Citrus Sinensis ID: 021664

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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-------31
Protein Sequence
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRSGSLHPLPLEPPSPSXXXXXXXIPMDLIRNYQIFIFWGSSALLVIIFKSQ
Secondary Structure (PSIPRED)
cccccccEEEEEccccccEEEccccccHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHccccccEEEEcccccccccEEHHHHHEEEEcEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccHHcccEEEEEEccccEEEEEEccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEEEccHHHHHHEcccccccHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEccccccccEEEEEEEEHHHHHEEEEcccccccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHccccccccccccccccccccccccccccccccccccccccHHHcccccHHHccEEEEEEccHHHHHHEEccc
Coil and Loop (DISEMBL)
MALTFGKLTFLVGAGILTSVLakegrlssvsdavgGTLKIVSKLikqddpgpsdrKLFNDLLAEVSSVQQELshvprsviietssgsgtgakkYGVIVVIVAVGYGYVwwkgwklpdmmfATRRSLSDACNSVARQLEDVYSSISAAQRQLSSkitsvdrdvNKIVEISQATQEEVTILRGrskligdefQSVRDIVQTLESKLIEIegkqdittLGVKKLCDRArelengrptelvqasrytlsrttlelpgitpssrsgslhplpleppspsxxxxxxXIPMDLIRNYQIFIFWGSSALLVIIFKSQ
Flexible Loop (DISEMBL)
maltfgkltflVGAGILTSVLAKegrlssvsdavggTLKIVSklikqddpgpSDRKLFNDLLAEVSSVqqelshvprsviietssgsgtgakkyGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQrqlsskitsvdrdvNKIVeisqatqeevtilrgrskligdefqSVRDIVQTLESKlieiegkqdittlgVKKLCDRarelengrptelvqasrytlsrttlelpgitpssrsgslhpLPLEPPSPSXXXXXXXIPMDLIRNYQIFIFWGSSALLVIIFKSQ
Low Complexity Region (SEG)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTgakkygvivvivavgygyvWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRSGslhplpleppspsxxxxxxxipMDLIRNYQIFIFWGSSALLVIIFKSQ
Disordered region (IsUnstruct)
**LTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLI***************LL***************SVIIE******TGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSI*************VDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRA******************************************************XXIPMDLIRNYQIFIFWGSSALLVIIF***
Disordered Region (DISOPRED)
***TFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGG**************************AEVSSVQQE********************KKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNK************TILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDR*********************************************************IPMDLIRNYQIFIFWGSSALLVIIFKS*
Disordered Region (DISEMBL)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRSGSLHPLPLEPPSPSXXXXXXXIPMDLIRNYQIFIFWGSSALLVIIFKSQ
Disordered Region (DISPRO)
**LTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIK********RKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELE***************************************************XIPMDLIRNYQIFIFWGSSALLVIIFKSQ
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALTFGKLTFLVGAGILTSVLAKEGRLSSVSDAVGGTLKIVSKLIKQDDPGPSDRKLFNDLLAEVSSVQQELSHVPRSVIIETSSGSGTGAKKYGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELENGRPTELVQASRYTLSRTTLELPGITPSSRSGSLHPLPLEPPSPSXXXXXXXIPMDLIRNYQIFIFWGSSALLVIIFKSQ
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	309
225425366	360	PREDICTED: uncharacterized protein LOC10	0.857	0.736	0.575	3e-65
326417169	360	B-zip transcription factor [Vitis pseudo	0.857	0.736	0.575	4e-65
289466339	360	B-zip transcription factor [Vitis pseudo	0.857	0.736	0.575	1e-64
297738479	361	unnamed protein product [Vitis vinifera]	0.857	0.734	0.573	8e-64
397746441	362	bZIP9 [Tamarix hispida]	0.880	0.751	0.510	7e-62
449445554	366	PREDICTED: uncharacterized protein LOC10	0.834	0.704	0.538	2e-60
224072554	363	predicted protein [Populus trichocarpa]	0.773	0.658	0.572	5e-58
255578294	368	DNA binding protein, putative [Ricinus c	0.776	0.652	0.533	1e-57
407970990	349	bZIP transcription factor bZIP56 precurs	0.922	0.816	0.467	2e-55
255580725	290	DNA binding protein, putative [Ricinus c	0.682	0.727	0.558	1e-54

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

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

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

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

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

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

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

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  254 bits (648), Expect = 4e-65,   Method: Compositional matrix adjust.
 Identities = 153/266 (57%), Positives = 188/266 (70%), Gaps = 1/266 (0%)

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

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

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

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

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

Source: Vitis pseudoreticulata

Species: Vitis pseudoreticulata

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  252 bits (644), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 153/266 (57%), Positives = 188/266 (70%), Gaps = 1/266 (0%)

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

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

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

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

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

Source: Vitis pseudoreticulata

Species: Vitis pseudoreticulata

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  249 bits (637), Expect = 8e-64,   Method: Compositional matrix adjust.
 Identities = 153/267 (57%), Positives = 188/267 (70%), Gaps = 2/267 (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 SRYTLSRTTLELPGITPSSR-SGSLHP 265
           S  +  R  LEL   TP  R + SL P
Sbjct: 241 SPSSSFRPALELRQTTPPLRQTESLPP 267

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  243 bits (621), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 143/280 (51%), Positives = 189/280 (67%), Gaps = 8/280 (2%)

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

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

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

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

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

Source: Tamarix hispida

Species: Tamarix hispida

Genus: Tamarix

Family: Tamaricaceae

Order: Caryophyllales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  238 bits (607), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 140/260 (53%), Positives = 182/260 (70%), Gaps = 2/260 (0%)

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

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

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

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

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

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  230 bits (587), Expect = 5e-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 (583), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 129/242 (53%), Positives = 158/242 (65%), Gaps = 2/242 (0%)

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

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

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

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

Query: 239 AS 240
           AS
Sbjct: 241 AS 242

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

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

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

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

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

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

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

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|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	309
TAIR|locus:1005716745	344	AT1G24267 "AT1G24267" [Arabido	0.828	0.744	0.450	2.1e-45
TAIR|locus:2010602	334	AT1G04960 "AT1G04960" [Arabido	0.715	0.661	0.254	3.5e-20
TAIR|locus:2205734	304	AT1G27000 "AT1G27000" [Arabido	0.669	0.680	0.240	2.5e-17
TAIR|locus:2058832	276	AT2G02730 "AT2G02730" [Arabido	0.757	0.847	0.225	7.7e-16

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

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

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

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

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

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

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

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

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

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

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

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

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

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

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

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

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

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

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

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

GO:0003677 "DNA binding" evidence=ISS

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

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

 Score = 198 (74.8 bits), Expect = 7.7e-16, P = 7.7e-16
 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        0.316   0.131   0.362    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      309       268   0.00096  114 3  11 22  0.37    34
                                                     32  0.39    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:  582 (62 KB)
  Total size of DFA:  156 KB (2094 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:  21.96u 0.09s 22.05t   Elapsed:  00:00:01
  Total cpu time:  21.97u 0.09s 22.06t   Elapsed:  00:00:01
  Start:  Fri May 10 05:59:09 2013   End:  Fri May 10 05:59:10 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	309
pfam07889	125	pfam07889, DUF1664, Protein of unknown function (D	3e-47

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

 Score =  154 bits (392), Expect = 3e-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	309
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	100.0
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	96.97
PRK10884	206	SH3 domain-containing protein; Provisional	96.02
PF04375	372	HemX: HemX; InterPro: IPR007470 The majority of pr	95.93
KOG2629	300	consensus Peroxisomal membrane anchor protein (per	95.33
PF01519	102	DUF16: Protein of unknown function DUF16; InterPro	94.94
PRK15048	553	methyl-accepting chemotaxis protein II; Provisiona	94.85
PF14712	92	Snapin_Pallidin: Snapin/Pallidin	93.85
PF00038	312	Filament: Intermediate filament protein; InterPro:	93.69
PHA02562	562	46 endonuclease subunit; Provisional	93.41
PRK10920	390	putative uroporphyrinogen III C-methyltransferase;	93.29
PRK11637	428	AmiB activator; Provisional	93.22
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	93.18
PRK13729	475	conjugal transfer pilus assembly protein TraB; Pro	93.14
PF04582	326	Reo_sigmaC: Reovirus sigma C capsid protein; Inter	92.76
PF07889	126	DUF1664: Protein of unknown function (DUF1664); In	92.15
PF10158	131	LOH1CR12: Tumour suppressor protein; InterPro: IPR	92.12
PRK11637	428	AmiB activator; Provisional	91.97
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	91.04
PF07798	177	DUF1640: Protein of unknown function (DUF1640); In	91.01
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	90.67
PF06419	618	COG6: Conserved oligomeric complex COG6; InterPro:	90.49
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	90.3
PF13747	89	DUF4164: Domain of unknown function (DUF4164)	90.16
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	89.52
PF00015	213	MCPsignal: Methyl-accepting chemotaxis protein (MC	89.27
PF11932	251	DUF3450: Protein of unknown function (DUF3450); In	89.24
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	89.02
PRK06975	656	bifunctional uroporphyrinogen-III synthetase/uropo	88.11
PF10046	99	BLOC1_2: Biogenesis of lysosome-related organelles	88.1
PF10146	230	zf-C4H2: Zinc finger-containing protein ; InterPro	88.06
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	87.51
PF01442	202	Apolipoprotein: Apolipoprotein A1/A4/E domain; Int	87.49
PF05478	806	Prominin: Prominin; InterPro: IPR008795 The promin	87.48
PF05816	333	TelA: Toxic anion resistance protein (TelA); Inter	87.39
PF04513	140	Baculo_PEP_C: Baculovirus polyhedron envelope prot	86.94
PRK04778	569	septation ring formation regulator EzrA; Provision	86.7
PHA02562	562	46 endonuclease subunit; Provisional	86.48
COG3883	265	Uncharacterized protein conserved in bacteria [Fun	86.3
TIGR02132	189	phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR	85.92
PF10018	188	Med4: Vitamin-D-receptor interacting Mediator subu	85.7
PF05531	75	NPV_P10: Nucleopolyhedrovirus P10 protein; InterPr	85.58
PRK10884	206	SH3 domain-containing protein; Provisional	85.17
TIGR00293	126	prefoldin, archaeal alpha subunit/eukaryotic subun	84.82
PF10241	88	KxDL: Uncharacterized conserved protein; InterPro:	84.73
PRK15048	553	methyl-accepting chemotaxis protein II; Provisiona	84.47
PF10498	359	IFT57: Intra-flagellar transport protein 57 ; Inte	84.45
COG4942	420	Membrane-bound metallopeptidase [Cell division and	84.26
PF04100	383	Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007	83.99
smart00283	262	MA Methyl-accepting chemotaxis-like domains (chemo	83.93
PF00261	237	Tropomyosin: Tropomyosin; InterPro: IPR000533 Trop	83.7
PRK09039	343	hypothetical protein; Validated	83.69
PF10805	106	DUF2730: Protein of unknown function (DUF2730); In	83.67
PRK04778	569	septation ring formation regulator EzrA; Provision	83.52
PRK13182	175	racA polar chromosome segregation protein; Reviewe	82.7
PF04380	79	BMFP: Membrane fusogenic activity; InterPro: IPR00	82.15
smart00806	426	AIP3 Actin interacting protein 3. Aip3p/Bud6p is a	82.06
PF06103	90	DUF948: Bacterial protein of unknown function (DUF	82.06
PRK04406	75	hypothetical protein; Provisional	81.87
PF09730	717	BicD: Microtubule-associated protein Bicaudal-D; I	81.84
PF05739	63	SNARE: SNARE domain; InterPro: IPR000727 The proce	81.74
PF09177	97	Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IP	81.66
PRK11166	214	chemotaxis regulator CheZ; Provisional	81.63
PF10186	302	Atg14: UV radiation resistance protein and autopha	81.51
PF08614	194	ATG16: Autophagy protein 16 (ATG16); InterPro: IPR	81.45
PF10168	717	Nup88: Nuclear pore component; InterPro: IPR019321	81.05
PF04102	69	SlyX: SlyX; InterPro: IPR007236 The SlyX protein h	80.75
smart00283	262	MA Methyl-accepting chemotaxis-like domains (chemo	80.4
PF05791	184	Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL	80.38

