43  Identities=21%  Similarity=0.415  Sum_probs=22.4

Q ss_pred             hHHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHHHHHhhcc
Q 020328          188 DEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELEN  230 (327)
Q Consensus       188 ~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~f~~~~~~  230 (327)
                      .+++.++..+..|-.||.+|..+=..|-.=|..+|.=++.+++
T Consensus        57 ~~l~~a~~~i~~L~~~i~~ik~kA~~sE~~V~~it~dIk~LD~   99 (383)
T PF04100_consen   57 EDLEEAQEAIQELFEKISEIKSKAEESEQMVQEITRDIKQLDN   99 (383)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344445555555555555555555555555555555554444

>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]

Probab=80.71  E-value=12  Score=27.21  Aligned_cols=53  Identities=15%  Similarity=0.218  Sum_probs=29.8

Q ss_pred             HhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHH
Q 020328          153 SKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLI  205 (327)
Q Consensus       153 qRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~  205 (327)
                      ..|+.+..++.+.+++...|.++|.+=..-|.+|..+++....-+..=-.+|.
T Consensus         4 ~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l~   56 (63)
T PF05739_consen    4 EELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKLK   56 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566666666666666666666655555555555555555544444333333

Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....

>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain

Probab=80.48  E-value=53  Score=31.03  Aligned_cols=38  Identities=34%  Similarity=0.435  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhh---hHhHHHHHHHHHHHh
Q 020328          190 FQSVRDIVQTLESKLIEIEGKQD---ITTLGVKKLCDRARE  227 (327)
Q Consensus       190 v~~v~~~V~~Le~Ki~~ie~kQd---~Tn~GV~~LC~f~~~  227 (327)
                      ...+++=|..-..||.++|.+|+   ..|.=+.-||-+..+
T Consensus       103 a~vmr~eV~~Y~~KL~eLE~kq~~L~rEN~eLKElcl~LDe  143 (195)
T PF10226_consen  103 ASVMRQEVAQYQQKLKELEDKQEELIRENLELKELCLYLDE  143 (195)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhc
Confidence            44566667888889999999886   467788999998855

Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.

>smart00806 AIP3 Actin interacting protein 3

Probab=80.40  E-value=28  Score=36.18  Aligned_cols=94  Identities=17%  Similarity=0.320  Sum_probs=67.8

Q ss_pred             hhHHHHHHHHHhhhHHHHHH------------HHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH-----hhcchhhh
Q 020328          124 RSLSDACNSVARQLEDVYSS------------ISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI-----LRGRSKLI  186 (327)
Q Consensus       124 RnmsnAv~svtKqLeqVs~s------------LaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~-----v~~dls~i  186 (327)
                      +.+..-++++-.++.+|.++            +.+.|++|+..=|+|=.|.|+.+.+.+.+|++|..     ....++.+
T Consensus       176 ~~~~~sm~~i~~k~~~~k~~~~~~~~~s~R~y~e~~k~kL~~~Sd~lltkVDDLQD~vE~LRkDV~~RgVRp~~~qLe~v  255 (426)
T smart00806      176 TEIKESIKDILEKIDKFKSSSLSASGSSNRAYVESSKKKLSEDSDSLLTKVDDLQDIIEALRKDVAQRGVRPSKKQLETV  255 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhccCCCcchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            34555566666777777664            55679999999999999999999999999999743     22345556


Q ss_pred             hhHHHHHHHHHH---------------HHHHHHHHhhhhhhhHhHH
Q 020328          187 GDEFQSVRDIVQ---------------TLESKLIEIEGKQDITTLG  217 (327)
Q Consensus       187 g~Dv~~v~~~V~---------------~Le~Ki~~ie~kQd~Tn~G  217 (327)
                      +.|++....-+.               .||.-|+.|..-|+|=|.=
T Consensus       256 ~kdi~~a~keL~~m~~~i~~eKP~WkKiWE~EL~~VcEEqqfL~lQ  301 (426)
T smart00806      256 QKELETARKELKKMEEYIDIEKPIWKKIWEAELDKVCEEQQFLTLQ  301 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666655554444               4667778888888876653

Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.

