Citrus Sinensis ID: 020255

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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-------33
Protein Sequence
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRQSGSLHPLPLEPPSPSXXXXXXXIPMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Secondary Structure (PSIPRED)
cccccccEEEEEcccccHHEEcccccccHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHccccccEEEEccccccccccHHHHHEEEEEEEEEEEEEcccccccHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEEEccHHHHHHEcccccccHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEccccccccEEEEEEEEHHHHHEEEEcccccccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHcccccccccccccccccccccccccccccccccccccccccHHHcccccHHHHcccEEcccccccccHHHcccccHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MALTFGKLTFLVGAGILTSVLakegrlssvsdavgGTLKIVSKLikqddpgpsdrKLFNDLLAEVSSVQQELshvprsviietssgsgtgakkYGVIVVIVAVGYGYVwwkgwklpdmmfATRRSLSDACNSVARQLEDVYSSISAAQRQLSSkitsvdrdvNKIVEISQATQEEVTILRGrskligdefQSVRDIVQTLESKLIEIegkqdittLGVKKLCDRArelengrptelvqasrytlsrttlelpgitpssrqsgslhplpleppspsxxxxxxxipmdlirltgrivsrplASRSSMELQNWGSHQGVLRFLMVLQLQKT
Flexible Loop (DISEMBL)
maltfgkltflVGAGILTSVLAKegrlssvsdavggTLKIVSklikqddpgpSDRKLFNDLLAEVSSVqqelshvprsviietssgsgtgakkyGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQrqlsskitsvdrdvNKIVeisqatqeevtilrgrskligdefqSVRDIVQTLESKlieiegkqdittlgVKKLCDRarelengrptelvqasrytlsRTTLELPGITPSSRQSGSLHPLPLEPPSPSXXXXXXXIPMDLIRLTGRIVSRPlasrssmelqnWGSHQGVLRFLMVLQLQKT
Low Complexity Region (SEG)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTgakkygvivvivavgygyvWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRQSGslhplpleppspsxxxxxxxipMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Disordered region (IsUnstruct)
**LTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLI***************LL***************SVIIE******TGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSI*************VDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRA********************************************************XIPMDLIRLTGRIVSRP********LQNWGSHQGVLRFLMVLQ****
Disordered Region (DISOPRED)
***TFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGG***************************EVSSVQQE********************KKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSL**************YSSISAAQRQLSSKITSVDRDVNKIV*************RGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRA*********************************************************I***************************GSHQGVLRFLMVLQLQ**
Disordered Region (DISEMBL)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGI***********PLPLEPPSPSXXXXXXXIPMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Disordered Region (DISPRO)
**LTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIK********RKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRAREL*****************************************************XIPMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRQSGSLHPLPLEPPSPSXXXXXXXIPMDLIRLTGRIVSRPLASRSSMELQNWGSHQGVLRFLMVLQLQKT
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	328
297738479	361	unnamed protein product [Vitis vinifera]	0.810	0.736	0.576	8e-66
225425366	360	PREDICTED: uncharacterized protein LOC10	0.789	0.719	0.576	8e-64
326417169	360	B-zip transcription factor [Vitis pseudo	0.789	0.719	0.576	8e-64
289466339	360	B-zip transcription factor [Vitis pseudo	0.789	0.719	0.576	2e-63
449445554	366	PREDICTED: uncharacterized protein LOC10	0.823	0.737	0.522	8e-61
397746441	362	bZIP9 [Tamarix hispida]	0.829	0.751	0.508	2e-60
224072554	363	predicted protein [Populus trichocarpa]	0.728	0.658	0.572	6e-58
255578294	368	DNA binding protein, putative [Ricinus c	0.731	0.652	0.533	1e-57
407970990	349	bZIP transcription factor bZIP56 precurs	0.871	0.819	0.470	4e-56
255580725	290	DNA binding protein, putative [Ricinus c	0.643	0.727	0.558	1e-54

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

 Score =  256 bits (655), Expect = 8e-66,   Method: Compositional matrix adjust.
 Identities = 154/267 (57%), Positives = 189/267 (70%), Gaps = 1/267 (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 SRYTLSRTTLELPGITPSSRQSGSLHP 266
           S  +  R  LEL   TP  RQ+ SL P
Sbjct: 241 SPSSSFRPALELRQTTPPLRQTESLPP 267

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225425366|ref|XP_002270179.1| PREDICTED: uncharacterized protein LOC100248973 [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|326417169|gb|ADZ73426.1| B-zip transcription factor [Vitis pseudoreticulata]

 Score =  249 bits (637), 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 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 =  248 bits (633), Expect = 2e-63,   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   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 SRYTLSRTTLELPGITPSSR 259
           S  +  R  LEL   TP  R
Sbjct: 241 SPSSSFRPALELRQTTPPLR 260

Source: Vitis pseudoreticulata

Species: Vitis pseudoreticulata

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  240 bits (612), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 142/272 (52%), Positives = 185/272 (68%), Gaps = 2/272 (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 SRYTLSRTTLELPGITPSSRQSGSLHPLPLEP 271
                SR  LELP  TPS +      P+   P
Sbjct: 241 IPSGPSRQVLELP-PTPSPKLQNRSLPIGFSP 271

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  239 bits (609), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 143/281 (50%), Positives = 188/281 (66%), Gaps = 9/281 (3%)

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 QASRYTLSRTTLELPGITPSSRQSGSLHP---LPLEPPSPS 275
           Q S  + SR  LE P +T SSR   SL P   + LEPPSPS
Sbjct: 239 QGSSTSASRPALEHPQMTTSSRAV-SLPPCNRISLEPPSPS 278

Source: Tamarix hispida

Species: Tamarix hispida

Genus: Tamarix

Family: Tamaricaceae

Order: Caryophyllales

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 (585), 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 =  224 bits (571), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 137/291 (47%), Positives = 189/291 (64%), Gaps = 5/291 (1%)

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--QSGSLHPLPLEPPSPSXXXXXXXIPMDL 287
           AS  + SR  LELP ++PSSR  QSGS   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|255580725|ref|XP_002531184.1| DNA binding protein, putative [Ricinus communis] gi|223529225|gb|EEF31199.1| DNA binding protein, putative [Ricinus communis]

 Score =  219 bits (558), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 120/215 (55%), Positives = 152/215 (70%), Gaps = 4/215 (1%)

Query: 1   MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLI-KQDDPGPSDRKLFN 59
           M+L  GKLT LVGAGIL SVLAKEGRLSSV D V G  KI  K I ++D    S+ K  N
Sbjct: 1   MSLPLGKLTILVGAGILGSVLAKEGRLSSVPDFVSGAFKIAFKQISREDSTSSSNGKPIN 60

Query: 60  -DLLAEVSSVQQELSHVP--RSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLP 116
             L+A+V+S++QEL  +   R V I T+SG+G GA KYG IV+IV VGYGYVWWKGWKLP
Sbjct: 61  ASLMAQVNSLRQELQLLASNRPVTIVTASGTGAGAGKYGTIVLIVVVGYGYVWWKGWKLP 120

Query: 117 DMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEV 176
           DMMFATRRSLSDAC S+A+QLE+VY+SI + +R+LSS I  +D  +N++  ++  T+E+V
Sbjct: 121 DMMFATRRSLSDACTSIAQQLENVYASIRSTKRELSSNIEHLDSTLNEVAALTSNTREKV 180

Query: 177 TILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ 211
           T L   S     + ++VR  VQTL  K+  IE KQ
Sbjct: 181 TELLEDSSRFDQDVRNVRQTVQTLGMKISRIEEKQ 215

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	328
TAIR|locus:1005716745	344	AT1G24267 "AT1G24267" [Arabido	0.777	0.741	0.452	2.7e-45
TAIR|locus:2010602	334	AT1G04960 "AT1G04960" [Arabido	0.673	0.661	0.254	3.5e-20
TAIR|locus:2205734	304	AT1G27000 "AT1G27000" [Arabido	0.631	0.680	0.240	2.5e-17
TAIR|locus:2058832	276	AT2G02730 "AT2G02730" [Arabido	0.713	0.847	0.225	2.9e-15

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

 Score = 476 (172.6 bits), Expect = 2.7e-45, P = 2.7e-45
 Identities = 119/263 (45%), Positives = 158/263 (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 VQASRYTLSRTTLELPGITPSSR 259
              +A   T +   LE   +TPSSR
Sbjct:   237 NKALPSTSAVPALEAAPMTPSSR 259

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 = 2.9e-15, P = 2.9e-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      328       287   0.00087  115 3  11 22  0.40    34
                                                     33  0.43    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:  162 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:  22.12u 0.29s 22.41t   Elapsed:  00:00:01
  Total cpu time:  22.13u 0.29s 22.42t   Elapsed:  00:00:01
  Start:  Sat May 11 09:59:35 2013   End:  Sat May 11 09:59:36 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

Your Input: GSVIVG00002774001 SubName- Full=Chromosome chr1 scaffold_136, whole genome shotgun sequence; (282 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	328
pfam07889	125	pfam07889, DUF1664, Protein of unknown function (D	5e-47