>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=6.3e-59  Score=393.18  Aligned_cols=120  Identities=48%  Similarity=0.775  Sum_probs=116.5

Q ss_pred             chhHH-HHHHhhhheeeEEecccCcCcchhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHH
Q 021664           92 KKYGV-IVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQ  170 (309)
Q Consensus        92 ~~y~l-~a~iGavGYgYmwWKGws~SDlMfVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~  170 (309)
                      +.|++ +|++||+|||||||||||||||||||||||+|||++|+|||||||++|++|||||+||||+||+|||+|+|+++
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            34455 68999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 021664          171 ATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (309)
Q Consensus       171 ~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (309)
                      +|++||+++|+|+++|++|+++||++|++||+||++||+||
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=96.97  E-value=0.0016  Score=53.72  Aligned_cols=88  Identities=17%  Similarity=0.329  Sum_probs=45.6

Q ss_pred             hHHHHHHhhhheeeEEecccCcCcchhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHH-
Q 021664           94 YGVIVVIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQAT-  172 (309)
Q Consensus        94 y~l~a~iGavGYgYmwWKGws~SDlMfVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i-  172 (309)
                      ++++.++.+++|+++||+   ++- =||+|..+..                      |.+|+++.|.++++...-.+.+ 
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            445555556777777774   222 3677655543                      3333334444444444434444 


Q ss_pred             -HHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          173 -QEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       173 -~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                       ++||..++..++++.+|++.+...+++++..++.+
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             55555555555555555555555555554444443

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

>PRK10884 SH3 domain-containing protein; Provisional

Probab=96.02  E-value=0.23  Score=45.72  Aligned_cols=99  Identities=13%  Similarity=0.246  Sum_probs=74.0

Q ss_pred             heeeEEe----cccCcCcchhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          104 GYGYVWW----KGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (309)
Q Consensus       104 GYgYmwW----KGws~SDlMfVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v  179 (309)
                      ||.+++-    .|| +.+=+-.+..++..-+..+-++|+++.+.|+.+...+.+|-..+..++++.......+++|-..+
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    388 55555566778999999999999999999999999999999999888888766666666665555


Q ss_pred             hhchhhhhhhHHHHHHHHHHHHHHHHHhhhh
Q 021664          180 RGRSKLIGDEFQSVRDIVQTLESKLIEIEGK  210 (309)
Q Consensus       180 ~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~k  210 (309)
                      +       .+++..+.-++.|+.+++.+..+
T Consensus       145 ~-------~~l~~~~~~~~~l~~~~~~~~~~  168 (206)
T PRK10884        145 K-------NQLIVAQKKVDAANLQLDDKQRT  168 (206)
T ss_pred             H-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence            4       44555666666666666666644

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

Probab=95.93  E-value=0.081  Score=51.98  Aligned_cols=10  Identities=40%  Similarity=0.956  Sum_probs=7.4

Q ss_pred             hhhheeeEEe
Q 021664          101 VAVGYGYVWW  110 (309)
Q Consensus       101 GavGYgYmwW  110 (309)
                      .++|+||.||
T Consensus        41 ~alg~~~~~~   50 (372)
T PF04375_consen   41 LALGAGGWYW   50 (372)
T ss_pred             HHHHHHHHHH
Confidence            5678887767

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=95.33  E-value=0.069  Score=51.99  Aligned_cols=71  Identities=17%  Similarity=0.420  Sum_probs=36.4

Q ss_pred             hhHH-HHHHhhhhee-eEEecccCcCcchhhhhhh--------HHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhH
Q 021664           93 KYGV-IVVIVAVGYG-YVWWKGWKLPDMMFATRRS--------LSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDV  162 (309)
Q Consensus        93 ~y~l-~a~iGavGYg-YmwWKGws~SDlMfVTKRn--------ms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~kl  162 (309)
                      -|++ +++.+++-|+ |-.||-| +-=+||.-.++        |.+=...+.|-+.++-+.++..++.++..-+.++..|
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 4455566774 7889998 44455654444        3333444444444444444444444444333333333


Q ss_pred             HH
Q 021664          163 NK  164 (309)
Q Consensus       163 de  164 (309)
                      ++
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=94.94  E-value=0.19  Score=42.33  Aligned_cols=82  Identities=17%  Similarity=0.264  Sum_probs=46.5

Q ss_pred             hhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHH
Q 021664          119 MFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQ  198 (309)
Q Consensus       119 MfVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~  198 (309)
                      =|||++-+...=.+--.-|..+-..+...  ....+|+-|..+.+.|-|-++..+.++.       .-|.-++.|-....
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            39999998866544444455555444432  3445555555555555555555555554       44555666666777


Q ss_pred             HHHHHHHHhhh
Q 021664          199 TLESKLIEIEG  209 (309)
Q Consensus       199 ~Le~Ki~~ie~  209 (309)
                      .+..+||+||+
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.

>PRK15048 methyl-accepting chemotaxis protein II; Provisional

Probab=94.85  E-value=1.6  Score=43.96  Aligned_cols=31  Identities=26%  Similarity=0.272  Sum_probs=20.2

Q ss_pred             cceeccccCcccccccCCCCCCCCCCCCCCC
Q 021664          235 ELVQASRYTLSRTTLELPGITPSSRSGSLHP  265 (309)
Q Consensus       235 ~~~Q~~~~~s~~~ale~~~~~p~sr~~slpp  265 (309)
                      .-++..++.|.+|+=|+||.-|-.|..--.|
T Consensus       518 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  548 (553)
T PRK15048        518 SPLTNKPQTPSRPASEQPPAQPRLRIAEQDP  548 (553)
T ss_pred             CcccccccccccccccCCccCccCCcCCCCC
Confidence            3345567777888888877776666554433

>PF14712 Snapin_Pallidin: Snapin/Pallidin

Probab=93.85  E-value=1  Score=35.34  Aligned_cols=72  Identities=13%  Similarity=0.237  Sum_probs=57.3

Q ss_pred             hHHHHHHH---HHHHHHHHHHhHhhhhhhHHHHHHHHHHH--HHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhh
Q 021664          136 QLEDVYSS---ISAAQRQLSSKITSVDRDVNKIVEISQAT--QEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIE  208 (309)
Q Consensus       136 qLeqVs~s---L~~aKrhLsqRI~~vD~klde~~eis~~i--~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie  208 (309)
                      .|+++.+.   +.....+|..+|+++..+|+++.++....  -+.+. -..++.+|..+|.+++..+..|..|+..++
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   45567799999999999999999966544  34444 888999999999999999999999998875

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

Probab=93.69  E-value=2.7  Score=39.35  Aligned_cols=92  Identities=24%  Similarity=0.259  Sum_probs=78.3

Q ss_pred             hHHHHHHHHHHhHH-HHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHH
Q 021664          125 SLSDACNSVARQLE-DVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESK  203 (309)
Q Consensus       125 nms~Av~sv~KqLe-qVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~K  203 (309)
                      .|++|...|-.|-+ .+...-..+......+++.+........+.....++|+.+++..+.....++++++.....||..
T Consensus       166 dL~~~L~eiR~~ye~~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~  245 (312)
T PF00038_consen  166 DLSAALREIRAQYEEIAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAKNASLERQ  245 (312)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhhhHHHHHHHHHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccchhhhhhh
Confidence            38899999988877 44556668888999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhhhhhHhH
Q 021664          204 LIEIEGKQDITTL  216 (309)
Q Consensus       204 i~~ie~kQd~Tn~  216 (309)
                      |..++..-+....
T Consensus       246 l~~le~~~~~~~~  258 (312)
T PF00038_consen  246 LRELEQRLDEERE  258 (312)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9988865444433

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=93.41  E-value=0.95  Score=45.35  Aligned_cols=87  Identities=11%  Similarity=0.181  Sum_probs=64.2

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 021664          132 SVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (309)
Q Consensus       132 sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (309)
                      .+..++++....+...++.+...|+.+..++++.....+.++.++..++.++.+++.+++.....+..++.++..++.+-
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            33334444445555566666677888888888888888889999999999999999888888888888888888777665


Q ss_pred             hhHhHHH
Q 021664          212 DITTLGV  218 (309)
Q Consensus       212 d~Tn~GV  218 (309)
                      +.....+
T Consensus       272 ~~~~~~~  278 (562)
T PHA02562        272 EQFQKVI  278 (562)
T ss_pred             HHHHHHH
Confidence            5444433

>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional

Probab=93.29  E-value=1.4  Score=44.41  Aligned_cols=22  Identities=18%  Similarity=0.302  Sum_probs=11.9