>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT

Probab=80.14  E-value=4  Score=34.03  Aligned_cols=17  Identities=24%  Similarity=0.581  Sum_probs=10.4

Q ss_pred             hHHHhhhheeeEEeccc
Q 020328           97 IVVIVAVGYGYVWWKGW  113 (327)
Q Consensus        97 ~a~iGavGYgYmwWKGw  113 (327)
                      ++++.+.-+||+||-.+
T Consensus         9 l~~lvl~L~~~l~~qs~   25 (110)
T PF10828_consen    9 LAVLVLGLGGWLWYQSQ   25 (110)
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            34444556777888654

3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=80.13  E-value=31  Score=36.19  Aligned_cols=17  Identities=12%  Similarity=0.374  Sum_probs=12.9

Q ss_pred             hHHHHHHHHHHHHHHhc
Q 020328           58 FNDLLAEVSSVQQELSH   74 (327)
Q Consensus        58 ~~dL~aQV~~LaqElr~   74 (327)
                      |.++..+|..|+++|.+
T Consensus       251 ~~~i~~~i~~l~~~i~~  267 (569)
T PRK04778        251 HLDIEKEIQDLKEQIDE  267 (569)
T ss_pred             CCChHHHHHHHHHHHHH
Confidence            33478888888888887

>PRK09039 hypothetical protein; Validated

Probab=80.11  E-value=21  Score=35.33  Aligned_cols=87  Identities=9%  Similarity=0.218  Sum_probs=49.3

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhh-------hhhHHHHHHHHHHHHHHHHHHhhh
Q 020328          137 LEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKL-------IGDEFQSVRDIVQTLESKLIEIEG  209 (327)
Q Consensus       137 LeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~-------ig~Dv~~v~~~V~~Le~Ki~~ie~  209 (327)
                      |+..++....+..++..|+..+.++|++.+..+....-+|..++..++.       +...++.....-.....||+.++.
T Consensus       100 Le~~~~~~~~~~~~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~  179 (343)
T PRK09039        100 LQALLAELAGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGR  179 (343)
T ss_pred             HHHHHhhhhhhcchHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333334444455778888888888888888877666555555544444       444444444444445555555555


Q ss_pred             hhhhHhHH-HHHHHH
Q 020328          210 KQDITTLG-VKKLCD  223 (327)
Q Consensus       210 kQd~Tn~G-V~~LC~  223 (327)
                      .=+.+... +..|-+
T Consensus       180 ~L~~a~~~~~~~l~~  194 (343)
T PRK09039        180 RLNVALAQRVQELNR  194 (343)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            54444433 444443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	327
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-07

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 49.5 bits (117), Expect = 9e-07
 Identities = 39/263 (14%), Positives = 79/263 (30%), Gaps = 62/263 (23%)

Query: 9   TFLVGAGIL-TSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSS 67
            F +   IL T+      R   V+D +         L         D      LL +   
Sbjct: 261 AFNLSCKILLTT------RFKQVTDFLSAATTTHISLDHHSMTLTPDEVK--SLLLKYLD 312

Query: 68  VQ-QELSHVPRSVIIETSSGSGTGAKKYGVIVVIVA-VGYGYVWWKGWKLPDMMFATRRS 125
            + Q+L   PR    E  + +         + +I   +  G   W  WK  +        
Sbjct: 313 CRPQDL---PR----EVLTTNPR------RLSIIAESIRDGLATWDNWKHVN-------- 351

Query: 126 LSDACNSVARQLEDVYSSISAA-QRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSK 184
               C+ +   +E   + +  A  R++  +++      +    I       ++++     
Sbjct: 352 ----CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH----IPTIL---LSLIWF--- 397