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

 Score =  154 bits (392), Expect = 5e-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	328
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	100.0
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	96.96
PRK10884	206	SH3 domain-containing protein; Provisional	95.95
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	95.85
KOG2629	300	consensus Peroxisomal membrane anchor protein (per	95.28
PF01519	102	DUF16: Protein of unknown function DUF16; InterPro	94.57
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	93.43
PF00038	312	Filament: Intermediate filament protein; InterPro:	93.42
PHA02562	562	46 endonuclease subunit; Provisional	93.07
PRK11637	428	AmiB activator; Provisional	93.03
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	92.54
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	92.22
PF10158	131	LOH1CR12: Tumour suppressor protein; InterPro: IPR	91.54
PRK11637	428	AmiB activator; Provisional	91.54
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	91.34
PRK10920	390	putative uroporphyrinogen III C-methyltransferase;	91.31
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	90.8
PRK15048	553	methyl-accepting chemotaxis protein II; Provisiona	90.72
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	90.6
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	90.16
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	89.58
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	89.56
PF06419	618	COG6: Conserved oligomeric complex COG6; InterPro:	89.46
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	88.74
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	88.29
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	88.16
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	87.93
PF10046	99	BLOC1_2: Biogenesis of lysosome-related organelles	86.94
PRK06975	656	bifunctional uroporphyrinogen-III synthetase/uropo	86.66
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	86.41
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	86.4
PF05816	333	TelA: Toxic anion resistance protein (TelA); Inter	86.28
PF05478	806	Prominin: Prominin; InterPro: IPR008795 The promin	85.94
PRK04778	569	septation ring formation regulator EzrA; Provision	85.57
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	85.45
PHA02562	562	46 endonuclease subunit; Provisional	85.3
PF04513	140	Baculo_PEP_C: Baculovirus polyhedron envelope prot	85.01
TIGR02132	189	phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR	84.67
PF05531	75	NPV_P10: Nucleopolyhedrovirus P10 protein; InterPr	83.79
PF10241	88	KxDL: Uncharacterized conserved protein; InterPro:	83.44
PRK10884	206	SH3 domain-containing protein; Provisional	83.32
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	83.28
COG4942	420	Membrane-bound metallopeptidase [Cell division and	83.1
PF04100	383	Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007	82.79
PRK15048	553	methyl-accepting chemotaxis protein II; Provisiona	82.73
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	82.29
smart00283	262	MA Methyl-accepting chemotaxis-like domains (chemo	82.26
PRK04778	569	septation ring formation regulator EzrA; Provision	82.12
PF10186	302	Atg14: UV radiation resistance protein and autopha	82.04
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	82.04
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	81.95
PF04380	79	BMFP: Membrane fusogenic activity; InterPro: IPR00	81.76
PRK09039	343	hypothetical protein; Validated	81.18
PRK13182	175	racA polar chromosome segregation protein; Reviewe	81.1
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	81.05

>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=1e-58  Score=394.33  Aligned_cols=120  Identities=48%  Similarity=0.775  Sum_probs=116.5

Q ss_pred             chhHH-HHHHhhhheeeEEecCCCcCchhhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHH
Q 020255           92 KKYGV-IVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQ  170 (328)
Q Consensus        92 ~~y~l-~a~iGavGYgYmwWKGws~SDlMfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~  170 (328)
                      ..|++ +|++||+|||||||||||||||||||||||+|||++|+|||||||++|++|||||+||||+||+|||+|+|+++
T Consensus         6 ~~~i~paa~~gavGY~Y~wwKGws~sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLsqRId~vd~klDe~~ei~~   85 (126)
T PF07889_consen    6 SSLIVPAAAIGAVGYGYMWWKGWSFSDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKHLSQRIDRVDDKLDEQKEISK   85 (126)
T ss_pred             cchhhHHHHHHHHHheeeeecCCchhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            34555 68999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020255          171 ATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (328)
Q Consensus       171 ~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (328)
                      +|++||+++++|+++|++|+++||++|++||+||++||+||
T Consensus        86 ~i~~eV~~v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie~~Q  126 (126)
T PF07889_consen   86 QIKDEVTEVREDVSQIGDDVDSVQQMVEGLEGKIDEIEEKQ  126 (126)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999998

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=96.96  E-value=0.0018  Score=53.92  Aligned_cols=88  Identities=17%  Similarity=0.329  Sum_probs=45.3

Q ss_pred             hHHHHHHhhhheeeEEecCCCcCchhhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHH-
Q 020255           94 YGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQAT-  172 (328)
Q Consensus        94 y~l~a~iGavGYgYmwWKGws~SDlMfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i-  172 (328)
                      ++++.++.+++|++.||+   ++- =||+|..+..                      |.+|+++.|.++++...-.+.+ 
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            445555667777777774   222 3777655543                      2333334444444443333444 


Q ss_pred             -HHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020255          173 -QEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (328)
Q Consensus       173 -~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (328)
                       +++|..++..++++.+|++.+..-+.+++-.++.+
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             55555555555555555555555555554444433

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=95.95  E-value=0.27  Score=45.66  Aligned_cols=99  Identities=13%  Similarity=0.246  Sum_probs=74.3

Q ss_pred             heeeEEe----cCCCcCchhhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHh
Q 020255          104 GYGYVWW----KGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (328)
Q Consensus       104 GYgYmwW----KGws~SDlMfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v  179 (328)
                      ||+++.-    .|| +.+=+-.+..++..-+..+-++|+.+.+.|+.+...+.+|-..+..++++.......+++|-..+
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 55555566778999999999999999999999999999999999888888776666666665555


Q ss_pred             hhchhhhhhHHHHHHHHHHHHHHHHHHhhhh
Q 020255          180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGK  210 (328)
Q Consensus       180 ~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~k  210 (328)
                      +       .+++..+.-++.|+.+++.+..+
T Consensus       145 ~-------~~l~~~~~~~~~l~~~~~~~~~~  168 (206)
T PRK10884        145 K-------NQLIVAQKKVDAANLQLDDKQRT  168 (206)
T ss_pred             H-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            4       45555666666666776666654

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

Probab=95.85  E-value=0.088  Score=52.03  Aligned_cols=10  Identities=40%  Similarity=0.956  Sum_probs=7.4

Q ss_pred             hhhheeeEEe
Q 020255          101 VAVGYGYVWW  110 (328)
Q Consensus       101 GavGYgYmwW  110 (328)
                      .++|+||.||
T Consensus        41 ~alg~~~~~~   50 (372)
T PF04375_consen   41 LALGAGGWYW   50 (372)
T ss_pred             HHHHHHHHHH
Confidence            6678887767

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=95.28  E-value=0.065  Score=52.54  Aligned_cols=71  Identities=17%  Similarity=0.420  Sum_probs=36.4

Q ss_pred             hhHH-HHHHhhhhee-eEEecCCCcCchhhhhhhh--------HHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhH
Q 020255           93 KYGV-IVVIVAVGYG-YVWWKGWKLPDMMFATRRS--------LSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDV  162 (328)
Q Consensus        93 ~y~l-~a~iGavGYg-YmwWKGws~SDlMfVTKRn--------MsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~kl  162 (328)
                      -|++ +++.+++-|+ |-.||-| +-=+||.-.++        |.+=...+.|-+.++-+.++..++.++..-+.++..|
T Consensus        85 dy~vmAvi~aGi~y~~y~~~K~Y-V~P~~l~~~~~k~e~~k~~Ld~~~~~~~~~~~~l~~~va~v~q~~~~qq~Els~~L  163 (300)
T KOG2629|consen   85 DYFVMAVILAGIAYAAYRFVKSY-VLPRFLGESKDKLEADKRQLDDQFDKAAKSLNALMDEVAQVSQLLATQQSELSRAL  163 (300)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHH-HHHHhhCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5766 4455667774 8889999 44456655444        3333334444444444444444444444333333333


Q ss_pred             HH
Q 020255          163 NK  164 (328)
Q Consensus       163 De  164 (328)
                      ++
T Consensus       164 ~~  165 (300)
T KOG2629|consen  164 AS  165 (300)
T ss_pred             HH
Confidence            33

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

Probab=94.57  E-value=0.24  Score=42.02  Aligned_cols=82  Identities=17%  Similarity=0.264  Sum_probs=46.2

Q ss_pred             hhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHH
Q 020255          119 MFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQ  198 (328)
Q Consensus       119 MfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~  198 (328)
                      =|||++-+...=.+--.-|..+-..+...  ....+|+-|..+.+.|-|-++..+.++.       .-|.-++.|-....
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--AQGEQINKLTEKVDKQGEQIKELQVEQK-------AQGKTLQLILKTLQ   91 (102)
T ss_dssp             TB-BHHHHHHH---HTTB-BHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH
T ss_pred             hhhhHHHHHHHhhccHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHH
Confidence            39999998866544444455554444432  3444555555555555555555555554       44555666777777


Q ss_pred             HHHHHHHHhhh
Q 020255          199 TLESKLIEIEG  209 (328)
Q Consensus       199 ~Le~Ki~~ie~  209 (328)
                      .+..+||+||+
T Consensus        92 ~inkRLD~~E~  102 (102)
T PF01519_consen   92 SINKRLDKMES  102 (102)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHhhccC
Confidence            77788888874

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

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=93.43  E-value=1.3  Score=34.99  Aligned_cols=72  Identities=13%  Similarity=0.237  Sum_probs=57.1

Q ss_pred             hHHHHHHH---HHHHHHHHHHhHhhhhhhHHHHHHHHHHH--HHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhh
Q 020255          136 QLEDVYSS---ISAAQRQLSSKITSVDRDVNKIVEISQAT--QEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIE  208 (328)
Q Consensus       136 qLeqVs~s---LaaaKrhLsqRId~vD~klDeq~eis~~i--~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie  208 (328)
                      .|+++.+.   +.....+|..+|+.+..+|+++.++....  -+.+. -..++.+|..+|.+++..+..|..|+..|+
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            34444444   45567899999999999999999966544  34444 888999999999999999999999998775

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

Probab=93.42  E-value=3.1  Score=39.19  Aligned_cols=91  Identities=24%  Similarity=0.260  Sum_probs=77.7

Q ss_pred             HHHHHHHHHHhHH-HHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHH
Q 020255          126 LSDACNSVARQLE-DVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKL  204 (328)
Q Consensus       126 MsnAvasvtKqLe-qVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki  204 (328)
                      |++|...|-.+.+ .+...-..+......+|+.+........+.....++|+.+++..+.....++++++.....||..|
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            8889998888877 445566688888999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhhhhhhhH
Q 020255          205 IEIEGKQDITTL  216 (328)
Q Consensus       205 ~~ie~kQd~Tn~  216 (328)
                      ..++..-+....
T Consensus       247 ~~le~~~~~~~~  258 (312)
T PF00038_consen  247 RELEQRLDEERE  258 (312)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            988865544433

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 ....