Q ss_pred             CCCchhHH--HHHHhhhheeeEEe
Q 021664           89 TGAKKYGV--IVVIVAVGYGYVWW  110 (309)
Q Consensus        89 ~gg~~y~l--~a~iGavGYgYmwW  110 (309)
                      .+|..+++  ++++-++|+||-||
T Consensus        34 ~~g~~l~~~aili~la~g~g~y~~   57 (390)
T PRK10920         34 RTGLVLSAVAIAIALAAGAGLYYH   57 (390)
T ss_pred             CccHHHHHHHHHHHHHHhhHHHHH
Confidence            34454444  23334777777666

>PRK11637 AmiB activator; Provisional

Probab=93.22  E-value=1.2  Score=44.09  Aligned_cols=81  Identities=11%  Similarity=0.154  Sum_probs=47.4

Q ss_pred             hHHHHHHHHHHhHHHHHHHHH---HHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHH
Q 021664          125 SLSDACNSVARQLEDVYSSIS---AAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLE  201 (309)
Q Consensus       125 nms~Av~sv~KqLeqVs~sL~---~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le  201 (309)
                      ...+=...+-+++++....+.   ..++++.+.|+.++.++++..+-...++.++..+..+++....++...+.-+..++
T Consensus        44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~  123 (428)
T PRK11637         44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQE  123 (428)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444445555555555444   33444556666667766666666666666666666666666666666666555555


Q ss_pred             HHHH
Q 021664          202 SKLI  205 (309)
Q Consensus       202 ~Ki~  205 (309)
                      ..+.
T Consensus       124 ~~l~  127 (428)
T PRK11637        124 RLLA  127 (428)
T ss_pred             HHHH
Confidence            5443

>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=93.18  E-value=2.2  Score=39.42  Aligned_cols=78  Identities=17%  Similarity=0.219  Sum_probs=59.1

Q ss_pred             HhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhh
Q 021664          135 RQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQD  212 (309)
Q Consensus       135 KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd  212 (309)
                      .++.++......+.++..+||++.++.-++..+-.++.++|+..++.-.++...-+++.+.-+..|+.+++.++..+.
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            344555555666777888888888888888888888888888888887777777777777777777777777775543

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.

>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional

Probab=93.14  E-value=1.6  Score=45.27  Aligned_cols=51  Identities=6%  Similarity=0.090  Sum_probs=24.1

Q ss_pred             hHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 021664          161 DVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (309)
Q Consensus       161 klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (309)
                      +|.++++-.+++++++..+|.+++.+....+..++.++.||..+.+++..+
T Consensus        70 ALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql  120 (475)
T PRK13729         70 ATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV  120 (475)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555544444333333444444445555555554443

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

Probab=92.76  E-value=0.14  Score=50.47  Aligned_cols=88  Identities=17%  Similarity=0.246  Sum_probs=32.8

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHH---HHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHH
Q 021664          124 RSLSDACNSVARQLEDVYSSISAAQ---RQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTL  200 (309)
Q Consensus       124 Rnms~Av~sv~KqLeqVs~sL~~aK---rhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~L  200 (309)
                      .+|+.++.++...|..++..|++-+   .+|+..|..+...+.+.......++..|..+..|+.+.+.||-...-.|..|
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            3455555555555555555554444   3566777777777777888888888888888888888888888888888888


Q ss_pred             HHHHHHhhhhh
Q 021664          201 ESKLIEIEGKQ  211 (309)
Q Consensus       201 e~Ki~~ie~kQ  211 (309)
                      |.|+..+|...
T Consensus       146 e~RV~~LEs~~  156 (326)
T PF04582_consen  146 ESRVKALESGS  156 (326)
T ss_dssp             HHHHHHHHTTT
T ss_pred             HHHHHHHhcCC
Confidence            88888888653

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.

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

Probab=92.15  E-value=2.6  Score=36.52  Aligned_cols=38  Identities=16%  Similarity=0.336  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHH
Q 021664          140 VYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVT  177 (309)
Q Consensus       140 Vs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~  177 (309)
                      +++-+=.|||.|+.=...|..+||+.-|-...+|++++
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            45555667777777777777777776666666666654

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

>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=92.12  E-value=3.3  Score=35.92  Aligned_cols=50  Identities=20%  Similarity=0.399  Sum_probs=42.7

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHH
Q 021664          124 RSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQ  173 (309)
Q Consensus       124 Rnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~  173 (309)
                      |.+-+-|.-...||.+-.+.++....+|.+||-.+|..+....+...+-+
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=91.97  E-value=1.4  Score=43.65  Aligned_cols=78  Identities=13%  Similarity=0.187  Sum_probs=43.6

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHH---HhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          131 NSVARQLEDVYSSISAAQRQLS---SKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       131 ~sv~KqLeqVs~sL~~aKrhLs---qRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                      +.+-++|+++...+...++.+.   .++..+..++++..+-...+.+++.+++.+++.+..+++.++.-+..++.+|+..
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            3455666666666655555555   5555555555555555555555555555555555555555555555555555554


Q ss_pred             h
Q 021664          208 E  208 (309)
Q Consensus       208 e  208 (309)
                      +
T Consensus       123 ~  123 (428)
T PRK11637        123 E  123 (428)
T ss_pred             H
Confidence            4

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

Probab=91.04  E-value=3.9  Score=35.55  Aligned_cols=63  Identities=16%  Similarity=0.222  Sum_probs=53.2

Q ss_pred             HHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhh
Q 021664          150 QLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQD  212 (309)
Q Consensus       150 hLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd  212 (309)
                      .|+.||+-|...||+...--+.+.+.+.++....+++..-+..+..-...+|.|++.++.+-.
T Consensus        77 ~l~rriq~LEeele~ae~~L~e~~ekl~e~d~~ae~~eRkv~~le~~~~~~E~k~eel~~k~~  139 (143)
T PF12718_consen   77 QLNRRIQLLEEELEEAEKKLKETTEKLREADVKAEHFERKVKALEQERDQWEEKYEELEEKYK  139 (143)
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            477888888888888888888888888888888888888888888888888888888887643

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 [].

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

Probab=91.01  E-value=10  Score=33.62  Aligned_cols=97  Identities=21%  Similarity=0.313  Sum_probs=51.4

Q ss_pred             hhhhhhHHHHHHHHHHhHHHHHHHHHHHHHH----HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchh-hhhhhHHHHH
Q 021664          120 FATRRSLSDACNSVARQLEDVYSSISAAQRQ----LSSKITSVDRDVNKIVEISQATQEEVTILRGRSK-LIGDEFQSVR  194 (309)
Q Consensus       120 fVTKRnms~Av~sv~KqLeqVs~sL~~aKrh----LsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~-~ig~Dv~~v~  194 (309)
                      +|||..+.+..-..-..+.++-..+...+|+    |....+.|...+|..   ...+++|+..++.++. .|..+=..++
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    333333444433333   2345555555544332 1111122444


Q ss_pred             HHHHHHHHHHHHhhhhhhhHhHHHH
Q 021664          195 DIVQTLESKLIEIEGKQDITTLGVK  219 (309)
Q Consensus       195 ~~V~~Le~Ki~~ie~kQd~Tn~GV~  219 (309)
                      .....+|.||.+++.+-+....++.
T Consensus       120 ~e~~~~~~ki~e~~~ki~~ei~~lr  144 (177)
T PF07798_consen  120 EEQAKQELKIQELNNKIDTEIANLR  144 (177)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555554444443

>smart00502 BBC B-Box C-terminal domain

Probab=90.67  E-value=3.5  Score=32.46  Aligned_cols=31  Identities=23%  Similarity=0.281  Sum_probs=20.5

Q ss_pred             hhHhHHHHHHHHHHHhhcc-CCCccceecccc
Q 021664          212 DITTLGVKKLCDRARELEN-GRPTELVQASRY  242 (309)
Q Consensus       212 d~Tn~GV~~LC~f~~~~~~-~~~~~~~Q~~~~  242 (309)
                      ......+..+|.|++..-. +...+++|..+.
T Consensus        85 ~~~l~~l~~~~~~~e~~l~~~~~~e~L~~~~~  116 (127)
T smart00502       85 TQKQEKLSHAINFTEEALNSGDPTELLLSKKL  116 (127)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCChHHHHHHHH
Confidence            3456778888998876544 455677775543

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

>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=90.49  E-value=2.4  Score=44.62  Aligned_cols=86  Identities=17%  Similarity=0.309  Sum_probs=66.4

Q ss_pred             cCcchhh----hhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhH
Q 021664          115 LPDMMFA----TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEF  190 (309)
Q Consensus       115 ~SDlMfV----TKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv  190 (309)
                      +++..|+    |||||...++   +.+=.....+-+.=+.+..+|+++...++++++.-..|.+.+...+.+...+-.++
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    8999986554   55556666666777788889999999999999999999999999988887777777


Q ss_pred             HHHHHHHHHHHHH
Q 021664          191 QSVRDIVQTLESK  203 (309)
Q Consensus       191 ~~v~~~V~~Le~K  203 (309)
                      +.++.--..+|.|
T Consensus        83 ~~L~~~~~~~~~k   95 (618)
T PF06419_consen   83 SELREQKEELELK   95 (618)
T ss_pred             HHHHHHHHHHHHH
Confidence            7777444444433

>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=90.30  E-value=10  Score=32.58  Aligned_cols=15  Identities=7%  Similarity=0.337  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHHHhcC
Q 021664           61 LLAEVSSVQQELSHV   75 (309)
Q Consensus        61 L~aQV~~LaqEl~~L   75 (309)
                      +...++.++++.+.|
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            777777778887777

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=90.16  E-value=3.8  Score=33.21  Aligned_cols=81  Identities=12%  Similarity=0.168  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHH
Q 021664          141 YSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKK  220 (309)
Q Consensus       141 s~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~  220 (309)
                      ..+|.++-++|.+.|++|+..++...+.....    .++...+..++.|-..+-+-..+.+.+...+|..|.-.-..+..
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            45666777777777777777777766644433    44455556666666666666666667777777766666665555


Q ss_pred             HHHHH
Q 021664          221 LCDRA  225 (309)
Q Consensus       221 LC~f~  225 (309)
                      ..+-+
T Consensus        79 a~e~I   83 (89)
T PF13747_consen   79 AIETI   83 (89)
T ss_pred             HHHHH
Confidence            54444