Query: 185 LIGDEFQSVRDIVQTLESK-LIEIEGKQDITT-----LGVKKLCDRARELENGRPTELVQ 238
                   V  +V  L    L+E + K+   +     L +K   +    L       +V 
Sbjct: 398 --DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR----SIVD 451

Query: 239 ASRYTLSRTTLELPGITPSSRSG 261
              Y + + T +   + P     
Sbjct: 452 --HYNIPK-TFDSDDLIPPYLDQ 471

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	327
2ba2_A	85	D12_ORF131, hypothetical UPF0134 protein MPN010; D	93.72
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	92.98
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	89.73
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	88.05
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.86
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	87.67
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	87.55
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	86.82
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	86.66
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	85.51
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	85.49
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	84.57
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	84.38
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	83.59
2akf_A	32	Coronin-1A; coiled coil, protein binding; 1.20A {S	82.66
4dnd_A	130	Syntaxin-10, SYN10; structural genomics, protein s	82.63
2qyw_A	102	Vesicle transport through interaction with T-SNAR	82.63
3onj_A	97	T-snare VTI1; helix, HABC, protein transport; 1.92	82.24
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	80.59
2yo3_A	268	General control protein GCN4, putative inner MEMB	80.47
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	80.31

>2ba2_A D12_ORF131, hypothetical UPF0134 protein MPN010; DUF16, hypothetical protein, coiled-coil, stutter, structural genomics, PSI; 1.80A {Mycoplasma pneumoniae} SCOP: h.1.30.1

Probab=93.72  E-value=0.12  Score=41.36  Aligned_cols=77  Identities=17%  Similarity=0.235  Sum_probs=50.1

Q ss_pred             hhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHH
Q 020328          120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQT  199 (327)
Q Consensus       120 fVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~  199 (327)
                      |||+|-+..-..+.            ++|..|.+|+..+...+.-|-|-+..=-+++.+++..-..-|.-++.|-....+
T Consensus         8 YVT~Kqf~e~l~~F------------k~~~~~~~~~~kie~~~~~QgEqI~~qGeqIkeLq~eqkaQg~tl~lil~tL~~   75 (85)
T 2ba2_A            8 YVTHKQLDEKLKNF------------VTKTEFKEFQTVVMESFAVQNQNIDAQGEQIKELQVEQKAQGKTLQLILEALQG   75 (85)
T ss_dssp             BCBHHHHHHHHTTB------------CBHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ceeHHHHHHHHHhh------------ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            89998877642221            345555556555655555555555544455666655556667777888888888


Q ss_pred             HHHHHHHhh
Q 020328          200 LESKLIEIE  208 (327)
Q Consensus       200 Le~Ki~~ie  208 (327)
                      +..+||.||
T Consensus        76 ~nkRLDkle   84 (85)
T 2ba2_A           76 INKRLDNLE   84 (85)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHhhccC
Confidence            888888886

>2no2_A HIP-I, huntingtin-interacting protein 1; clathrin light chain binding, HIP1 coiled-coil domain, endocytosis, clathrin SELF-assembly, cell adhesion; 2.80A {Homo sapiens}

Probab=92.98  E-value=1.1  Score=36.65  Aligned_cols=80  Identities=10%  Similarity=0.282  Sum_probs=63.6

Q ss_pred             HHHHhhh---HHHHHHHHHHHHHHHHhhhhhh----hhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHH
Q 020328          131 NSVARQL---EDVYSSISAAQRQLSSKITSVD----RDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESK  203 (327)
Q Consensus       131 ~svtKqL---eqVs~sLaaaKrHLsqRId~vD----~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~K  203 (327)
                      +.++|||   .|..+.+..+|+.|..+|+.+.    .|++++.+....++.|+..-..+|..+..+++....-=..|..+
T Consensus        11 aE~~KqL~~~~q~~~e~e~~k~eL~~~~~~~~~~~~~k~~eq~~~le~lk~eL~~~~~el~~lq~~l~~~~~~~~~l~~~   90 (107)
T 2no2_A           11 AEVTKQVSMARQAQVDLEREKKELEDSLERISDQGQRKTQEQLEVLESLKQELATSQRELQVLQGSLETSAQSEANWAAE   90 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4566776   4677889999999999999965    67788888888888888888888888888888888777777777