>PHA02562 46 endonuclease subunit; Provisional

Probab=93.07  E-value=1.1  Score=45.28  Aligned_cols=86  Identities=12%  Similarity=0.171  Sum_probs=62.9

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020255          132 SVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (328)
Q Consensus       132 svtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (328)
                      .+..++++....+...++.+...|+.+..++++.....+.++.++..++.++.+++.+++.+...+..++.++..++.+-
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            33334444445555566666677888888888888888888888889999999888888888888888888887777665


Q ss_pred             hhhhHH
Q 020255          212 DITTLG  217 (328)
Q Consensus       212 d~Tn~G  217 (328)
                      +.....
T Consensus       272 ~~~~~~  277 (562)
T PHA02562        272 EQFQKV  277 (562)
T ss_pred             HHHHHH
Confidence            444433

>PRK11637 AmiB activator; Provisional

Probab=93.03  E-value=1.3  Score=44.07  Aligned_cols=80  Identities=11%  Similarity=0.153  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHhHHHHHHHHH---HHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHH
Q 020255          126 LSDACNSVARQLEDVYSSIS---AAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLES  202 (328)
Q Consensus       126 MsnAvasvtKqLeqVs~sLa---aaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~  202 (328)
                      ..+=...+-+++++....+.   ..++++.+.|+.++.++++..+-...++.++..+..+++....++...+.-+..++.
T Consensus        45 ~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~  124 (428)
T PRK11637         45 NRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQER  124 (428)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444455555544444   334445566666666666666666666666666666666666666666655555554


Q ss_pred             HHH
Q 020255          203 KLI  205 (328)
Q Consensus       203 Ki~  205 (328)
                      .+.
T Consensus       125 ~l~  127 (428)
T PRK11637        125 LLA  127 (428)
T ss_pred             HHH
Confidence            443

>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=92.54  E-value=3  Score=38.80  Aligned_cols=78  Identities=17%  Similarity=0.219  Sum_probs=57.0

Q ss_pred             HhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhhh
Q 020255          135 RQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQD  212 (328)
Q Consensus       135 KqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd  212 (328)
                      +++.++......+..+..+||+..++.-++..+-.++.++|+..++.-.++...-+++.+.-+..|+.+++.++..+.
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            344455555666677788888888888888888888888888777777777777777777777777777777775543

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.

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

Probab=92.22  E-value=0.18  Score=50.06  Aligned_cols=87  Identities=17%  Similarity=0.248  Sum_probs=31.9

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHH---HHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHH
Q 020255          124 RSLSDACNSVARQLEDVYSSISAAQ---RQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTL  200 (328)
Q Consensus       124 RnMsnAvasvtKqLeqVs~sLaaaK---rhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~L  200 (328)
                      .+|+.++.++...|..++..|++-+   .+|+..|..+...+.+.......++..|..+..|+.+.+.||-...-.|..|
T Consensus        66 ~~l~~sl~~~~s~L~sLsstV~~lq~Sl~~lsssVs~lS~~ls~h~ssIS~Lqs~v~~lsTdvsNLksdVSt~aL~ItdL  145 (326)
T PF04582_consen   66 QDLASSLADMTSELNSLSSTVTSLQSSLSSLSSSVSSLSSTLSDHSSSISDLQSSVSALSTDVSNLKSDVSTQALNITDL  145 (326)
T ss_dssp             ----------------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhhhcchHhhH
Confidence            3445555555555555555444443   3566677777777777777778888888888888888888888888888888


Q ss_pred             HHHHHHhhhh
Q 020255          201 ESKLIEIEGK  210 (328)
Q Consensus       201 e~Ki~~ie~k  210 (328)
                      |.++..+|..
T Consensus       146 e~RV~~LEs~  155 (326)
T PF04582_consen  146 ESRVKALESG  155 (326)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHhcC
Confidence            8888888865

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.

>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=91.54  E-value=4.2  Score=35.56  Aligned_cols=50  Identities=20%  Similarity=0.399  Sum_probs=42.6

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHH
Q 020255          124 RSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQ  173 (328)
Q Consensus       124 RnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~  173 (328)
                      |.+-+-|.-...||.+-.+.++....+|.+||-.+|..+....+....-+
T Consensus        27 ~~~l~Lc~R~Q~HL~~cA~~Va~~Q~~L~~riKevd~~~~~l~~~~~erq   76 (131)
T PF10158_consen   27 RPVLRLCSRYQEHLNQCAEAVAFDQNALAKRIKEVDQEIAKLLQQMVERQ   76 (131)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67788999999999999999999999999999999998876655544333

The exact function of these proteins is not known.

>PRK11637 AmiB activator; Provisional

Probab=91.54  E-value=1.7  Score=43.35  Aligned_cols=78  Identities=13%  Similarity=0.187  Sum_probs=50.5

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHH---HhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020255          131 NSVARQLEDVYSSISAAQRQLS---SKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (328)
Q Consensus       131 asvtKqLeqVs~sLaaaKrhLs---qRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (328)
                      +.+-++|+++...|...++.+.   .++..+..++++..+-...+.+++..++.+++.+..+++.++.-+..++.+|+..
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            4566777777777766666665   6666666666666666666666666666666666666666666666666666655


Q ss_pred             h
Q 020255          208 E  208 (328)
Q Consensus       208 e  208 (328)
                      +
T Consensus       123 ~  123 (428)
T PRK11637        123 E  123 (428)
T ss_pred             H
Confidence            5

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

Probab=91.34  E-value=3.5  Score=36.03  Aligned_cols=38  Identities=16%  Similarity=0.336  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHH
Q 020255          140 VYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVT  177 (328)
Q Consensus       140 Vs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~  177 (328)
                      +++-+=.|||.|+.=...|..+||+.-|-...+|++++
T Consensus        30 ~sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLs   67 (126)
T PF07889_consen   30 FSDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKHLS   67 (126)
T ss_pred             hhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555566777766666666666666666666666543

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

>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional

Probab=91.31  E-value=0.87  Score=46.13  Aligned_cols=67  Identities=13%  Similarity=0.271  Sum_probs=30.3

Q ss_pred             CCchhHH--HHHHhhhheeeEEecCCCcCchhhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHH
Q 020255           90 GAKKYGV--IVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNK  164 (328)
Q Consensus        90 gg~~y~l--~a~iGavGYgYmwWKGws~SDlMfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDe  164 (328)
                      +|..+++  ++++-++|+||-|| |.       --.......-+.+..+|+.......+.+..|.+.+..++.++.+
T Consensus        35 ~g~~l~~~aili~la~g~g~y~~-~~-------qq~~~~~~~~~~L~~ql~~~~~~~~~~~~~l~~~~~~~~~~l~~  103 (390)
T PRK10920         35 TGLVLSAVAIAIALAAGAGLYYH-GK-------QQAQNQTATNDALANQLTALQKAQESQKQELEGILKQQAKALDQ  103 (390)
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHH-HH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444444  23344777777666 21       11112344444455555555444444444444444444333333

>smart00502 BBC B-Box C-terminal domain

Probab=90.80  E-value=2.7  Score=33.32  Aligned_cols=31  Identities=23%  Similarity=0.281  Sum_probs=20.7

Q ss_pred             hhhhHHHHHHHHHHHhhcc-CCCccceecccc
Q 020255          212 DITTLGVKKLCDRARELEN-GRPTELVQASRY  242 (328)
Q Consensus       212 d~Tn~GV~~LC~f~~~~~~-~~~~~~~Q~~~s  242 (328)
                      ......+..+|.|++..-. +...+++|...+
T Consensus        85 ~~~l~~l~~~~~~~e~~l~~~~~~e~L~~~~~  116 (127)
T smart00502       85 TQKQEKLSHAINFTEEALNSGDPTELLLSKKL  116 (127)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCChHHHHHHHH
Confidence            3456778888988876544 455677776543

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

>PRK15048 methyl-accepting chemotaxis protein II; Provisional

Probab=90.72  E-value=15  Score=37.33  Aligned_cols=11  Identities=36%  Similarity=0.386  Sum_probs=4.8

Q ss_pred             ccccccCCCCC
Q 020255          245 SRTTLELPGIT  255 (328)
Q Consensus       245 ~~pale~~~~~  255 (328)
                      .+|+=|.||.-
T Consensus       528 ~~~~~~~~~~~  538 (553)
T PRK15048        528 SRPASEQPPAQ  538 (553)
T ss_pred             ccccccCCccC
Confidence            34444444443

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

Probab=90.60  E-value=11  Score=33.57  Aligned_cols=98  Identities=20%  Similarity=0.310  Sum_probs=51.4

Q ss_pred             hhhhhhHHHHHHHHHHhHHHHHHHHHHHHHH----HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchh-hhhhHHHHHH
Q 020255          120 FATRRSLSDACNSVARQLEDVYSSISAAQRQ----LSSKITSVDRDVNKIVEISQATQEEVTILRGRSK-LIGDEFQSVR  194 (328)
Q Consensus       120 fVTKRnMsnAvasvtKqLeqVs~sLaaaKrh----LsqRId~vD~klDeq~eis~~i~~eV~~v~~dls-~ig~Dv~~v~  194 (328)
                      ||||..+.+..-..-..+.++-..+....|+    |....+.|...+|..   -..+++|+..++.++. .|..+=..++
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    333333344333333   2345555555444332 1111222444


Q ss_pred             HHHHHHHHHHHHhhhhhhhhhHHHHH
Q 020255          195 DIVQTLESKLIEIEGKQDITTLGVKK  220 (328)
Q Consensus       195 ~~V~~Le~Ki~~ie~kQd~Tn~GV~~  220 (328)
                      .....+|.||..++.+-+....++..
T Consensus       120 ~e~~~~~~ki~e~~~ki~~ei~~lr~  145 (177)
T PF07798_consen  120 EEQAKQELKIQELNNKIDTEIANLRT  145 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555555565555555544444433

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

Probab=90.16  E-value=5.3  Score=35.01  Aligned_cols=62  Identities=16%  Similarity=0.223  Sum_probs=52.5

Q ss_pred             HHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020255          150 QLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (328)
Q Consensus       150 hLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (328)
                      .|+.||+-|...||+...--+.+.+.+.++....+.+..-+..+..-...+|.|++.++.+-
T Consensus        77 ~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~  138 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKY  138 (143)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            47788888888888888888888888888888888888888888888888888888888664

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=89.58  E-value=12  Score=32.26  Aligned_cols=15  Identities=7%  Similarity=0.337  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHhcC
Q 020255           61 LLAEVSSVQQELSHV   75 (328)
Q Consensus        61 L~aQV~~LaqElr~L   75 (328)
                      +..-++.++++.+.|
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            777777777777777

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.