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

Probab=89.52  E-value=4.7  Score=45.43  Aligned_cols=98  Identities=15%  Similarity=0.207  Sum_probs=79.1

Q ss_pred             HHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhhh
Q 021664          134 ARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDI  213 (309)
Q Consensus       134 ~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~  213 (309)
                      -+..++.-+.+...=+...+++...+.|+-+..+-.+.+++|++.-.+.++.+..|++..+..+..++.++.+++..-+-
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            34445555555555556667777777888888888888899999999999999999999999999999999999998888


Q ss_pred             HhHHHHHHHHHHHhhccC
Q 021664          214 TTLGVKKLCDRARELENG  231 (309)
Q Consensus       214 Tn~GV~~LC~f~~~~~~~  231 (309)
                      .-.-+++||.-+..++..
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=89.27  E-value=13  Score=31.88  Aligned_cols=27  Identities=7%  Similarity=0.164  Sum_probs=9.9

Q ss_pred             HhhhchhhhhhhHHHHHHHHHHHHHHH
Q 021664          178 ILRGRSKLIGDEFQSVRDIVQTLESKL  204 (309)
Q Consensus       178 ~v~~dl~~ig~Dv~~v~~~V~~Le~Ki  204 (309)
                      +....+..|...++.+...+..+...+
T Consensus       132 ~~~~~l~~i~~~~~~i~~~i~~i~~~~  158 (213)
T PF00015_consen  132 ETSESLEEIAESVEEISDSIEEISESA  158 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcchhhhhhhhhhhHHhhhhHHHHhhH
Confidence            333333333333333333333333333

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=89.24  E-value=6.6  Score=36.36  Aligned_cols=78  Identities=9%  Similarity=0.184  Sum_probs=60.9

Q ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          130 CNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       130 v~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                      .....++..+--+.+...|+.|.++|+.+...++....-.+..++.|...+..+..+..+++++..+-..|..=|.++
T Consensus        33 ~~~~~~~sQ~~id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m  110 (251)
T PF11932_consen   33 WVQAAQQSQKRIDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQM  110 (251)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334455666667778888999999999999999988888888888888888888888888888887666665544433

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=89.02  E-value=3.9  Score=32.14  Aligned_cols=20  Identities=20%  Similarity=0.343  Sum_probs=9.3

Q ss_pred             hhHHHHHHHHHHHHHHHHHh
Q 021664          188 DEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       188 ~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                      +.++.+-+.|..++..+.++
T Consensus        68 ~~v~~~~~~v~~~g~~v~~l   87 (90)
T PF06103_consen   68 EKVDPVFEAVADLGESVSEL   87 (90)
T ss_pred             HhHHHHHHHHHHHHHHHHHH
Confidence            33444444455555444443

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

Probab=88.11  E-value=3.3  Score=43.89  Aligned_cols=39  Identities=21%  Similarity=0.228  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          141 YSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (309)
Q Consensus       141 s~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v  179 (309)
                      ......+.+.+.+|+..++.++.+...-+.+++..+.++
T Consensus       373 ~~~~~~~~~~~~~~l~~le~~l~~~~~~~~~L~~~~~~l  411 (656)
T PRK06975        373 TEQAQASVHQLDSQFAQLDGKLADAQSAQQALEQQYQDL  411 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445556677777777777766666666666555544

>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=88.10  E-value=10  Score=30.86  Aligned_cols=68  Identities=13%  Similarity=0.117  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhh---hHHHHHHHHHHHHHHHHHhhhh
Q 021664          143 SISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGD---EFQSVRDIVQTLESKLIEIEGK  210 (309)
Q Consensus       143 sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~---Dv~~v~~~V~~Le~Ki~~ie~k  210 (309)
                      -|...-+..+.|...+++.......-.+..+....+++.-+.+|..   .|..+-.+|..||.=..++|.|
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            3445555566666666666666666666666666666655555554   6666777777776666666654

>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=88.06  E-value=24  Score=33.30  Aligned_cols=67  Identities=13%  Similarity=0.093  Sum_probs=33.0

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHHHHH
Q 021664          160 RDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRAR  226 (309)
Q Consensus       160 ~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~f~~  226 (309)
                      .-|.|...-......|=...-+.|-+|..|+..+..++..++.--.+.+.+=...-..+.-|=+++.
T Consensus        32 ~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in   98 (230)
T PF10146_consen   32 KCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEIN   98 (230)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444554444445555444455556666666666666655555444444433333333333434443

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.

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

Probab=87.51  E-value=12  Score=32.78  Aligned_cols=8  Identities=13%  Similarity=0.422  Sum_probs=3.2

Q ss_pred             HHHHHHHH
Q 021664          219 KKLCDRAR  226 (309)
Q Consensus       219 ~~LC~f~~  226 (309)
                      .+|++.++
T Consensus       175 ~~l~~~~~  182 (191)
T PF04156_consen  175 QQLEEKIQ  182 (191)
T ss_pred             HHHHHHHH
Confidence            33444433

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=87.49  E-value=11  Score=31.52  Aligned_cols=19  Identities=21%  Similarity=0.398  Sum_probs=8.1

Q ss_pred             HHHHHHHHHHhHHHHHHHH
Q 021664          126 LSDACNSVARQLEDVYSSI  144 (309)
Q Consensus       126 ms~Av~sv~KqLeqVs~sL  144 (309)
                      |.+.+..+..+++.+.+.|
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 ....

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

Probab=87.48  E-value=6  Score=42.81  Aligned_cols=33  Identities=15%  Similarity=0.285  Sum_probs=23.8

Q ss_pred             HHHHHHhHHHHHHH-HHHHHHHHHHhHhhhhhhH
Q 021664          130 CNSVARQLEDVYSS-ISAAQRQLSSKITSVDRDV  162 (309)
Q Consensus       130 v~sv~KqLeqVs~s-L~~aKrhLsqRI~~vD~kl  162 (309)
                      ++++.+|+++|-.. ...++.|+...|++.+..+
T Consensus       189 l~~~~~qi~~l~~~ny~~~~~~v~~~L~~~~~~l  222 (806)
T PF05478_consen  189 LNDTPQQIDHLLVQNYSELKDHVSSDLDNIGSLL  222 (806)
T ss_pred             HHhhHHHHHHHHHHHHHHHHHHHHHHHHhccchh
Confidence            45667777777777 7778888888887776544

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

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

Probab=87.39  E-value=8.3  Score=37.46  Aligned_cols=100  Identities=12%  Similarity=0.164  Sum_probs=74.6

Q ss_pred             hhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhh-------------
Q 021664          122 TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGD-------------  188 (309)
Q Consensus       122 TKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~-------------  188 (309)
                      .-+.+-.=..++..|+|.++..|...+.+|...+..+|.--++..+..+++..-+...+..+..+..             
T Consensus        85 ~~~~~~~ky~sv~~qId~I~~~L~~~~~~L~~d~~~L~~l~~~n~~~~~~L~~~I~ag~~~~~~l~~~~~~~~~~~~~~d  164 (333)
T PF05816_consen   85 SLERYFAKYQSVQSQIDKIIAELESGQDELLRDNAMLDQLYEKNWEYYQELEKYIAAGELKLEELEAELLPALQADAEGD  164 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhccccC
Confidence            3344444568999999999999999999999999999988887777776666555444433333332             


Q ss_pred             -----hHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHH
Q 021664          189 -----EFQSVRDIVQTLESKLIEIEGKQDITTLGVKKL  221 (309)
Q Consensus       189 -----Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~L  221 (309)
                           ....+.+.+..||.|+..++-.+.++..+.--+
T Consensus       165 ~~~~q~~~~~~~~l~~leqRi~DL~~~~~va~Q~~pqi  202 (333)
T PF05816_consen  165 QMDAQELADLEQALFRLEQRIQDLQLSRQVAIQTAPQI  202 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence                 345667788999999999998888887776543

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

>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=86.94  E-value=11  Score=33.35  Aligned_cols=83  Identities=12%  Similarity=0.247  Sum_probs=62.3

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHH-HHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHH
Q 021664          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKI-VEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESK  203 (309)
Q Consensus       125 nms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~-~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~K  203 (309)
                      .++..+..+-.||..+.+.|...-..+..|++.+-..+++. ..+++.+|.|.+.+..++.+.-..|-++......|=..
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 46678888888888888887777777777666655555


Q ss_pred             HHHh
Q 021664          204 LIEI  207 (309)
Q Consensus       204 i~~i  207 (309)
                      +.-+
T Consensus       115 ln~l  118 (140)
T PF04513_consen  115 LNNL  118 (140)
T ss_pred             HHHh
Confidence            5544

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

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=86.70  E-value=14  Score=38.51  Aligned_cols=121  Identities=13%  Similarity=0.271  Sum_probs=73.4

Q ss_pred             hheeeEEecccCcCcchhhhh--------------------hhHHHHHHHHHHhHHHHHHHHH---HHHHHHHHhHhhhh
Q 021664          103 VGYGYVWWKGWKLPDMMFATR--------------------RSLSDACNSVARQLEDVYSSIS---AAQRQLSSKITSVD  159 (309)
Q Consensus       103 vGYgYmwWKGws~SDlMfVTK--------------------Rnms~Av~sv~KqLeqVs~sL~---~aKrhLsqRI~~vD  159 (309)
                      -||-=|-=+|..|.++=.-++                    +.....+..+.+++|++|+.|.   .||+...+....+.
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            355556667888887532222                    2334556677788888888776   46777777777777


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhc----------hhhhhhhHHHHH---------------------HHHHHHHHHHHHhh
Q 021664          160 RDVNKIVEISQATQEEVTILRGR----------SKLIGDEFQSVR---------------------DIVQTLESKLIEIE  208 (309)
Q Consensus       160 ~klde~~eis~~i~~eV~~v~~d----------l~~ig~Dv~~v~---------------------~~V~~Le~Ki~~ie  208 (309)
                      +.++...+-...++.|+..++..          +..+..+++.+.                     .....|..++..++
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          334444444333                     33444555555666


Q ss_pred             hhhhhHhHHHHHHHH
Q 021664          209 GKQDITTLGVKKLCD  223 (309)
Q Consensus       209 ~kQd~Tn~GV~~LC~  223 (309)
                      ..|.--..-+..|+.
T Consensus       397 ~eq~ei~e~l~~Lrk  411 (569)
T PRK04778        397 KEQEKLSEMLQGLRK  411 (569)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            666655555555543