Q ss_pred             HHHhhhh
Q 020328          204 LIEIEGK  210 (327)
Q Consensus       204 i~~ie~k  210 (327)
                      ++.++.-
T Consensus        91 ~~~l~~E   97 (107)
T 2no2_A           91 FAELEKE   97 (107)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766543

>1m1j_B Fibrinogen beta chain; coiled coils, disulfide rings, fibrinogen, blood clotting; HET: NDG NAG; 2.70A {Gallus gallus} SCOP: d.171.1.1 h.1.8.1 PDB: 1ei3_B*

Probab=89.73  E-value=2.3  Score=42.71  Aligned_cols=97  Identities=10%  Similarity=0.199  Sum_probs=64.2

Q ss_pred             CCchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHH---HHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchh-----hh
Q 020328          115 LPDMMFATRRSLSDACNSVARQLEDVYSSISAAQ---RQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSK-----LI  186 (327)
Q Consensus       115 ~SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaK---rHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls-----~i  186 (327)
                      +.|+|=-..++....+..|-..|++++..-..++   ++|+..+...+.++.++.+..+.-.+++.+.+.-++     ++
T Consensus        87 l~D~L~k~q~~V~~~LqeLe~~l~~lsn~Ts~~~~~i~~Iq~slk~~Q~Qi~en~n~~~~~~~~~e~~~~~i~~~~~~~~  166 (464)
T 1m1j_B           87 LQTTLLKQEKTVKPVLRDLKDRVAKFSDTSTTMYQYVNMIDNKLVKTQKQRKDNDIILSEYNTEMELHYNYIKDNLDNNI  166 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHhhhhhHhHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3788888899999999999999999987777665   346666666666666655555555555544443332     23


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhhh
Q 020328          187 GDEFQSVRDIVQTLESKLIEIEGKQ  211 (327)
Q Consensus       187 g~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (327)
                      ...+..++..+..|..||..+|.+-
T Consensus       167 ~~~i~~L~~~~~~l~~ki~~l~~~~  191 (464)
T 1m1j_B          167 PSSLRVLRAVIDSLHKKIQKLENAI  191 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566666666667766666553

>3mq9_A Bone marrow stromal antigen 2 fused to maltose-BI periplasmic protein; HIV, antiviral protein; 2.80A {Escherichia coli}

Probab=88.05  E-value=6  Score=37.67  Aligned_cols=78  Identities=13%  Similarity=0.121  Sum_probs=57.9

Q ss_pred             hHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHH
Q 020328          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESK  203 (327)
Q Consensus       125 nmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~K  203 (327)
                      -|.+++..+-..=..+.++|..+.+.+.+-|++.-.. .|+......++.++++++.++.++.-.-..-++.|-+|-..
T Consensus       356 ~~~~~~~~vl~G~~t~eeal~~~~~~i~~~l~~~~~~-~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  433 (471)
T 3mq9_A          356 AVRTAVINAASGRQTVDEALKDAQTRITAARDGLRAV-MEARNVTHLLQQELTEAQKGFQDVEAQAATANHTVMALMAS  433 (471)
T ss_dssp             HHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhhHHH-HHhhhHHHHHHHHHHHHhhhHHHHHHHhhhcchhHHHHHHH
Confidence            4555555554443456788888888888888887444 47788899999999999999999988888888777666443

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=87.86  E-value=3.1  Score=39.81  Aligned_cols=66  Identities=9%  Similarity=-0.056  Sum_probs=53.3

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHH
Q 020328          158 VDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCD  223 (327)
Q Consensus       158 vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~  223 (327)
                      +....+++.++.++.+.|-..++.|.+.++.+++.+++--..++..+.++...=.-+++-...+|.
T Consensus       412 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  477 (487)
T 3oja_A          412 LRAIVKRYEEMYVEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANATLQELVV  477 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHHHH
Confidence            445666677788888888888889999999999999888888888888887777777777777775