>PF13747 DUF4164: Domain of unknown function (DUF4164)

Probab=89.56  E-value=4.4  Score=33.14  Aligned_cols=81  Identities=12%  Similarity=0.168  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHH
Q 020255          141 YSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKK  220 (328)
Q Consensus       141 s~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~  220 (328)
                      ..+|.++-+.|.+.|++|+..++.-.+.....    .++..++..++.|-..+-+-..+.+.+...+|..|.-....+.+
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            45666777777777777777777766654433    44455556666666666666666667777777766666555555


Q ss_pred             HHHHH
Q 020255          221 LCDRA  225 (328)
Q Consensus       221 LC~f~  225 (328)
                      ..+-+
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=89.46  E-value=3.1  Score=44.09  Aligned_cols=88  Identities=17%  Similarity=0.286  Sum_probs=69.8

Q ss_pred             cCchhhh----hhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHH
Q 020255          115 LPDMMFA----TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEF  190 (328)
Q Consensus       115 ~SDlMfV----TKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv  190 (328)
                      ++++.|+    +||||...++   +.+=.....+-+.=+.+..+|+++...++++.+.-..|.+.+...+.+...+-.++
T Consensus         6 L~~~~~~nt~~aRr~LR~~iE---~~~l~~~~~~L~~f~~v~~~l~~~~~~v~~l~~~~~~~~~~l~~~~~~t~~ll~~~   82 (618)
T PF06419_consen    6 LSEFGFENTLEARRNLRSDIE---KRLLKINQEFLKEFSPVNRQLKRLQSDVDKLNSSCDQMQDRLSAAKSETSDLLEEA   82 (618)
T ss_pred             hcccccCCcHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5666776    8999876554   55556666666777788889999999999999999999999999999888888888


Q ss_pred             HHHHHHHHHHHHHHH
Q 020255          191 QSVRDIVQTLESKLI  205 (328)
Q Consensus       191 ~~v~~~V~~Le~Ki~  205 (328)
                      +.++.--..+|.|-.
T Consensus        83 ~~L~~~~~~~~~k~~   97 (618)
T PF06419_consen   83 SELREQKEELELKKK   97 (618)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            888865555555544

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

Probab=88.74  E-value=5.7  Score=45.15  Aligned_cols=98  Identities=15%  Similarity=0.207  Sum_probs=79.0

Q ss_pred             HHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhh
Q 020255          134 ARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDI  213 (328)
Q Consensus       134 tKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~  213 (328)
                      -+..++.-+.+...=+...+++...+.|+-+..+-.+.+++||+.-.+.++.+..|++..+..+..++.++.+++..-+-
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            34444555555555556667777778888888888888899999999999999999999999999999999999998888


Q ss_pred             hhHHHHHHHHHHHhhccC
Q 020255          214 TTLGVKKLCDRARELENG  231 (328)
Q Consensus       214 Tn~GV~~LC~f~~~~~~~  231 (328)
                      .-.-+++||.-+..++..
T Consensus       370 ~k~~~d~l~k~I~~~~~~  387 (1074)
T KOG0250|consen  370 LKKEVDRLEKQIADLEKQ  387 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            888999999888765543

>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=88.29  E-value=16  Score=31.57  Aligned_cols=25  Identities=8%  Similarity=0.230  Sum_probs=9.2

Q ss_pred             hhchhhhhhHHHHHHHHHHHHHHHH
Q 020255          180 RGRSKLIGDEFQSVRDIVQTLESKL  204 (328)
Q Consensus       180 ~~dls~ig~Dv~~v~~~V~~Le~Ki  204 (328)
                      ...+..|...++.+...+..+...+
T Consensus       134 ~~~l~~i~~~~~~i~~~i~~i~~~~  158 (213)
T PF00015_consen  134 SESLEEIAESVEEISDSIEEISESA  158 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhhhhhhhhhhHHhhhhHHHHhhH
Confidence            3333333333333333333333333

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.

>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=88.16  E-value=8.7  Score=35.80  Aligned_cols=76  Identities=9%  Similarity=0.170  Sum_probs=58.8

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHH
Q 020255          130 CNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLI  205 (328)
Q Consensus       130 vasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~  205 (328)
                      .....++..+--+.+...|+.|.++|+.+...++....-.+..++.|...+..+..+..+++++..+-..|..=|.
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            3344556666677788889999999999999998888888888888888888888888888888766555554333

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=87.93  E-value=4.9  Score=31.77  Aligned_cols=21  Identities=19%  Similarity=0.257  Sum_probs=9.9

Q ss_pred             hhHHHHHHHHHHHHHHHHHHh
Q 020255          187 GDEFQSVRDIVQTLESKLIEI  207 (328)
Q Consensus       187 g~Dv~~v~~~V~~Le~Ki~~i  207 (328)
                      -+.++.+-+.|..++..+..+
T Consensus        67 ~~~v~~~~~~v~~~g~~v~~l   87 (90)
T PF06103_consen   67 LEKVDPVFEAVADLGESVSEL   87 (90)
T ss_pred             HHhHHHHHHHHHHHHHHHHHH
Confidence            334444455555555544443

>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=86.94  E-value=13  Score=30.43  Aligned_cols=68  Identities=13%  Similarity=0.117  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhh---HHHHHHHHHHHHHHHHHHhhhh
Q 020255          143 SISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGD---EFQSVRDIVQTLESKLIEIEGK  210 (328)
Q Consensus       143 sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~---Dv~~v~~~V~~Le~Ki~~ie~k  210 (328)
                      -|...-+..+.|...+++.......-.+..+....+++.-+.+|..   .|..+-.+|..||.=..++|.|
T Consensus        25 LLe~mN~~~~~kY~~~~~~~~~l~~~~~~l~~k~~~l~~~l~~Id~Ie~~V~~LE~~v~~LD~ysk~LE~k   95 (99)
T PF10046_consen   25 LLENMNKATSLKYKKMKDIAAGLEKNLEDLNQKYEELQPYLQQIDQIEEQVTELEQTVYELDEYSKELESK   95 (99)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555556666666666666666666666666555555555544   6666667777766666666654

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

Probab=86.66  E-value=4.3  Score=43.37  Aligned_cols=39  Identities=21%  Similarity=0.228  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHh
Q 020255          141 YSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (328)
Q Consensus       141 s~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v  179 (328)
                      ......+.+.+.+|+..++.++.+...-+.+++..+.++
T Consensus       373 ~~~~~~~~~~~~~~l~~le~~l~~~~~~~~~L~~~~~~l  411 (656)
T PRK06975        373 TEQAQASVHQLDSQFAQLDGKLADAQSAQQALEQQYQDL  411 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333444556667777777776666666555555555544

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

Probab=86.41  E-value=13  Score=32.65  Aligned_cols=6  Identities=17%  Similarity=0.396  Sum_probs=2.5

Q ss_pred             HHHHHH
Q 020255          220 KLCDRA  225 (328)
Q Consensus       220 ~LC~f~  225 (328)
                      +|++.+
T Consensus       176 ~l~~~~  181 (191)
T PF04156_consen  176 QLEEKI  181 (191)
T ss_pred             HHHHHH
Confidence            344443

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 [].

>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=86.40  E-value=13  Score=31.12  Aligned_cols=19  Identities=21%  Similarity=0.398  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHhHHHHHHHH
Q 020255          126 LSDACNSVARQLEDVYSSI  144 (328)
Q Consensus       126 MsnAvasvtKqLeqVs~sL  144 (328)
                      |.+.+..+..+++.+.+.|
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 ....