>PHA02562 46 endonuclease subunit; Provisional

Probab=86.48  E-value=11  Score=37.84  Aligned_cols=75  Identities=8%  Similarity=0.187  Sum_probs=33.2

Q ss_pred             HHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHH
Q 021664          131 NSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIE  206 (309)
Q Consensus       131 ~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~  206 (309)
                      +.+.++++.+.+.+...+.... +++.+..++.+........++++.........+..++++++..+..++.++.+
T Consensus       309 ~~l~~~l~~l~~~i~~~~~~~~-~~~~~~~~i~el~~~i~~~~~~i~~~~~~~~~l~~ei~~l~~~~~~~~~~l~~  383 (562)
T PHA02562        309 KELQHSLEKLDTAIDELEEIMD-EFNEQSKKLLELKNKISTNKQSLITLVDKAKKVKAAIEELQAEFVDNAEELAK  383 (562)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhchHHHHHH
Confidence            3344444444444442222221 23333444444444444444445444455555555555555555555554443

>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.30  E-value=5.1  Score=38.76  Aligned_cols=67  Identities=15%  Similarity=0.289  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHH
Q 021664          138 EDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKL  204 (309)
Q Consensus       138 eqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki  204 (309)
                      |.-+..+...++.+...|+.+|.++++...=....++++++.+.++.....||+.+..-+.....++
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            4455666777888888999999999999998899999998888888888888888776655444443

>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit

Probab=85.92  E-value=3.4  Score=38.18  Aligned_cols=57  Identities=16%  Similarity=0.309  Sum_probs=35.7

Q ss_pred             HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          151 LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       151 LsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                      +..|+-+|..|+|.+.|.-..+-+.+.+-++--...+.|+..+.+-+..||.|+|.|
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            445566666666666655555555555444555566667777777777777777654

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.

>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes

Probab=85.70  E-value=12  Score=33.52  Aligned_cols=87  Identities=11%  Similarity=0.171  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHHHH--HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhhhH
Q 021664          137 LEDVYSSISAAQRQ--LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDIT  214 (309)
Q Consensus       137 LeqVs~sL~~aKrh--LsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~T  214 (309)
                      =+++++.|....+|  +.+||+.|....+...+-++.|..++.+++.+|..+-          ..=+.|+..+...+...
T Consensus        11 d~~L~~~L~~l~~hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~----------~~~~~~~~~~~~~~~~~   80 (188)
T PF10018_consen   11 DDELSSALEELQEHQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLP----------DQADEKLKSIPKAEKRP   80 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHhhhccccccccccCC
Confidence            34444444444444  4567777777666666666666666666665544433          22233344444333332


Q ss_pred             hHHHHHHHHHHHhhccCCCc
Q 021664          215 TLGVKKLCDRARELENGRPT  234 (309)
Q Consensus       215 n~GV~~LC~f~~~~~~~~~~  234 (309)
                      - -+..|..|++++.....+
T Consensus        81 v-~~~eLL~YA~rISk~t~~   99 (188)
T PF10018_consen   81 V-DYEELLSYAHRISKFTSA   99 (188)
T ss_pred             C-CHHHHHHHHHHHHHhcCC
Confidence            2 277888999887655444

Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex

>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=85.58  E-value=3.4  Score=33.09  Aligned_cols=53  Identities=8%  Similarity=0.236  Sum_probs=27.8

Q ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhh
Q 021664          128 DACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRG  181 (309)
Q Consensus       128 ~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~  181 (309)
                      ++++.|..+.+.++..+...+..+ .+++.+..|||.+.+--..+.+.|++++.
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            455555555555555554444443 34444555555555555555555544443

; GO: 0019028 viral capsid

>PRK10884 SH3 domain-containing protein; Provisional

Probab=85.17  E-value=11  Score=34.99  Aligned_cols=70  Identities=10%  Similarity=0.247  Sum_probs=40.6

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHH
Q 021664          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR  194 (309)
Q Consensus       125 nms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~  194 (309)
                      .|.+-++.+..+|++.......-+.++.++++..+...++.++--++.++++..++.++....-+.+.++
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            3555556666666666666666666666666666666666666666666666555555444443333333

>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5

Probab=84.82  E-value=2.2  Score=35.26  Aligned_cols=55  Identities=22%  Similarity=0.344  Sum_probs=45.9

Q ss_pred             HHhhhheeeEEecccCcCcchhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHH
Q 021664           99 VIVAVGYGYVWWKGWKLPDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI  178 (309)
Q Consensus        99 ~iGavGYgYmwWKGws~SDlMfVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~  178 (309)
                      ++.-+|.||+-.+-                               +..|+++|..||+.++..+++..+..+..+++++.
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            45578999987764                               47899999999999999999999999999999887


Q ss_pred             hhhchh
Q 021664          179 LRGRSK  184 (309)
Q Consensus       179 v~~dl~  184 (309)
                      +...+.
T Consensus       119 i~~~l~  124 (126)
T TIGR00293       119 LEQEAQ  124 (126)
T ss_pred             HHHHHh
Confidence            776544

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.

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

Probab=84.73  E-value=9.5  Score=30.60  Aligned_cols=63  Identities=17%  Similarity=0.255  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhHhhhhhhHHHHHHHHH----HHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHH
Q 021664          144 ISAAQRQLSSKITSVDRDVNKIVEISQ----ATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIE  206 (309)
Q Consensus       144 L~~aKrhLsqRI~~vD~klde~~eis~----~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~  206 (309)
                      +-++.+++.+|++.=-..|.++.+.++    .++++...=...+..+..|++.++.-++.|..|+..
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            445566777777777777766666654    345555566667778888999999999999988864

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

>PRK15048 methyl-accepting chemotaxis protein II; Provisional

Probab=84.47  E-value=27  Score=35.31  Aligned_cols=59  Identities=14%  Similarity=0.167  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHH
Q 021664          139 DVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIV  197 (309)
Q Consensus       139 qVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V  197 (309)
                      +.++.+...=.+++.-.+.+....+++.+..+++.+.+.++...+.++-...+.+...+
T Consensus       270 ~~s~~v~~~s~el~~~~~~ls~~~~~qa~~i~~i~~s~eeis~~~~e~~~~~~~~~~~~  328 (553)
T PRK15048        270 EGSDAIYAGTREIAAGNTDLSSRTEQQASALEETAASMEQLTATVKQNADNARQASQLA  328 (553)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444555555566666666666666666665555555555555554444444433

>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=84.45  E-value=12  Score=37.40  Aligned_cols=76  Identities=16%  Similarity=0.289  Sum_probs=36.4

Q ss_pred             hhhhHHHHHHHHHHhHHHHHHHHHHHH-------HHHHHhHhhh-------hhhHHHHHHHHHHHHHHHHHhhhchhhhh
Q 021664          122 TRRSLSDACNSVARQLEDVYSSISAAQ-------RQLSSKITSV-------DRDVNKIVEISQATQEEVTILRGRSKLIG  187 (309)
Q Consensus       122 TKRnms~Av~sv~KqLeqVs~sL~~aK-------rhLsqRI~~v-------D~klde~~eis~~i~~eV~~v~~dl~~ig  187 (309)
                      =+.+++++...+..||+.+++.+..+-       |||.++++.+       -++|.+..+--++...-|++....|.+|.
T Consensus       228 ~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t~~L~~Is  307 (359)
T PF10498_consen  228 HKKSIESALPETKSQLDKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERTRELAEIS  307 (359)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            344444444445555555544444444       4444444433       23333333344444444555555666666


Q ss_pred             hhHHHHHHHH
Q 021664          188 DEFQSVRDIV  197 (309)
Q Consensus       188 ~Dv~~v~~~V  197 (309)
                      ++++.+++-+
T Consensus       308 eeLe~vK~em  317 (359)
T PF10498_consen  308 EELEQVKQEM  317 (359)
T ss_pred             HHHHHHHHHH
Confidence            6666655433

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.

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

Probab=84.26  E-value=9.9  Score=39.00  Aligned_cols=83  Identities=17%  Similarity=0.223  Sum_probs=65.2

Q ss_pred             HhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhhhH
Q 021664          135 RQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDIT  214 (309)
Q Consensus       135 KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~T  214 (309)
                      ++|+|....|++..    ++|...+++..+...-.+..++++..+..-+.++..|++.+++.+..++..+..++..+ ..
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            88888888877654    45566677777777777888888888888889999999999999999999999888766 66


Q ss_pred             hHHHHHHH
Q 021664          215 TLGVKKLC  222 (309)
Q Consensus       215 n~GV~~LC  222 (309)
                      ..++....
T Consensus       113 qr~~La~~  120 (420)
T COG4942         113 QRRRLAEQ  120 (420)
T ss_pred             HHHHHHHH
Confidence            66665443

>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=83.99  E-value=4.5  Score=40.29  Aligned_cols=43  Identities=21%  Similarity=0.415  Sum_probs=23.6

Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHHHHHhhcc
Q 021664          188 DEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCDRARELEN  230 (309)
Q Consensus       188 ~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~f~~~~~~  230 (309)
                      .+++.++..+..|-.||.+|..+=..|-.=|..+|+=++.+++
T Consensus        57 ~~l~~a~~~i~~L~~~i~~ik~kA~~sE~~V~~it~dIk~LD~   99 (383)
T PF04100_consen   57 EDLEEAQEAIQELFEKISEIKSKAEESEQMVQEITRDIKQLDN   99 (383)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555555555555555555555555555555544

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

Probab=83.93  E-value=28  Score=30.32  Aligned_cols=47  Identities=17%  Similarity=0.220  Sum_probs=17.0

Q ss_pred             hHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          161 DVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       161 klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                      .+++..+....+.+.+.++...+.+....++.....+..+..++..+
T Consensus        40 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~i   86 (262)
T smart00283       40 NADEIAATAQSAAEAAEEGREAVEDAITAMDQIREVVEEAVSAVEEL   86 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333333333333333333333333333333

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

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

Probab=83.70  E-value=17  Score=33.48  Aligned_cols=69  Identities=13%  Similarity=0.261  Sum_probs=50.9

Q ss_pred             HHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHH
Q 021664          152 SSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKK  220 (309)
Q Consensus       152 sqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~  220 (309)
                      -.||+.|..++.+...+.........++...+..+-.|++....-+..+|.|+..++..-.....-+.-
T Consensus        91 eeri~~lE~~l~ea~~~~ee~e~k~~E~~rkl~~~E~~Le~aEeR~e~~E~ki~eLE~el~~~~~~lk~  159 (237)
T PF00261_consen   91 EERIEELEQQLKEAKRRAEEAERKYEEVERKLKVLEQELERAEERAEAAESKIKELEEELKSVGNNLKS  159 (237)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhHHHHHHHHHHHHHHHHH
Confidence            456666777777777777777777888888888888888888888888888888887654444444433

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 ....