>3g67_A Methyl-accepting chemotaxis protein; four-helix bundle, signaling protein; 2.17A {Thermotoga maritima} PDB: 3g6b_A 3ur1_C

Probab=87.67  E-value=4.8  Score=36.12  Aligned_cols=39  Identities=15%  Similarity=0.277  Sum_probs=17.8

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHH
Q 020328          126 LSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNK  164 (327)
Q Consensus       126 msnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDe  164 (327)
                      ++.|+..+...+..+.+.+..+-+++..-++.+....++
T Consensus         5 va~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~~~~~   43 (213)
T 3g67_A            5 VKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEKISEN   43 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344455555555555544444444444444444333333

>3g67_A Methyl-accepting chemotaxis protein; four-helix bundle, signaling protein; 2.17A {Thermotoga maritima} PDB: 3g6b_A 3ur1_C

Probab=87.55  E-value=7.6  Score=34.79  Aligned_cols=61  Identities=11%  Similarity=0.129  Sum_probs=27.2

Q ss_pred             HHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHH
Q 020328          133 VARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSV  193 (327)
Q Consensus       133 vtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v  193 (327)
                      +...++++++.+...-.++....+.+....+++.++++.+.+++......+..+...+..+
T Consensus         5 va~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   65 (213)
T 3g67_A            5 VKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEKISENIMEELKKSGTNVDQIVERVKEA   65 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444444444444444444444444444444444444333333333

>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=86.82  E-value=1.5  Score=36.20  Aligned_cols=40  Identities=15%  Similarity=0.281  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHhh
Q 020328          169 SQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIE  208 (327)
Q Consensus       169 s~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie  208 (327)
                      ...++.|+++++..+.....++++++.....||..|...|
T Consensus        31 l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e   70 (129)
T 3tnu_B           31 LRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAE   70 (129)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444433

>3ghg_A Fibrinogen alpha chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 3h32_A* 2a45_G*

Probab=85.51  E-value=7.9  Score=39.80  Aligned_cols=96  Identities=8%  Similarity=0.114  Sum_probs=63.3

Q ss_pred             CchhhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHH-------HHHHHHHHHHHHhhcchhhhhh
Q 020328          116 PDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIV-------EISQATQEEVTILRGRSKLIGD  188 (327)
Q Consensus       116 SDlMfVTKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~-------eis~~ik~eV~~v~~dls~ig~  188 (327)
                      -++|-=+-|++.+-++.|-.+|++++.+=..+-....+-.+.+-.++.+..       |++...+..+..++..|.+--.
T Consensus        52 QglLdkqErDltkrINELKnqLEdlsKnsKdseqy~k~~~E~Lr~rq~q~~dNdNtynE~S~ELRRrIqyLKekVdnQls  131 (562)
T 3ghg_A           52 KGLIDEVNQDFTNRINKLKNSLFEYQKNNKDSHSLTTNIMEILRGDFSSANNRDNTYNRVSEDLRSRIEVLKRKVIEKVQ  131 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHhhcCcHHHHHHHHHHHHHHHHhhchhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356777889999999999999999987766666666555555555554444       4444444444455555444445


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhh
Q 020328          189 EFQSVRDIVQTLESKLIEIEGKQ  211 (327)
Q Consensus       189 Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (327)
                      -++.||..|+.+-.||.++|---
T Consensus       132 nIrvLQsnLedq~~kIQRLEvDI  154 (562)
T 3ghg_A          132 HIQLLQKNVRAQLVDMKRLEVDI  154 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            55566677777777777777553

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=85.49  E-value=1.5  Score=36.34  Aligned_cols=64  Identities=6%  Similarity=0.286  Sum_probs=26.9