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

Probab=86.28  E-value=10  Score=37.13  Aligned_cols=99  Identities=12%  Similarity=0.161  Sum_probs=74.3

Q ss_pred             hhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhh--------------
Q 020255          123 RRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGD--------------  188 (328)
Q Consensus       123 KRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~--------------  188 (328)
                      -+.+-.=..++..|+|.++..|...+.+|...+..+|.--++..+..+++..-+...+..+..+..              
T Consensus        86 ~~~~~~ky~sv~~qId~I~~~L~~~~~~L~~d~~~L~~l~~~n~~~~~~L~~~I~ag~~~~~~l~~~~~~~~~~~~~~d~  165 (333)
T PF05816_consen   86 LERYFAKYQSVQSQIDKIIAELESGQDELLRDNAMLDQLYEKNWEYYQELEKYIAAGELKLEELEAELLPALQADAEGDQ  165 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhccccCH
Confidence            344444568999999999999999999999999999988877777766666554444433333332              


Q ss_pred             ----HHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHH
Q 020255          189 ----EFQSVRDIVQTLESKLIEIEGKQDITTLGVKKL  221 (328)
Q Consensus       189 ----Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~L  221 (328)
                          .+..+.+.+..||.|+..++-.+.++..+.--+
T Consensus       166 ~~~q~~~~~~~~l~~leqRi~DL~~~~~va~Q~~pqi  202 (333)
T PF05816_consen  166 MDAQELADLEQALFRLEQRIQDLQLSRQVAIQTAPQI  202 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence                345667788999999999998888888776544

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

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

Probab=85.94  E-value=7.9  Score=42.19  Aligned_cols=33  Identities=15%  Similarity=0.285  Sum_probs=23.5

Q ss_pred             HHHHHHhHHHHHHH-HHHHHHHHHHhHhhhhhhH
Q 020255          130 CNSVARQLEDVYSS-ISAAQRQLSSKITSVDRDV  162 (328)
Q Consensus       130 vasvtKqLeqVs~s-LaaaKrhLsqRId~vD~kl  162 (328)
                      ++++.+|+++|-.. ...++.|+...|++.+..+
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 7777778888887776544

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

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=85.57  E-value=16  Score=38.27  Aligned_cols=121  Identities=13%  Similarity=0.265  Sum_probs=74.3

Q ss_pred             hheeeEEecCCCcCchhhhhh--------------------hhHHHHHHHHHHhHHHHHHHHH---HHHHHHHHhHhhhh
Q 020255          103 VGYGYVWWKGWKLPDMMFATR--------------------RSLSDACNSVARQLEDVYSSIS---AAQRQLSSKITSVD  159 (328)
Q Consensus       103 vGYgYmwWKGws~SDlMfVTK--------------------RnMsnAvasvtKqLeqVs~sLa---aaKrhLsqRId~vD  159 (328)
                      -||-=|-=+|..|.++=.-.+                    +.....+..+.+++|++|+.|.   .||+...+.+..+.
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                    2344566677788888888876   46777777777777


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhc----------hhhhhhHHHHHHH---------------------HHHHHHHHHHHhh
Q 020255          160 RDVNKIVEISQATQEEVTILRGR----------SKLIGDEFQSVRD---------------------IVQTLESKLIEIE  208 (328)
Q Consensus       160 ~klDeq~eis~~i~~eV~~v~~d----------ls~ig~Dv~~v~~---------------------~V~~Le~Ki~~ie  208 (328)
                      +.++...+-...+..|+..++..          +..+..+++.+..                     ....|..++..++
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          3344444444333                     3344555555666


Q ss_pred             hhhhhhhHHHHHHHH
Q 020255          209 GKQDITTLGVKKLCD  223 (328)
Q Consensus       209 ~kQd~Tn~GV~~LC~  223 (328)
                      ..|.--..-|..|+.
T Consensus       397 ~eq~ei~e~l~~Lrk  411 (569)
T PRK04778        397 KEQEKLSEMLQGLRK  411 (569)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            666655555555543

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.45  E-value=5.9  Score=38.63  Aligned_cols=67  Identities=15%  Similarity=0.289  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHH
Q 020255          138 EDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKL  204 (328)
Q Consensus       138 eqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki  204 (328)
                      |.-+..+...++.+...|+.+|.++++...=....++++++.+.++.....||+.+..-+.....++
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            4455667777888888999999999999988889999998888888888888887776655444443

>PHA02562 46 endonuclease subunit; Provisional

Probab=85.30  E-value=14  Score=37.47  Aligned_cols=53  Identities=6%  Similarity=0.149  Sum_probs=25.4

Q ss_pred             HhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020255          155 ITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (328)
Q Consensus       155 Id~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (328)
                      ++.+..++.+........++++.........+..++++++..+..++.++.++
T Consensus       332 ~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~l  384 (562)
T PHA02562        332 FNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAKL  384 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHHH
Confidence            33334444444444444444454444555555555555555555555555443

>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=85.01  E-value=16  Score=32.71  Aligned_cols=83  Identities=12%  Similarity=0.247  Sum_probs=61.9

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHH-HHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHH
Q 020255          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKI-VEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESK  203 (328)
Q Consensus       125 nMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq-~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~K  203 (328)
                      .++..+..+-.||..+.+.|...-..+..|++.+-..+++. ..+++.++.|.+.+..++.+.-..|-++......|=..
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 46677888888888888877777777776666555555


Q ss_pred             HHHh
Q 020255          204 LIEI  207 (328)
Q Consensus       204 i~~i  207 (328)
                      +.-+
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

>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit

Probab=84.67  E-value=4.2  Score=37.94  Aligned_cols=57  Identities=16%  Similarity=0.309  Sum_probs=36.2

Q ss_pred             HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020255          151 LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (328)
Q Consensus       151 LsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (328)
                      +..|+-+|..|+|.+.|.-..+-+.+.+-++--...+.|+..+.+-+..||.|+|.|
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            445666666666666665555555555444555566677777777777777777754

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.

>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=83.79  E-value=4.5  Score=32.71  Aligned_cols=53  Identities=8%  Similarity=0.236  Sum_probs=26.3

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhh
Q 020255          128 DACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRG  181 (328)
Q Consensus       128 nAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~  181 (328)
                      ++++.|..+.+.++..+...+..+ .+++.+..|||.+.+-...+.+.|++++.
T Consensus        11 ~dIk~vd~KVdaLq~~V~~l~~~~-~~v~~l~~klDa~~~~l~~l~~~V~~I~~   63 (75)
T PF05531_consen   11 QDIKAVDDKVDALQTQVDDLESNL-PDVTELNKKLDAQSAQLTTLNTKVNEIQD   63 (75)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445555555555555554444433 34444555555555555555555544443

; GO: 0019028 viral capsid

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

Probab=83.44  E-value=11  Score=30.39  Aligned_cols=63  Identities=17%  Similarity=0.255  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhHhhhhhhHHHHHHHHH----HHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHH
Q 020255          144 ISAAQRQLSSKITSVDRDVNKIVEISQ----ATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIE  206 (328)
Q Consensus       144 LaaaKrhLsqRId~vD~klDeq~eis~----~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~  206 (328)
                      +-++.+++.+|++.=-..|.++.+.++    .++.+...=...+..+..|++.++.-++.|..|+..
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            445566777777777777777766654    345555566667778889999999999999888864

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=83.32  E-value=14  Score=34.46  Aligned_cols=70  Identities=10%  Similarity=0.247  Sum_probs=42.1

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHH
Q 020255          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR  194 (328)
Q Consensus       125 nMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~  194 (328)
                      .+.+-++.+..+|++.......-+.++.++++..+....+.++--++.++++..++.++....-+.+.++
T Consensus        97 ~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~  166 (206)
T PRK10884         97 DLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQ  166 (206)
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3555666666666666666666666666666666666666666666666666665555444444444333

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=83.28  E-value=2.7  Score=34.92  Aligned_cols=55  Identities=22%  Similarity=0.344  Sum_probs=46.1

Q ss_pred             HHhhhheeeEEecCCCcCchhhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHH
Q 020255           99 VIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI  178 (328)
Q Consensus        99 ~iGavGYgYmwWKGws~SDlMfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~  178 (328)
                      ++.-+|.||+=.+-                               +..|+++|..||+.++..+++..+..+..+++++.
T Consensus        70 v~v~iG~g~~vE~~-------------------------------~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~  118 (126)
T TIGR00293        70 VLVSIGSGYYVEKD-------------------------------AEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQ  118 (126)
T ss_pred             EEEEcCCCEEEEec-------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55578999987764                               47899999999999999999999999999999888


Q ss_pred             hhhchh
Q 020255          179 LRGRSK  184 (328)
Q Consensus       179 v~~dls  184 (328)
                      +...+.
T Consensus       119 i~~~l~  124 (126)
T TIGR00293       119 LEQEAQ  124 (126)
T ss_pred             HHHHHh
Confidence            776543

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.

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

Probab=83.10  E-value=12  Score=38.66  Aligned_cols=82  Identities=17%  Similarity=0.235  Sum_probs=64.2

Q ss_pred             HhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhh
Q 020255          135 RQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDIT  214 (328)
Q Consensus       135 KqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~T  214 (328)
                      ++|+|....|++..    ++|...+++..+...-.+..++++..+..-+.++..|++.+++.+..++..|..++..+ ..
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            88888888887654    45566677777777777888888888888888999999999999999999998888766 66


Q ss_pred             hHHHHHH
Q 020255          215 TLGVKKL  221 (328)
Q Consensus       215 n~GV~~L  221 (328)
                      ..++...
T Consensus       113 qr~~La~  119 (420)
T COG4942         113 QRRRLAE  119 (420)
T ss_pred             HHHHHHH
Confidence            6665544

>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=82.79  E-value=5.2  Score=40.12  Aligned_cols=41  Identities=22%  Similarity=0.392  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHhhcc
Q 020255          190 FQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELEN  230 (328)
Q Consensus       190 v~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~f~~~~~~  230 (328)
                      ++.++..+..|-.||.+|..+=..|-.=|..+|.=++.+++
T Consensus        59 l~~a~~~i~~L~~~i~~ik~kA~~sE~~V~~it~dIk~LD~   99 (383)
T PF04100_consen   59 LEEAQEAIQELFEKISEIKSKAEESEQMVQEITRDIKQLDN   99 (383)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444444455555555544444444555544444443

>PRK15048 methyl-accepting chemotaxis protein II; Provisional

Probab=82.73  E-value=34  Score=34.78  Aligned_cols=60  Identities=13%  Similarity=0.166  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHH
Q 020255          138 EDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIV  197 (328)
Q Consensus       138 eqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V  197 (328)
                      .+.++.+...=.+++.-.+.+....+++.+..+++...+.++...+.++-...+.+...+
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            334444444555556666666666666666666665555555555555544444444433

>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=82.29  E-value=16  Score=36.73  Aligned_cols=77  Identities=16%  Similarity=0.285  Sum_probs=36.9

Q ss_pred             hhhhhHHHHHHHHHHhHHHHHHHHHHHH-------HHHHHhHhhh-------hhhHHHHHHHHHHHHHHHHHhhhchhhh
Q 020255          121 ATRRSLSDACNSVARQLEDVYSSISAAQ-------RQLSSKITSV-------DRDVNKIVEISQATQEEVTILRGRSKLI  186 (328)
Q Consensus       121 VTKRnMsnAvasvtKqLeqVs~sLaaaK-------rhLsqRId~v-------D~klDeq~eis~~i~~eV~~v~~dls~i  186 (328)
                      -=+.+++++...+..||+.+++.+..+-       |||.++++.+       -++|.+..+--++...-|++....|.+|
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            3344444455555555555554444444       4444444433       2333333344444444455555556666


Q ss_pred             hhHHHHHHHHH
Q 020255          187 GDEFQSVRDIV  197 (328)
Q Consensus       187 g~Dv~~v~~~V  197 (328)
                      .++++.+++-+
T Consensus       307 seeLe~vK~em  317 (359)
T PF10498_consen  307 SEELEQVKQEM  317 (359)
T ss_pred             HHHHHHHHHHH
Confidence            66666655433

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.