>PRK09039 hypothetical protein; Validated

Probab=83.69  E-value=14  Score=36.28  Aligned_cols=86  Identities=9%  Similarity=0.256  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHH-------HHHHHHHHHhhh
Q 021664          137 LEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIV-------QTLESKLIEIEG  209 (309)
Q Consensus       137 LeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V-------~~Le~Ki~~ie~  209 (309)
                      |+..++....+..++..|+..+.++|++.+..+....-+|..++..++....-+..++..+       .....||+.++.
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            3333334444455778888888888888888877666665555555555544444444444       444445555554


Q ss_pred             hhhhHhHH-HHHHH
Q 021664          210 KQDITTLG-VKKLC  222 (309)
Q Consensus       210 kQd~Tn~G-V~~LC  222 (309)
                      .=+.+... +..|-
T Consensus       180 ~L~~a~~~~~~~l~  193 (343)
T PRK09039        180 RLNVALAQRVQELN  193 (343)
T ss_pred             HHHHHHHHHHHHHH
Confidence            44444333 44443

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

Probab=83.67  E-value=7.5  Score=32.15  Aligned_cols=65  Identities=11%  Similarity=0.235  Sum_probs=49.3

Q ss_pred             HHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhh--hhhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHH
Q 021664          152 SSKITSVDRDVNKIVEISQATQEEVTILRGRSKLI--GDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCD  223 (309)
Q Consensus       152 sqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~i--g~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~  223 (309)
                      ..+++.+++++++       ..+-++.+..++.+.  .+|+..++..+..++++++.+++.=+--++-+.+|.+
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       466677777777888  8888888888889999999998887777777777754

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

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=83.52  E-value=20  Score=37.24  Aligned_cols=17  Identities=12%  Similarity=0.374  Sum_probs=13.2

Q ss_pred             hhHHHHHHHHHHHHHhc
Q 021664           58 FNDLLAEVSSVQQELSH   74 (309)
Q Consensus        58 ~~dL~aQV~~LaqEl~~   74 (309)
                      |.++..+|..|+++|.+
T Consensus       251 ~~~i~~~i~~l~~~i~~  267 (569)
T PRK04778        251 HLDIEKEIQDLKEQIDE  267 (569)
T ss_pred             CCChHHHHHHHHHHHHH
Confidence            44488888888888888

>PRK13182 racA polar chromosome segregation protein; Reviewed

Probab=82.70  E-value=5.9  Score=35.81  Aligned_cols=63  Identities=19%  Similarity=0.279  Sum_probs=48.6

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhh
Q 021664          145 SAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEG  209 (309)
Q Consensus       145 ~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~  209 (309)
                      ..-...|..+.+.|+.++++..+.-+...|+|--  =.|=+=+.+|+.+...+..||.+|..+|.
T Consensus        84 ~~R~~lLe~~~~~l~~ri~eLe~~l~~kad~vvs--Yqll~hr~e~ee~~~~l~~le~~~~~~e~  146 (175)
T PRK13182         84 SVDFEQLEAQLNTITRRLDELERQLQQKADDVVS--YQLLQHRREMEEMLERLQKLEARLKKLEP  146 (175)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh--HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445566777777777888888888888888843  34557788999999999999999999663

>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=82.15  E-value=9.9  Score=30.02  Aligned_cols=78  Identities=15%  Similarity=0.320  Sum_probs=40.3

Q ss_pred             hhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHH
Q 021664          119 MFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQ  198 (309)
Q Consensus       119 MfVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~  198 (309)
                      |+-+++-+.+...-++..+......-...++.+..++++.=.+||=.      +|+|....+.-       +...+.-+.
T Consensus         1 M~~~~~~~d~~~~~~~~~~~~~~~~~~e~e~~~r~~l~~~l~kldlV------tREEFd~q~~~-------L~~~r~kl~   67 (79)
T PF04380_consen    1 MQDPNKIFDDLAKQISEALPAAQGPREEIEKNIRARLQSALSKLDLV------TREEFDAQKAV-------LARTREKLE   67 (79)
T ss_pred             CCCchhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHCCCC------cHHHHHHHHHH-------HHHHHHHHH
Confidence            44445556666655655555555555556666666666555555422      23333222222       344455555


Q ss_pred             HHHHHHHHhhh
Q 021664          199 TLESKLIEIEG  209 (309)
Q Consensus       199 ~Le~Ki~~ie~  209 (309)
                      .||.||..+|.
T Consensus        68 ~LEarl~~LE~   78 (79)
T PF04380_consen   68 ALEARLAALEA   78 (79)
T ss_pred             HHHHHHHHHhc
Confidence            66666666654

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.

>smart00806 AIP3 Actin interacting protein 3

Probab=82.06  E-value=23  Score=36.48  Aligned_cols=94  Identities=17%  Similarity=0.320  Sum_probs=67.7

Q ss_pred             hhHHHHHHHHHHhHHHHHHH------------HHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHH-----hhhchhhh
Q 021664          124 RSLSDACNSVARQLEDVYSS------------ISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTI-----LRGRSKLI  186 (309)
Q Consensus       124 Rnms~Av~sv~KqLeqVs~s------------L~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~-----v~~dl~~i  186 (309)
                      +.+..-++++-.++.+|.++            +.+.|++|+.+=|+|-.|.|+.+.+.+.+|++|..     ....++.+
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            34455566666666777654            55679999999999999999999999999999753     22445566


Q ss_pred             hhhHHHHHHHHH---------------HHHHHHHHhhhhhhhHhHH
Q 021664          187 GDEFQSVRDIVQ---------------TLESKLIEIEGKQDITTLG  217 (309)
Q Consensus       187 g~Dv~~v~~~V~---------------~Le~Ki~~ie~kQd~Tn~G  217 (309)
                      +.|++....-+.               .||.-|+.|..-|+|=|.=
T Consensus       256 ~kdi~~a~keL~~m~~~i~~eKP~WkKiWE~EL~~VcEEqqfL~lQ  301 (426)
T smart00806      256 QKELETARKELKKMEEYIDIEKPIWKKIWEAELDKVCEEQQFLTLQ  301 (426)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcChHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666655554444               4667778888888876653

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

>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=82.06  E-value=15  Score=28.76  Aligned_cols=27  Identities=7%  Similarity=0.316  Sum_probs=12.6

Q ss_pred             hhhhhhhHHHHHHHHHHhHHHHHHHHH
Q 021664          119 MFATRRSLSDACNSVARQLEDVYSSIS  145 (309)
Q Consensus       119 MfVTKRnms~Av~sv~KqLeqVs~sL~  145 (309)
                      ++.+-+++......+.+.++++.+.+.
T Consensus        17 l~~~l~~l~~~l~~~~~ti~~l~~~~~   43 (90)
T PF06103_consen   17 LIKVLKKLKKTLDEVNKTIDTLQEQVD   43 (90)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence            344455555554444444444444443

>PRK04406 hypothetical protein; Provisional

Probab=81.87  E-value=6.8  Score=30.94  Aligned_cols=48  Identities=10%  Similarity=0.124  Sum_probs=35.2

Q ss_pred             HHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHH
Q 021664          146 AAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSV  193 (309)
Q Consensus       146 ~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v  193 (309)
                      .|...+.+||+.|..++--|....+...+.|++-+..+......+..+
T Consensus         4 ~~~~~le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L   51 (75)
T PRK04406          4 KTIEQLEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYV   51 (75)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455678899999999999998888888888877776654444333333

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

Probab=81.84  E-value=84  Score=34.51  Aligned_cols=102  Identities=10%  Similarity=0.185  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHH
Q 021664          127 SDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIE  206 (309)
Q Consensus       127 s~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~  206 (309)
                      .+-+..+-..+....+.-...|..+..+++.+..++.......+.-++.+       ..+..|+..+..++..-.++|..
T Consensus       372 k~ELk~Lk~k~~~~~~~~~~ek~~~~~e~q~L~ekl~~lek~~re~qeri-------~~LE~ELr~l~~~A~E~q~~Lns  444 (717)
T PF09730_consen  372 KAELKALKSKYNELEERYKQEKDRLESEVQNLKEKLMSLEKSSREDQERI-------SELEKELRALSKLAGESQGSLNS  444 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH-------HHHHHHHHHHHHHHHhHHHHHHH
Confidence            33344444444455555666667777777777777776655555544444       44445566666666666677666


Q ss_pred             hhhhhhhHhHHHHHHHHHHHhhccCCCccc
Q 021664          207 IEGKQDITTLGVKKLCDRARELENGRPTEL  236 (309)
Q Consensus       207 ie~kQd~Tn~GV~~LC~f~~~~~~~~~~~~  236 (309)
                      -..-=..--..+.-|+.++ ++-|+-.|+.
T Consensus       445 AQDELvtfSEeLAqLYHHV-C~cNgeTPnR  473 (717)
T PF09730_consen  445 AQDELVTFSEELAQLYHHV-CMCNGETPNR  473 (717)
T ss_pred             HHHHHHHHHHHHHHHHHHH-HHccCCCCcc
Confidence            5555444455666666666 5555555554

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

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

Probab=81.74  E-value=11  Score=27.11  Aligned_cols=52  Identities=15%  Similarity=0.236  Sum_probs=27.9

Q ss_pred             HhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHH
Q 021664          153 SKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKL  204 (309)
Q Consensus       153 qRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki  204 (309)
                      +.|+.+..++.+.+++...|.++|.+=..-|.+|..+++....-+..=-.+|
T Consensus         4 ~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~~ld~i~~~vd~~~~~l~~~~~~l   55 (63)
T PF05739_consen    4 EELDELEQSIQELKQMFQDIGEEVEEQNEMLDRIEDNVDRANENLKKGNKKL   55 (63)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3455566666666666666666665555555555555554444444333333

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

>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle

Probab=81.66  E-value=6.5  Score=31.56  Aligned_cols=28  Identities=25%  Similarity=0.475  Sum_probs=13.2

Q ss_pred             hhhHHHHHHHHHHhHHHHHHHHHHHHHH
Q 021664          123 RRSLSDACNSVARQLEDVYSSISAAQRQ  150 (309)
Q Consensus       123 KRnms~Av~sv~KqLeqVs~sL~~aKrh  150 (309)
                      ++-|.++|.++-.+|+.+..++..+.++
T Consensus        41 ~~eL~~~l~~ie~~L~DL~~aV~ive~n   68 (97)
T PF09177_consen   41 KRELRNALQSIEWDLEDLEEAVRIVEKN   68 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            3444444444444444444444444443

Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.