Q ss_pred             HHHHHHHHHH---HHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020328          141 YSSISAAQRQ---LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (327)
Q Consensus       141 s~sLaaaKrH---LsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (327)
                      .+.+..+|.+   |..+|++|...++.+...-....+.+.++..   +...+++.++..+..||.-|..+
T Consensus        30 ~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~---~~~~~l~~~q~~i~~lE~eL~~~   96 (131)
T 3tnu_A           30 SELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKG---RYCMQLAQIQEMIGSVEEQLAQL   96 (131)
T ss_dssp             -----------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444445432   3345555655555555544444444444443   23334555555555555555443

>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix, structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*

Probab=84.57  E-value=6.9  Score=29.16  Aligned_cols=70  Identities=19%  Similarity=0.254  Sum_probs=47.4

Q ss_pred             hHHHHHHHHHhhhHHHHH-HHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHH
Q 020328          125 SLSDACNSVARQLEDVYS-SISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR  194 (327)
Q Consensus       125 nmsnAv~svtKqLeqVs~-sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~  194 (327)
                      .|+.+.+.|=.|-|.+-. .-+.+..-...+++.+........+-...+++|+++++..+....-|+++++
T Consensus         6 DL~~il~eiRaQYE~ia~knr~EaE~~y~~k~eel~~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~slk   76 (77)
T 3trt_A            6 DCTAAMRDVRQQYESVAAKNLQEAEEWYKSKFADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVDALK   76 (77)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            466777777777665433 3445666677778777777777777777777777777777666666666553

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

Probab=84.38  E-value=4.9  Score=36.22  Aligned_cols=57  Identities=4%  Similarity=0.114  Sum_probs=26.2

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHhh--cchhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020328          155 ITSVDRDVNKIVEISQATQEEVTILR--GRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (327)
Q Consensus       155 Id~vD~kLDeq~eis~~ik~eV~~v~--~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (327)
                      |.+++..+++..+-.+..++....++  .++..+..+++....-...||.+|-++...-
T Consensus        62 ~~~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~~~i~~lE~eile~~e~i  120 (256)
T 3na7_A           62 VSKNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEI  120 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33334444444444444443333332  2344455555555555555555555554443

>3okq_A BUD site selection protein 6; coiled-coil, protein binding; 2.04A {Saccharomyces cerevisiae} PDB: 3onx_A

Probab=83.59  E-value=14  Score=31.93  Aligned_cols=77  Identities=13%  Similarity=0.223  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHH------------HhhcchhhhhhHHHHHHHHHH--------HHHH
Q 020328          143 SISAAQRQLSSKITSVDRDVNKIVEISQATQEEVT------------ILRGRSKLIGDEFQSVRDIVQ--------TLES  202 (327)
Q Consensus       143 sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~------------~v~~dls~ig~Dv~~v~~~V~--------~Le~  202 (327)
                      -+.+-|++|..+.|+|=.++|+.+.+.+..|++|.            .+..|+.....|++.+...+.        .+|.
T Consensus        11 y~~~~k~kL~~~sd~LvtkVDDLQD~VE~LRkDV~~RgvrP~~~ql~~v~kdi~~a~~eL~~m~~~i~~ekP~WKKiWE~   90 (141)
T 3okq_A           11 YMEKSQTELGDLSDTLLSKVDDLQDVIEIMRKDVAERRSQPAKKKLETVSKDLENAQADVLKLQEFIDTEKPHWKKTWEA   90 (141)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHHH
Confidence            35677888888888888888888888888888764            344555555555555555543        4677


Q ss_pred             HHHHhhhhhhhHhHHHH
Q 020328          203 KLIEIEGKQDITTLGVK  219 (327)
Q Consensus       203 Ki~~ie~kQd~Tn~GV~  219 (327)
                      -|..|..-|+|=|.==.
T Consensus        91 EL~~VceEQqfl~~Qed  107 (141)
T 3okq_A           91 ELDKVCEEQQFLTLQEE  107 (141)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77777777777665433