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

Probab=82.26  E-value=34  Score=30.01  Aligned_cols=51  Identities=20%  Similarity=0.242  Sum_probs=19.4

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhh
Q 020255          158 VDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIE  208 (328)
Q Consensus       158 vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie  208 (328)
                      +-..+++..+....+.+.+..+...+.+....++.....+..+..++..+.
T Consensus        37 i~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i~   87 (262)
T smart00283       37 VAANADEIAATAQSAAEAAEEGREAVEDAITAMDQIREVVEEAVSAVEELE   87 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333333333333333333333333333333

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

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=82.12  E-value=25  Score=36.85  Aligned_cols=17  Identities=12%  Similarity=0.374  Sum_probs=13.1

Q ss_pred             hHHHHHHHHHHHHHHhc
Q 020255           58 FNDLLAEVSSVQQELSH   74 (328)
Q Consensus        58 ~~dL~aQV~~LaqElr~   74 (328)
                      |.++..+|..|+++|.+
T Consensus       251 ~~~i~~~i~~l~~~i~~  267 (569)
T PRK04778        251 HLDIEKEIQDLKEQIDE  267 (569)
T ss_pred             CCChHHHHHHHHHHHHH
Confidence            43488888888888887

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

Probab=82.04  E-value=26  Score=32.12  Aligned_cols=47  Identities=9%  Similarity=0.186  Sum_probs=35.2

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHH
Q 020255          145 SAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQ  191 (328)
Q Consensus       145 aaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~  191 (328)
                      .....++..|++.+..+++++++-.+..++++.+.+..+..-..++.
T Consensus        62 ~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~  108 (302)
T PF10186_consen   62 KREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSRLS  108 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455667778888888888888888888888888877777777665

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

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

Probab=82.04  E-value=22  Score=33.11  Aligned_cols=68  Identities=13%  Similarity=0.264  Sum_probs=50.3

Q ss_pred             HHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHH
Q 020255          152 SSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVK  219 (328)
Q Consensus       152 sqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~  219 (328)
                      -.||+.|..++.+...+.........++...+..+-.|++....-+..+|.|+..++..-.....-+.
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            45666666777777777777777778888888888888888888888888888888765544444443

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 ....

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

Probab=81.95  E-value=9.5  Score=31.80  Aligned_cols=65  Identities=11%  Similarity=0.235  Sum_probs=48.7

Q ss_pred             HHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhh--hhHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHH
Q 020255          152 SSKITSVDRDVNKIVEISQATQEEVTILRGRSKLI--GDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCD  223 (328)
Q Consensus       152 sqRId~vD~klDeq~eis~~i~~eV~~v~~dls~i--g~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~  223 (328)
                      ..+++.+++++++       ..+-++.+..++.+.  .+|+..++-.+..++++++.+++.=+--++-+.+|.+
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            4566666666654       456677777777887  8888888888888999999998887766777777754

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

>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS

Probab=81.76  E-value=9.6  Score=30.35  Aligned_cols=78  Identities=15%  Similarity=0.317  Sum_probs=39.0

Q ss_pred             hhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHH
Q 020255          119 MFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQ  198 (328)
Q Consensus       119 MfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~  198 (328)
                      |+-+++-+.+...-++..+......-...++.+..++++.=.+||=.      +++|....+       .-+...+.-+.
T Consensus         1 M~~~~~~~d~~~~~~~~~~~~~~~~~~e~e~~~r~~l~~~l~kldlV------tREEFd~q~-------~~L~~~r~kl~   67 (79)
T PF04380_consen    1 MQDPNKIFDDLAKQISEALPAAQGPREEIEKNIRARLQSALSKLDLV------TREEFDAQK-------AVLARTREKLE   67 (79)
T ss_pred             CCCchhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHCCCC------cHHHHHHHH-------HHHHHHHHHHH
Confidence            44444555555555555555554445555555555555554444422      122222222       22444555556


Q ss_pred             HHHHHHHHhhh
Q 020255          199 TLESKLIEIEG  209 (328)
Q Consensus       199 ~Le~Ki~~ie~  209 (328)
                      .||.||..+|.
T Consensus        68 ~LEarl~~LE~   78 (79)
T PF04380_consen   68 ALEARLAALEA   78 (79)
T ss_pred             HHHHHHHHHhc
Confidence            66666666664

BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.

>PRK09039 hypothetical protein; Validated

Probab=81.18  E-value=20  Score=35.48  Aligned_cols=87  Identities=9%  Similarity=0.234  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHH-------HHHHHHHHHHhhh
Q 020255          137 LEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDI-------VQTLESKLIEIEG  209 (328)
Q Consensus       137 LeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~-------V~~Le~Ki~~ie~  209 (328)
                      |+..++....+..++..|+..+.++|++.+..+....-+|..++..++.+..-+..++..       -.....||+.++.
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            333334444445577888888888888888887766666555555555444444444444       4444455555554


Q ss_pred             hhhhhhHH-HHHHHH
Q 020255          210 KQDITTLG-VKKLCD  223 (328)
Q Consensus       210 kQd~Tn~G-V~~LC~  223 (328)
                      .=+.+.+. +..|-+
T Consensus       180 ~L~~a~~~~~~~l~~  194 (343)
T PRK09039        180 RLNVALAQRVQELNR  194 (343)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            44444333 444433

>PRK13182 racA polar chromosome segregation protein; Reviewed

Probab=81.10  E-value=7.4  Score=35.46  Aligned_cols=63  Identities=19%  Similarity=0.300  Sum_probs=48.9

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhh
Q 020255          145 SAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEG  209 (328)
Q Consensus       145 aaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~  209 (328)
                      ..-..-|..+.+.|+.++++..+.-+...|+|--.  .|=+=..+|+.+...+..||.+|..+|.
T Consensus        84 ~~R~~lLe~~~~~l~~ri~eLe~~l~~kad~vvsY--qll~hr~e~ee~~~~l~~le~~~~~~e~  146 (175)
T PRK13182         84 SVDFEQLEAQLNTITRRLDELERQLQQKADDVVSY--QLLQHRREMEEMLERLQKLEARLKKLEP  146 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH--HHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            34455677777777788888888888888888443  4467788999999999999999999664

>smart00806 AIP3 Actin interacting protein 3

Probab=81.05  E-value=27  Score=36.34  Aligned_cols=96  Identities=17%  Similarity=0.308  Sum_probs=68.5

Q ss_pred             hhHHHHHHHHHHhHHHHHHH------------HHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHH-----hhhchhhh
Q 020255          124 RSLSDACNSVARQLEDVYSS------------ISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI-----LRGRSKLI  186 (328)
Q Consensus       124 RnMsnAvasvtKqLeqVs~s------------LaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~-----v~~dls~i  186 (328)
                      +.+..-++++-.++.+|.++            +.+.|++|+..-|+|=.|.|+.+.+.+.+|++|..     ....++.+
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            34555566666667777654            55679999999999999999999999999999753     22345556


Q ss_pred             hhHHHHHHHHHH---------------HHHHHHHHhhhhhhhhhHHHH
Q 020255          187 GDEFQSVRDIVQ---------------TLESKLIEIEGKQDITTLGVK  219 (328)
Q Consensus       187 g~Dv~~v~~~V~---------------~Le~Ki~~ie~kQd~Tn~GV~  219 (328)
                      +.|++....-+.               .||.-|+.|..-|+|=|.==.
T Consensus       256 ~kdi~~a~keL~~m~~~i~~eKP~WkKiWE~EL~~VcEEqqfL~lQed  303 (426)
T smart00806      256 QKELETARKELKKMEEYIDIEKPIWKKIWEAELDKVCEEQQFLTLQED  303 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666655554444               466778888888887665433

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.