>PRK11166 chemotaxis regulator CheZ; Provisional

Probab=81.63  E-value=21  Score=33.58  Aligned_cols=114  Identities=20%  Similarity=0.235  Sum_probs=68.7

Q ss_pred             hhHHHHHHHHH--HhHHHHHHHHHHHHHHHHHhHhh-------hhhhHHHHHHHHHHHHHHHHHhhhchhhhhhh---HH
Q 021664          124 RSLSDACNSVA--RQLEDVYSSISAAQRQLSSKITS-------VDRDVNKIVEISQATQEEVTILRGRSKLIGDE---FQ  191 (309)
Q Consensus       124 Rnms~Av~sv~--KqLeqVs~sL~~aKrhLsqRI~~-------vD~klde~~eis~~i~~eV~~v~~dl~~ig~D---v~  191 (309)
                      |.|-+|...++  +.|++..+.|-.||..|.-=|+-       +=+-+|.+..++..+.++...++....++-..   .+
T Consensus        26 R~LHdsl~~lg~d~~l~~a~~~iPDArdRL~YVi~~TEqAA~rtLnaVE~a~p~~d~l~~~a~~L~~~w~~l~~~~~~~~  105 (214)
T PRK11166         26 RMLRDSLRELGLDQAIEEAAEAIPDARDRLDYVAQMTEQAAERVLNAVEAAQPHQDQLEKEAKALDARWDEWFANPIELA  105 (214)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcCCCCHH
Confidence            56778877765  77888888888888877644432       22334444445555555555555544332221   44


Q ss_pred             HHHHHHHHHHHHHHHhh-----------------hhhhhHhHHHHHHHHHHHhhccCCCccce
Q 021664          192 SVRDIVQTLESKLIEIE-----------------GKQDITTLGVKKLCDRARELENGRPTELV  237 (309)
Q Consensus       192 ~v~~~V~~Le~Ki~~ie-----------------~kQd~Tn~GV~~LC~f~~~~~~~~~~~~~  237 (309)
                      .++.++......|.++.                 .=||.|-+=|....+.++.+|..-..-++
T Consensus       106 e~~~L~~~~~~fL~~v~~~t~~~~~~L~eI~mAqdFQDLTGQvI~kVi~~v~~vE~~L~~ll~  168 (214)
T PRK11166        106 DARELVTDTRAFLADVPEHTSFTNAQLLEIMMAQDFQDLTGQVIKRMMDVIQEIERQLLMVLL  168 (214)
T ss_pred             HHHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHccchHhHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            45555544444444333                 33888998888888888877766544443

>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=81.51  E-value=28  Score=31.79  Aligned_cols=47  Identities=9%  Similarity=0.186  Sum_probs=35.0

Q ss_pred             HHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHH
Q 021664          145 SAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQ  191 (309)
Q Consensus       145 ~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~  191 (309)
                      .....++..|++.+..+++++++-.+..++++.+.+..+..-..++.
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            34455667778888888888888888888888888777777776665

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

>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=81.45  E-value=6.2  Score=35.34  Aligned_cols=96  Identities=19%  Similarity=0.348  Sum_probs=46.0

Q ss_pred             CcCcchhhhhhhHHH---HHHHHHHhHHHHHHHHHHHHHHHHH---hHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhh
Q 021664          114 KLPDMMFATRRSLSD---ACNSVARQLEDVYSSISAAQRQLSS---KITSVDRDVNKIVEISQATQEEVTILRGRSKLIG  187 (309)
Q Consensus       114 s~SDlMfVTKRnms~---Av~sv~KqLeqVs~sL~~aKrhLsq---RI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig  187 (309)
                      ++.+..+..+.-|+.   .+..+..+|-...+.+..-++.+..   +|..+...+....+=.+...+++.+....++.+.
T Consensus        71 ~le~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k~~e~l~  150 (194)
T PF08614_consen   71 SLEQKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDLEEELKEKNKANEILQ  150 (194)
T ss_dssp             -------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456677777766664   4667778888888888777766654   5666666666666666677778888888999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhh
Q 021664          188 DEFQSVRDIVQTLESKLIEIEG  209 (309)
Q Consensus       188 ~Dv~~v~~~V~~Le~Ki~~ie~  209 (309)
                      +++..++--...+|.|+..++.
T Consensus       151 DE~~~L~l~~~~~e~k~~~l~~  172 (194)
T PF08614_consen  151 DELQALQLQLNMLEEKLRKLEE  172 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999874

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.

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

Probab=81.05  E-value=24  Score=38.33  Aligned_cols=76  Identities=17%  Similarity=0.299  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHh-HHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHH
Q 021664          126 LSDACNSVARQ-LEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKL  204 (309)
Q Consensus       126 ms~Av~sv~Kq-LeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki  204 (309)
                      +..|+..+-.+ ++    -...|+.++..|+..+-...++|.+-.+.++++...++..-+.+.+-++.+.+.=+.|..|+
T Consensus       541 L~~a~~vlreeYi~----~~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~  616 (717)
T PF10168_consen  541 LSQATKVLREEYIE----KQDLAREEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRV  616 (717)
T ss_pred             HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55666666654 33    34578999999999999999998888888888876655555555555555555555555554


Q ss_pred             H
Q 021664          205 I  205 (309)
Q Consensus       205 ~  205 (309)
                      +
T Consensus       617 ~  617 (717)
T PF10168_consen  617 D  617 (717)
T ss_pred             H
Confidence            4

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

>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function

Probab=80.75  E-value=7  Score=30.01  Aligned_cols=52  Identities=15%  Similarity=0.244  Sum_probs=35.0

Q ss_pred             HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhh
Q 021664          151 LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEG  209 (309)
Q Consensus       151 LsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~  209 (309)
                      +..||+.|..|+--+.+..+...+.|+.-+..       |+.++..+..|..||..++.
T Consensus         2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~-------I~~L~~~l~~L~~rl~~~~~   53 (69)
T PF04102_consen    2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQ-------IDRLQRQLRLLRERLRELED   53 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHT------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHhcc
Confidence            56788888888888888888888888766665       56666666666677777663

It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.

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

Probab=80.40  E-value=39  Score=29.47  Aligned_cols=73  Identities=16%  Similarity=0.254  Sum_probs=29.5

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHH
Q 021664          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIV  197 (309)
Q Consensus       125 nms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V  197 (309)
                      ++++-++.++....++-+.++..=.+....++.....+++..+....+.+.+.++..-+..+..-++.+...+
T Consensus       137 ~la~~t~~~~~ev~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~i~~~~  209 (262)
T smart00283      137 KLAERSAESAKEIESLIKEIQEETNEAVAAMEESSSEVEEGVELVEETGEALEEIVDSVEEIADLVQEIAAAT  209 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333333333333333333333333344444444444444444444444444444444444444444433333

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

>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []

Probab=80.38  E-value=20  Score=32.10  Aligned_cols=88  Identities=10%  Similarity=0.198  Sum_probs=50.6

Q ss_pred             hhhhHHHHHHHHHHhHHHHHHHH-HHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhh----hchhhhhhhHHHHHHH
Q 021664          122 TRRSLSDACNSVARQLEDVYSSI-SAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILR----GRSKLIGDEFQSVRDI  196 (309)
Q Consensus       122 TKRnms~Av~sv~KqLeqVs~sL-~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~----~dl~~ig~Dv~~v~~~  196 (309)
                      |-.++-+-++.....-+.+.+.+ ..+|..|.++|..|-+.+.+..+-.+.+.+++...+    .|...+..|+..++.+
T Consensus        78 ~~~~I~~Y~~~f~syY~~L~~~id~~~~~~~~~~i~~L~~~i~~~q~~~~~~i~~L~~f~~~l~~D~~~l~~~~~~l~~~  157 (184)
T PF05791_consen   78 LNQDIINYNTTFQSYYDTLVEAIDQKDKEDLKEIIEDLQDQIQKNQDKVQALINELNDFKDKLQKDSRNLKTDVDELQSI  157 (184)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            45555555544444444444443 457888889998887776666655555555554433    3555666666666666


Q ss_pred             HHHHHHHHHHhhh
Q 021664          197 VQTLESKLIEIEG  209 (309)
Q Consensus       197 V~~Le~Ki~~ie~  209 (309)
                      +.+-.+.|..++.
T Consensus       158 l~~~~g~I~~L~~  170 (184)
T PF05791_consen  158 LAGENGDIPQLQK  170 (184)
T ss_dssp             HHHTT--HHHHHH
T ss_pred             HhcccCCHHHHHH
Confidence            6666665555554

Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.