>2akf_A Coronin-1A; coiled coil, protein binding; 1.20A {Synthetic}

Probab=82.66  E-value=1.3  Score=29.44  Aligned_cols=29  Identities=21%  Similarity=0.371  Sum_probs=25.4

Q ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020328          183 SKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (327)
Q Consensus       183 ls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (327)
                      ++++.+|+.+++.+|+.|..+++++|..-
T Consensus         1 isrlee~~r~l~~ivq~lq~r~drle~tv   29 (32)
T 2akf_A            1 VSRLEEDVRNLNAIVQKLQERLDRLEETV   29 (32)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            36778899999999999999999999764

>4dnd_A Syntaxin-10, SYN10; structural genomics, protein structure initiative, nysgrc, P biology, NEW YORK structural genomics research consortium; HET: MSE; 1.40A {Homo sapiens} PDB: 1lvf_A

Probab=82.63  E-value=3.1  Score=34.91  Aligned_cols=59  Identities=19%  Similarity=0.279  Sum_probs=33.0

Q ss_pred             hhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhh-hHHHHHHHHHHHHHHHHHhhcc
Q 020328          122 TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDR-DVNKIVEISQATQEEVTILRGR  182 (327)
Q Consensus       122 TKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~-kLDeq~eis~~ik~eV~~v~~d  182 (327)
                      |++-|.++|.++..+|+.+.+++..+.++=. |- +++. .+..=+.....++++|..++..
T Consensus        68 ~~~EL~~~l~sie~dLeDLe~sI~ivE~np~-kF-~l~~~Ei~~Rr~fV~~~r~~I~~mk~~  127 (130)
T 4dnd_A           68 TTNELRNGLRSIEWDLEDLEETIGIVEANPG-KF-KLPAGDLQERKVFVERMREAVQEMKDH  127 (130)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCHH-HH-CCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhCHH-hc-CCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667777777777777777777777665432 22 2222 2444444555555555444443

>2qyw_A Vesicle transport through interaction with T-SNAR homolog; HABC domain, protein transport, endocytosis; 2.00A {Mus musculus} PDB: 2v8s_V

Probab=82.63  E-value=2.4  Score=33.90  Aligned_cols=60  Identities=8%  Similarity=0.090  Sum_probs=40.4

Q ss_pred             hhhhhhhhHHHHHHHHHhhhHHHHHHHH-HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhh
Q 020328          118 MMFATRRSLSDACNSVARQLEDVYSSIS-AAQRQLSSKITSVDRDVNKIVEISQATQEEVTILR  180 (327)
Q Consensus       118 lMfVTKRnmsnAv~svtKqLeqVs~sLa-aaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~  180 (327)
                      ++----+.+...++++.+.++++..... ..|+.   .|..++..|||..|+.+++.-||..+-
T Consensus        16 lFe~YE~df~~l~~~i~~kl~~i~~~~~~e~rk~---~i~~ie~~ldEA~eLl~qMelE~r~~p   76 (102)
T 2qyw_A           16 HFEKLHEIFRGLLEDLQGVPERLLGTAGTEEKKK---LVRDFDEKQQEANETLAEMEEELRYAP   76 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTCCCSHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            3333345566777777777777643322 34443   377788889999999999988887653

>3onj_A T-snare VTI1; helix, HABC, protein transport; 1.92A {Saccharomyces cerevisiae} PDB: 3onl_C

Probab=82.24  E-value=3.8  Score=32.40  Aligned_cols=53  Identities=9%  Similarity=0.173  Sum_probs=39.7

Q ss_pred             hhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHh
Q 020328          124 RSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (327)
Q Consensus       124 RnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v  179 (327)
                      ..+...++++...|+++...=...|+.   -|..++..+||..|+..++.-||..+
T Consensus         8 ~df~~~~~~i~~~l~~~~~~~ge~Rk~---~i~~ie~~ldEA~ell~qMelE~~~~   60 (97)
T 3onj_A            8 SDFKTTLEQAKASLAEAPSQPLSQRNT---TLKHVEQQQDELFDLLDQMDVEVNNS   60 (97)
T ss_dssp             HHHHHHHHHHHHHHHHGGGSCHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccChHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            345677888888888776333334443   47778889999999999999999888