---

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	328
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06

>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 = 49.1 bits (116), Expect = 1e-06
 Identities = 39/258 (15%), Positives = 79/258 (30%), Gaps = 62/258 (24%)

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 ASRYTLSRTTLELPGITP 256
              Y + + T +   + P
Sbjct: 452 --HYNIPK-TFDSDDLIP 466

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	328
2ba2_A	85	D12_ORF131, hypothetical UPF0134 protein MPN010; D	94.15
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	93.2
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	89.08
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	88.39
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	88.0
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	87.94
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	87.87
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	87.12
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	86.32
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	86.06
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	85.49
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	85.15
2qyw_A	102	Vesicle transport through interaction with T-SNAR	84.96
3onj_A	97	T-snare VTI1; helix, HABC, protein transport; 1.92	84.51
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	84.33
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	84.22
1vcs_A	102	Vesicle transport through interaction with T- snar	83.04
2akf_A	32	Coronin-1A; coiled coil, protein binding; 1.20A {S	82.14
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	82.04
2yo3_A	268	General control protein GCN4, putative inner MEMB	82.0
4dnd_A	130	Syntaxin-10, SYN10; structural genomics, protein s	81.72
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	81.55
3gwk_C	98	SAG1039, putative uncharacterized protein SAG1039;	80.12
3zx6_A	341	HAMP, methyl-accepting chemotaxis protein I; signa	80.02

>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=94.15  E-value=0.11  Score=41.63  Aligned_cols=77  Identities=17%  Similarity=0.235  Sum_probs=49.7

Q ss_pred             hhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHH
Q 020255          120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQT  199 (328)
Q Consensus       120 fVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~  199 (328)
                      |||+|-+..-..+.            ++|..|.+|...+...+.-|-|.+..=-+++.+++..-..-|.-++.|-....+
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            89998887643221            345555556555555555555555555555555555556666777788888888


Q ss_pred             HHHHHHHhh
Q 020255          200 LESKLIEIE  208 (328)
Q Consensus       200 Le~Ki~~ie  208 (328)
                      +..+||.||
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=93.20  E-value=1.1  Score=36.68  Aligned_cols=79  Identities=10%  Similarity=0.281  Sum_probs=63.6

Q ss_pred             HHHHHhH---HHHHHHHHHHHHHHHHhHhhhh----hhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHH
Q 020255          131 NSVARQL---EDVYSSISAAQRQLSSKITSVD----RDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESK  203 (328)
Q Consensus       131 asvtKqL---eqVs~sLaaaKrhLsqRId~vD----~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~K  203 (328)
                      +.++|||   .|..+.+..+|+.|..+|+.+.    .|++++.+....++.++..-..+|..+..+++....-=..|..+
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            4566666   4677889999999999999865    67788888888889998888888888888888888777777777


Q ss_pred             HHHhhh
Q 020255          204 LIEIEG  209 (328)
Q Consensus       204 i~~ie~  209 (328)
                      ++.++.
T Consensus        91 ~~~l~~   96 (107)
T 2no2_A           91 FAELEK   96 (107)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776654

>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=89.08  E-value=3  Score=41.91  Aligned_cols=96  Identities=10%  Similarity=0.208  Sum_probs=62.5

Q ss_pred             cCchhhhhhhhHHHHHHHHHHhHHHHHHHHHHHH---HHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchh-----hh
Q 020255          115 LPDMMFATRRSLSDACNSVARQLEDVYSSISAAQ---RQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSK-----LI  186 (328)
Q Consensus       115 ~SDlMfVTKRnMsnAvasvtKqLeqVs~sLaaaK---rhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls-----~i  186 (328)
                      +.|+|=-..++....+..|-..|++++..-..++   ++|+..+...+.++.++.+..+.-.+++.+.+.-++     ++
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            3788888899999999999999999987766655   345666666666555555555554444444443332     23


Q ss_pred             hhHHHHHHHHHHHHHHHHHHhhhh
Q 020255          187 GDEFQSVRDIVQTLESKLIEIEGK  210 (328)
Q Consensus       187 g~Dv~~v~~~V~~Le~Ki~~ie~k  210 (328)
                      ...+..++..+..|..||..+|.+
T Consensus       167 ~~~i~~L~~~~~~l~~ki~~l~~~  190 (464)
T 1m1j_B          167 PSSLRVLRAVIDSLHKKIQKLENA  190 (464)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555666666666666666654

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

Probab=88.39  E-value=5.4  Score=37.97  Aligned_cols=77  Identities=14%  Similarity=0.150  Sum_probs=55.9

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHH
Q 020255          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLES  202 (328)
Q Consensus       125 nMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~  202 (328)
                      -|.+++..+-..=..+-++|..+.+.+.+-|++.-. ..|+......++.++++++.++.++.-.-..-++.|-+|-.
T Consensus       356 ~~~~~~~~vl~G~~t~eeal~~~~~~i~~~l~~~~~-~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  432 (471)
T 3mq9_A          356 AVRTAVINAASGRQTVDEALKDAQTRITAARDGLRA-VMEARNVTHLLQQELTEAQKGFQDVEAQAATANHTVMALMA  432 (471)
T ss_dssp             HHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhhHH-HHHhhhHHHHHHHHHHHHhhhHHHHHHHhhhcchhHHHHHH
Confidence            344555444443335677888888888888877644 44778888899999999999999888888777777766543

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

Probab=88.00  E-value=2.6  Score=40.31  Aligned_cols=66  Identities=9%  Similarity=-0.056  Sum_probs=53.4

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHH
Q 020255          158 VDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCD  223 (328)
Q Consensus       158 vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~  223 (328)
                      +....+++.++.++.+.|-..++.|.+.++.+++.+++--..++..+.+++..=.-+++-...+|.
T Consensus       412 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  477 (487)
T 3oja_A          412 LRAIVKRYEEMYVEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANATLQELVV  477 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHHHH
Confidence            445666677788888888888889999999999999888888888888888777777777777775

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

Probab=87.94  E-value=5  Score=36.01  Aligned_cols=39  Identities=15%  Similarity=0.277  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHH
Q 020255          126 LSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNK  164 (328)
Q Consensus       126 MsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDe  164 (328)
                      ++.|+..+...+..+.+.++.+-+++..-++.+....++
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=87.87  E-value=7.8  Score=34.74  Aligned_cols=60  Identities=12%  Similarity=0.130  Sum_probs=25.9

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHH
Q 020255          133 VARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQS  192 (328)
Q Consensus       133 vtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~  192 (328)
                      +...+++++..+...-.++....+.+....+++.+..+.+.+++......+..+...+..
T Consensus         5 va~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   64 (213)
T 3g67_A            5 VKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEKISENIMEELKKSGTNVDQIVERVKE   64 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444444444444444444444444444444444444433333333333

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

Probab=86.32  E-value=1.5  Score=36.09  Aligned_cols=64  Identities=9%  Similarity=0.152  Sum_probs=31.2

Q ss_pred             HHHHHHHHHH---HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020255          141 YSSISAAQRQ---LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (328)
Q Consensus       141 s~sLaaaKrh---LsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (328)
                      .+.+..+|.+   +...|+++...++.+...-....+.+.++..   +...+++.++..+..||.-|..+
T Consensus        28 ~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~~LE~~l~e~e~---~~~~~l~~~q~~i~~lE~eL~~~   94 (129)
T 3tnu_B           28 GDDLRNTKHEISEMNRMIQRLRAEIDNVKKQCANLQNAIADAEQ---RGELALKDARNKLAELEEALQKA   94 (129)
T ss_dssp             ------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhHHHH
Confidence            3344444432   3345666666666666555555555555443   23345555555555666555543

>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=86.06  E-value=6.3  Score=40.53  Aligned_cols=95  Identities=8%  Similarity=0.122  Sum_probs=63.6

Q ss_pred             CchhhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHH-------HHHHHHHHHHHHhhhchhhhhh
Q 020255          116 PDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIV-------EISQATQEEVTILRGRSKLIGD  188 (328)
Q Consensus       116 SDlMfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~-------eis~~i~~eV~~v~~dls~ig~  188 (328)
                      -++|-=+-|++.+-++.|-.+|++++.+=..+-....+-.+.+..++.+..       |++.+++..+..++..|.+--.
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            356777889999999999999999987766666666665555555555444       4444445555555555544445


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhh
Q 020255          189 EFQSVRDIVQTLESKLIEIEGK  210 (328)
Q Consensus       189 Dv~~v~~~V~~Le~Ki~~ie~k  210 (328)
                      -+..||..|+.+-.||.++|--
T Consensus       132 nIrvLQsnLedq~~kIQRLEvD  153 (562)
T 3ghg_A          132 HIQLLQKNVRAQLVDMKRLEVD  153 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            5566677777777788888743

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

Probab=85.49  E-value=6.2  Score=29.44  Aligned_cols=70  Identities=19%  Similarity=0.254  Sum_probs=47.5

Q ss_pred             hHHHHHHHHHHhHHHHHH-HHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHH
Q 020255          125 SLSDACNSVARQLEDVYS-SISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR  194 (328)
Q Consensus       125 nMsnAvasvtKqLeqVs~-sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~  194 (328)
                      .|+.+.+.|=.|-|.+-. .-+.+..-...+++.+........+-....+.|+++++..+....-|+++++
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 3445666677788877777777777777777777777777666666666553

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

Probab=85.15  E-value=4.6  Score=36.44  Aligned_cols=55  Identities=4%  Similarity=0.090  Sum_probs=24.5

Q ss_pred             hhhhhHHHHHHHHHHHHHHHHHhh--hchhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020255          157 SVDRDVNKIVEISQATQEEVTILR--GRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (328)
Q Consensus       157 ~vD~klDeq~eis~~i~~eV~~v~--~dls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (328)
                      +++..+++..+-.+..++....++  .++..+..+++....-...||.+|.++...-
T Consensus        64 ~~e~~i~~~~~ri~~~~~~l~~v~~~kE~~aL~kEie~~~~~i~~lE~eile~~e~i  120 (256)
T 3na7_A           64 KNEQTLQDTNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEI  120 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333332  2334444555555555555555555444443

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

Probab=84.96  E-value=1.9  Score=34.50  Aligned_cols=60  Identities=8%  Similarity=0.090  Sum_probs=41.9