>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=80.59  E-value=12  Score=36.34  Aligned_cols=37  Identities=3%  Similarity=0.083  Sum_probs=30.3

Q ss_pred             hhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhhh
Q 020328          123 RRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVD  159 (327)
Q Consensus       123 KRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~vD  159 (327)
                      ...+.+.+..+...+++....++..++++..|++...
T Consensus       458 ~~~~~~~i~~l~~~~~~~~~~l~~~~~~i~~~~~~~~  494 (597)
T 3oja_B          458 VNELRAEVQQLTNEQIQQEQLLQGLHAEIDTNLRRYR  494 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcC
Confidence            3446678888888888999999999999988887766

>2yo3_A General control protein GCN4, putative inner MEMB protein, general control protein...; HANS motif, YADA-like head, ylhead; 2.00A {Saccharomyces cerevisiae}

Probab=80.47  E-value=2.9  Score=39.50  Aligned_cols=58  Identities=9%  Similarity=0.213  Sum_probs=37.7

Q ss_pred             hHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHH
Q 020328          137 LEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR  194 (327)
Q Consensus       137 LeqVs~sLaaaKrHLsqRId~vD~kLDeq~eis~~ik~eV~~v~~dls~ig~Dv~~v~  194 (327)
                      ..|++++++.++....+|+..|+.+++....=..++.+.|.++-..+-.|..+++.|+
T Consensus       200 v~QL~~s~~~an~yTd~k~~~l~n~I~~V~n~~~q~~~~~~~~~~~~~~~~~~~~~~~  257 (268)
T 2yo3_A          200 YAQLKRSVEEANTYTDQKMGEMNSKIKGVENKMKQIEDKIEEILSKIYHIENEIARIK  257 (268)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5677788999999888888887777766655555555555555444444444444443

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

Probab=80.31  E-value=23  Score=29.14  Aligned_cols=34  Identities=15%  Similarity=0.207  Sum_probs=13.6

Q ss_pred             HHHHHhhcchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020328          174 EEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (327)
Q Consensus       174 ~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (327)
                      .++..+...+..+..++..+..-+..++..+..+
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (284)
T 1c1g_A           69 EKLELAEKKATDAEADVASLNRRIQLFEEELDRA  102 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333344444444444444444444443333

---

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	327
d1lvfa_	106	Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicu	88.76

>d1lvfa_ a.47.2.1 (A:) Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: STAT-like
superfamily: t-snare proteins
family: t-snare proteins
domain: Syntaxin 6, SNAP-25 homolog
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=88.76  E-value=0.4  Score=36.68  Aligned_cols=60  Identities=18%  Similarity=0.260  Sum_probs=44.0

Q ss_pred             hhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhhhh-hhhHHHHHHHHHHHHHHHHHhhcch
Q 020328          122 TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSV-DRDVNKIVEISQATQEEVTILRGRS  183 (327)
Q Consensus       122 TKRnmsnAv~svtKqLeqVs~sLaaaKrHLsqRId~v-D~kLDeq~eis~~ik~eV~~v~~dl  183 (327)
                      +++-|.++|.++-.+|+.+..++..+.++ -.|- ++ +..++.=+..++.++++|..++..+
T Consensus        43 ~~~eL~~~l~siewdL~dLe~av~~ve~n-p~kf-~l~~~ei~~Rr~fi~~~~~~I~~~~~~l  103 (106)
T d1lvfa_          43 TTNELRNNLRSIEWDLEDLDETISIVEAN-PRKF-NLDATELSIRKAFITSTRQIVRDMKDQM  103 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSS-GGGG-TCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHhC-HHhc-CCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57889999999999999999999998876 3333 23 3345666666777777776666554