Q ss_pred             hhhhhhhhHHHHHHHHHHhHHHHHHHHH-HHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhh
Q 020255          118 MMFATRRSLSDACNSVARQLEDVYSSIS-AAQRQLSSKITSVDRDVNKIVEISQATQEEVTILR  180 (328)
Q Consensus       118 lMfVTKRnMsnAvasvtKqLeqVs~sLa-aaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~  180 (328)
                      ++----+.+...++++.+.++++..... ..|+.   .|..++..|||..|+.+++.-||..+-
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            3333445667777888888887644323 44443   477888899999999999999987763

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

Probab=84.51  E-value=3  Score=33.02  Aligned_cols=53  Identities=9%  Similarity=0.173  Sum_probs=40.3

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHh
Q 020255          124 RSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (328)
Q Consensus       124 RnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v  179 (328)
                      ..+...++++...|+++...=...|+.   -|..++..+||..|+..+|.-||..+
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            345677888888888876333334443   47778889999999999999999888

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

Probab=84.33  E-value=1.6  Score=36.21  Aligned_cols=70  Identities=7%  Similarity=0.291  Sum_probs=34.1

Q ss_pred             HhHHHHHHHHHHHHHH---HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020255          135 RQLEDVYSSISAAQRQ---LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (328)
Q Consensus       135 KqLeqVs~sLaaaKrh---LsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (328)
                      ++...-.+.+..+|.+   |..+|++|...++.+...-....+.+.++..   +...+++.++..+..||.-|..+
T Consensus        24 ~~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~---~~~~~l~~~q~~i~~lE~eL~~~   96 (131)
T 3tnu_A           24 REVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKG---RYCMQLAQIQEMIGSVEEQLAQL   96 (131)
T ss_dssp             -----------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333344555556543   4456777777777776666666666655554   33445666666666666666554

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

Probab=84.22  E-value=13  Score=32.04  Aligned_cols=78  Identities=13%  Similarity=0.211  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHH------------HhhhchhhhhhHHHHHHHHHH--------HHHH
Q 020255          143 SISAAQRQLSSKITSVDRDVNKIVEISQATQEEVT------------ILRGRSKLIGDEFQSVRDIVQ--------TLES  202 (328)
Q Consensus       143 sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~------------~v~~dls~ig~Dv~~v~~~V~--------~Le~  202 (328)
                      -+.+-|++|..+.|+|=.++|+.+.+.+.++++|.            .+..|+.....|++.+...+.        .+|.
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            46678889999999999999999999999988874            345555555555555555543        4677


Q ss_pred             HHHHhhhhhhhhhHHHHH
Q 020255          203 KLIEIEGKQDITTLGVKK  220 (328)
Q Consensus       203 Ki~~ie~kQd~Tn~GV~~  220 (328)
                      -|..|..-|+|=|.==.+
T Consensus        91 EL~~VceEQqfl~~QedL  108 (141)
T 3okq_A           91 ELDKVCEEQQFLTLQEEL  108 (141)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            777777778776654333

>1vcs_A Vesicle transport through interaction with T- snares homolog 1A; HABC domain, VTI1, UP and DOWN three helix bundle, LEFT-handed twist; NMR {Mus musculus} SCOP: a.47.2.1

Probab=83.04  E-value=1.4  Score=35.21  Aligned_cols=62  Identities=10%  Similarity=0.124  Sum_probs=45.3

Q ss_pred             CchhhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhh
Q 020255          116 PDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILR  180 (328)
Q Consensus       116 SDlMfVTKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~  180 (328)
                      |+++----+.+...++.+.+.++++...=...|+.   -|..++..|||..|+..+|.-||..+-
T Consensus         4 SelFe~YE~df~~l~~~i~~kl~~i~~~~geerk~---~i~~ie~~l~EA~ell~qMelE~r~~p   65 (102)
T 1vcs_A            4 GSSGEGYEQDFAVLTAEITSKIARVPRLPPDEKKQ---MVANVEKQLEEARELLEQMDLEVREIP   65 (102)
T ss_dssp             CCCCCCSHHHHHHHHHHHHHHHHHGGGSCTTTHHH---HHHHHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhccCcHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            34444445667788889999998876432334443   377888999999999999999997764

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

Probab=82.14  E-value=1.4  Score=29.35  Aligned_cols=29  Identities=21%  Similarity=0.371  Sum_probs=25.3

Q ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Q 020255          183 SKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (328)
Q Consensus       183 ls~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (328)
                      ++++.+|+.+++.+|+.|..+++++|..-
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            35678899999999999999999999763

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

Probab=82.04  E-value=11  Score=36.73  Aligned_cols=37  Identities=3%  Similarity=0.083  Sum_probs=29.9

Q ss_pred             hhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhh
Q 020255          123 RRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVD  159 (328)
Q Consensus       123 KRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD  159 (328)
                      ...+.+.+..+...+++....++..++++..|++...
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            3446678888888888888999999999888877766

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

Probab=82.00  E-value=2.6  Score=39.82  Aligned_cols=58  Identities=9%  Similarity=0.213  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhHHHHHH
Q 020255          137 LEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR  194 (328)
Q Consensus       137 LeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls~ig~Dv~~v~  194 (328)
                      ..|++++++.++....+|+..|+.+++....=..++.+.|.++-..+-.|..+++.|+
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            5677778999999888888888877777666666666666665555555555555544

>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=81.72  E-value=3.5  Score=34.56  Aligned_cols=59  Identities=19%  Similarity=0.279  Sum_probs=33.5

Q ss_pred             hhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhh-hHHHHHHHHHHHHHHHHHhhhc
Q 020255          122 TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDR-DVNKIVEISQATQEEVTILRGR  182 (328)
Q Consensus       122 TKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~-klDeq~eis~~i~~eV~~v~~d  182 (328)
                      |++-|.++|.++..+|+.+.+++..+.++=. |- +++. .+..=+.....++++|..++..
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 2444445555555555555443

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

Probab=81.55  E-value=21  Score=29.42  Aligned_cols=34  Identities=15%  Similarity=0.207  Sum_probs=13.3

Q ss_pred             HHHHHhhhchhhhhhHHHHHHHHHHHHHHHHHHh
Q 020255          174 EEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (328)
Q Consensus       174 ~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki~~i  207 (328)
                      .++..+...+..+..++..+..-+..++..+..+
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (284)
T 1c1g_A           69 EKLELAEKKATDAEADVASLNRRIQLFEEELDRA  102 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333334444444443333333333333

>3gwk_C SAG1039, putative uncharacterized protein SAG1039; WXG motif, four-helical bundle, viral protein; 1.30A {Streptococcus agalactiae serogroup V} PDB: 3gvm_A 3o9o_A

Probab=80.12  E-value=16  Score=27.24  Aligned_cols=69  Identities=12%  Similarity=0.173  Sum_probs=38.0

Q ss_pred             HHHHHHHHHHHHHHHHHhHhhhhhhHHH------------HHHHHHHHHHHHHHhhhchhhhhhHHHHHHHHHHHHHHHH
Q 020255          137 LEDVYSSISAAQRQLSSKITSVDRDVNK------------IVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKL  204 (328)
Q Consensus       137 LeqVs~sLaaaKrhLsqRId~vD~klDe------------q~eis~~i~~eV~~v~~dls~ig~Dv~~v~~~V~~Le~Ki  204 (328)
                      |+++...+..+...+.+.+++|...++.            ..+.....+..+..+..-|..|...+...-..++.-|.++
T Consensus        13 l~~~A~~~~~~~~~i~~~l~~L~~~~~~l~~~W~G~a~~aF~~~~~~~~~~~~~~~~~L~~i~~~L~~~a~~~~~~D~~~   92 (98)
T 3gwk_C           13 LRSSAQKYTAGSQQVTEVLNLLTQEQAVIDENWDGSTFDSFEAQFNELSPKITEFAQLLEDINQQLLKVADIIEQTDADI   92 (98)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHBCSSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444444444444443            3444555666666666666666666666666666666655


Q ss_pred             H
Q 020255          205 I  205 (328)
Q Consensus       205 ~  205 (328)
                      .
T Consensus        93 A   93 (98)
T 3gwk_C           93 A   93 (98)
T ss_dssp             H
T ss_pred             H
Confidence            4

>3zx6_A HAMP, methyl-accepting chemotaxis protein I; signaling, HAMP domain, TSR receptor, fusion; 2.65A {Archaeoglobus fulgidus}

Probab=80.02  E-value=38  Score=31.41  Aligned_cols=15  Identities=20%  Similarity=0.251  Sum_probs=7.3

Q ss_pred             HHHHHHHHHHHhhcc
Q 020255          216 LGVKKLCDRARELEN  230 (328)
Q Consensus       216 ~GV~~LC~f~~~~~~  230 (328)
                      .....|-+.+..++.
T Consensus       283 ~~~~~l~~~a~~L~~  297 (341)
T 3zx6_A          283 AAAAALEEQASRLTE  297 (341)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            344455555555444

---

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	328
d1lvfa_	106	Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicu	87.79

>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=87.79  E-value=0.45  Score=36.42  Aligned_cols=62  Identities=18%  Similarity=0.213  Sum_probs=44.6

Q ss_pred             hhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchh
Q 020255          122 TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSK  184 (328)
Q Consensus       122 TKRnMsnAvasvtKqLeqVs~sLaaaKrhLsqRId~vD~klDeq~eis~~i~~eV~~v~~dls  184 (328)
                      +++-|.++|.++-.+|+.+.+++..+.++ -.|-.-=+..++.-....+.++++|..++..+.
T Consensus        43 ~~~eL~~~l~siewdL~dLe~av~~ve~n-p~kf~l~~~ei~~Rr~fi~~~~~~I~~~~~~l~  104 (106)
T d1lvfa_          43 TTNELRNNLRSIEWDLEDLDETISIVEAN-PRKFNLDATELSIRKAFITSTRQIVRDMKDQMS  104 (106)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSS-GGGGTCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHhC-HHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            57889999999999999999999988776 233321133466666677777777776666543