---

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	309
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 = 39/263 (14%), Positives = 79/263 (30%), Gaps = 62/263 (23%)

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

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

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

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

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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	309
2ba2_A	85	D12_ORF131, hypothetical UPF0134 protein MPN010; D	94.52
2no2_A	107	HIP-I, huntingtin-interacting protein 1; clathrin	93.57
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	89.99
1m1j_B	464	Fibrinogen beta chain; coiled coils, disulfide rin	89.35
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	89.06
3g67_A	213	Methyl-accepting chemotaxis protein; four-helix bu	89.01
1deq_A	390	Fibrinogen (alpha chain); coiled-coil, blood clott	88.22
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	87.98
3ghg_A	562	Fibrinogen alpha chain; triple-stranded coiled coi	87.53
3tnu_B	129	Keratin, type II cytoskeletal 5; coiled-coil, stru	87.27
3trt_A	77	Vimentin; cytoskeleton, intermediate filament, alp	86.64
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	86.31
2qyw_A	102	Vesicle transport through interaction with T-SNAR	85.61
3onj_A	97	T-snare VTI1; helix, HABC, protein transport; 1.92	85.56
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	85.44
3okq_A	141	BUD site selection protein 6; coiled-coil, protein	85.03
2akf_A	32	Coronin-1A; coiled coil, protein binding; 1.20A {S	84.03
1vcs_A	102	Vesicle transport through interaction with T- snar	83.86
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	83.58
2yo3_A	268	General control protein GCN4, putative inner MEMB	83.4
4dnd_A	130	Syntaxin-10, SYN10; structural genomics, protein s	83.23
3gwk_C	98	SAG1039, putative uncharacterized protein SAG1039;	83.23
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	82.66
3mq9_A	471	Bone marrow stromal antigen 2 fused to maltose-BI	82.15
3zx6_A	341	HAMP, methyl-accepting chemotaxis protein I; signa	82.04
3zx6_A	341	HAMP, methyl-accepting chemotaxis protein I; signa	81.15
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	80.39

>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=94.52  E-value=0.085  Score=41.89  Aligned_cols=77  Identities=17%  Similarity=0.235  Sum_probs=50.2

Q ss_pred             hhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHH
Q 021664          120 FATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQT  199 (309)
Q Consensus       120 fVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~  199 (309)
                      |||+|-+..-..+.            ++|..|.+|...+...+.-|-|....=-+++.+++..-..-|.-++.|-....+
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            89998877643221            355555566666666555555555555555556555556667777788888888


Q ss_pred             HHHHHHHhh
Q 021664          200 LESKLIEIE  208 (309)
Q Consensus       200 Le~Ki~~ie  208 (309)
                      +..+||.||
T Consensus        76 ~nkRLDkle   84 (85)
T 2ba2_A           76 INKRLDNLE   84 (85)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHhhccC
Confidence            888888887

>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=93.57  E-value=0.87  Score=36.97  Aligned_cols=80  Identities=10%  Similarity=0.282  Sum_probs=63.7

Q ss_pred             HHHHHhH---HHHHHHHHHHHHHHHHhHhhhh----hhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHH
Q 021664          131 NSVARQL---EDVYSSISAAQRQLSSKITSVD----RDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESK  203 (309)
Q Consensus       131 ~sv~KqL---eqVs~sL~~aKrhLsqRI~~vD----~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~K  203 (309)
                      +.++|||   .|..+.+..+|+.|..+|+.+.    .|++++.+....++.++..-..+|..+..+++....-=..|..+
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    67788888888888898888888888888888888777777777


Q ss_pred             HHHhhhh
Q 021664          204 LIEIEGK  210 (309)
Q Consensus       204 i~~ie~k  210 (309)
                      ++.++.-
T Consensus        91 ~~~l~~E   97 (107)
T 2no2_A           91 FAELEKE   97 (107)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7766543

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

Probab=89.99  E-value=3.7  Score=38.87  Aligned_cols=77  Identities=14%  Similarity=0.150  Sum_probs=57.0

Q ss_pred             hHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHH
Q 021664          125 SLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLES  202 (309)
Q Consensus       125 nms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~  202 (309)
                      -|.+++..+-..=..+-++|..+.+.+.+-|++.-. ..|+......++.++++++.++.++.-.-..-++.|-+|-.
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            345555555444345677888888888888888644 44788889999999999999999998888887777766643

>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=89.35  E-value=2.5  Score=42.13  Aligned_cols=96  Identities=10%  Similarity=0.208  Sum_probs=62.9

Q ss_pred             cCcchhhhhhhHHHHHHHHHHhHHHHHHHHHHHH---HHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchh-----hh
Q 021664          115 LPDMMFATRRSLSDACNSVARQLEDVYSSISAAQ---RQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSK-----LI  186 (309)
Q Consensus       115 ~SDlMfVTKRnms~Av~sv~KqLeqVs~sL~~aK---rhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~-----~i  186 (309)
                      +.|+|=-+.++....+..|-..|++++..-..++   ++|+..+...+.++.++.+..+.-.+++.+.+.-++     ++
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            3788888889999999999999999987766655   346666666666666655555555555444443332     23


Q ss_pred             hhhHHHHHHHHHHHHHHHHHhhhh
Q 021664          187 GDEFQSVRDIVQTLESKLIEIEGK  210 (309)
Q Consensus       187 g~Dv~~v~~~V~~Le~Ki~~ie~k  210 (309)
                      ...+..++..+..|..||..+|.+
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            345555666666666666666655

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

Probab=89.06  E-value=6  Score=35.22  Aligned_cols=39  Identities=15%  Similarity=0.277  Sum_probs=18.0

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHH
Q 021664          126 LSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNK  164 (309)
Q Consensus       126 ms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde  164 (309)
                      ++.|+..+...+..+.+.++.+-+++...++.+....++
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            344555555555555554444444444444444333333

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

Probab=89.01  E-value=3.8  Score=36.50  Aligned_cols=65  Identities=11%  Similarity=0.129  Sum_probs=30.2

Q ss_pred             HHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHH
Q 021664          133 VARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIV  197 (309)
Q Consensus       133 v~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V  197 (309)
                      +...++++++.+...-.++....+.+....+++.+..+.+.+++.+....+.++...++.+...+
T Consensus         5 va~a~~em~~~i~~i~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   69 (213)
T 3g67_A            5 VKERFVNLNRLFQELVGDFQAKSDQLVSVIQDMEKISENIMEELKKSGTNVDQIVERVKEASSQI   69 (213)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444445554444555555555544455444444444444444444444444443333333

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

Probab=87.98  E-value=2.6  Score=40.11  Aligned_cols=66  Identities=9%  Similarity=-0.056  Sum_probs=53.4

Q ss_pred             hhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHH
Q 021664          158 VDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLCD  223 (309)
Q Consensus       158 vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC~  223 (309)
                      +....+++.++.++.+.|-..++.+.+.++.+++.+++--..++..+.+++..=.-+++-...+|.
T Consensus       412 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  477 (487)
T 3oja_A          412 LRAIVKRYEEMYVEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANATLQELVV  477 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHHHH
Confidence            445666677788888888888889999999999999988888888888888777777777777775

>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=87.53  E-value=4.7  Score=41.11  Aligned_cols=95  Identities=8%  Similarity=0.122  Sum_probs=63.7

Q ss_pred             CcchhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHH-------HHHHHHHHHHHHhhhchhhhhh
Q 021664          116 PDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIV-------EISQATQEEVTILRGRSKLIGD  188 (309)
Q Consensus       116 SDlMfVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~-------eis~~i~~eV~~v~~dl~~ig~  188 (309)
                      -++|-=+-|++.+-++.|-.+|++++.+=..+-....+-.+.|..++.+..       |++.+++..+..++..|.+--.
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            356677889999999999999999987766666666655555555555444       4444455555555555544445


Q ss_pred             hHHHHHHHHHHHHHHHHHhhhh
Q 021664          189 EFQSVRDIVQTLESKLIEIEGK  210 (309)
Q Consensus       189 Dv~~v~~~V~~Le~Ki~~ie~k  210 (309)
                      -++.||..|+.+-.||.++|--
T Consensus       132 nIrvLQsnLedq~~kIQRLEvD  153 (562)
T 3ghg_A          132 HIQLLQKNVRAQLVDMKRLEVD  153 (562)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            5566677777777788888743

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

Probab=87.27  E-value=1.3  Score=36.24  Aligned_cols=53  Identities=13%  Similarity=0.186  Sum_probs=28.6

Q ss_pred             HHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          152 SSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       152 sqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                      ..+|++|...++.+...-....+.+.++...   ...+++.++..+..||.-|..+
T Consensus        42 rr~iq~L~~el~~l~~~~~~LE~~l~e~e~~---~~~~l~~~q~~i~~lE~eL~~~   94 (129)
T 3tnu_B           42 NRMIQRLRAEIDNVKKQCANLQNAIADAEQR---GELALKDARNKLAELEEALQKA   94 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHhHHHH
Confidence            3456666666666655555555555544432   3334555555555555555443

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

Probab=86.64  E-value=5.1  Score=29.69  Aligned_cols=70  Identities=19%  Similarity=0.254  Sum_probs=47.8

Q ss_pred             hHHHHHHHHHHhHHHHHH-HHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHH
Q 021664          125 SLSDACNSVARQLEDVYS-SISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR  194 (309)
Q Consensus       125 nms~Av~sv~KqLeqVs~-sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~  194 (309)
                      .|+.+.+.|=.|-|.+-. .-+.+..-...+++.+........+-....++|+++++..+....-|+++++
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            566777777777665543 3445666677788877777777777777777777777777666666666553

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

Probab=86.31  E-value=3.9  Score=36.66  Aligned_cols=27  Identities=4%  Similarity=0.118  Sum_probs=12.3

Q ss_pred             hhhhhhHHHHHHHHHHHHHHHHHhhhh
Q 021664          184 KLIGDEFQSVRDIVQTLESKLIEIEGK  210 (309)
Q Consensus       184 ~~ig~Dv~~v~~~V~~Le~Ki~~ie~k  210 (309)
                      ..+..+++....-...||.+|-++...
T Consensus        93 ~aL~kEie~~~~~i~~lE~eile~~e~  119 (256)
T 3na7_A           93 RSLNIEEDIAKERSNQANREIENLQNE  119 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334444444444444454444444433

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

Probab=85.61  E-value=1.6  Score=34.64  Aligned_cols=56  Identities=9%  Similarity=0.120  Sum_probs=39.0

Q ss_pred             hhhhHHHHHHHHHHhHHHHHHHHH-HHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhh
Q 021664          122 TRRSLSDACNSVARQLEDVYSSIS-AAQRQLSSKITSVDRDVNKIVEISQATQEEVTILR  180 (309)
Q Consensus       122 TKRnms~Av~sv~KqLeqVs~sL~-~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~  180 (309)
                      --+.+...++++++.++++..... ..|+.   .|..++..|||..|+.+++.-||..+-
T Consensus        20 YE~df~~l~~~i~~kl~~i~~~~~~e~rk~---~i~~ie~~ldEA~eLl~qMelE~r~~p   76 (102)
T 2qyw_A           20 LHEIFRGLLEDLQGVPERLLGTAGTEEKKK---LVRDFDEKQQEANETLAEMEEELRYAP   76 (102)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCCCSHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCcHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            345566777777777777643322 34443   477788899999999999998887663

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

Probab=85.56  E-value=2.6  Score=33.18  Aligned_cols=53  Identities=9%  Similarity=0.173  Sum_probs=40.1

Q ss_pred             hhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          124 RSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTIL  179 (309)
Q Consensus       124 Rnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v  179 (309)
                      +.+...++++...|+++...=...|+.   -|..++..+||..|+..+|.-||..+
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   46778889999999999999999888

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

Probab=85.44  E-value=1.3  Score=36.36  Aligned_cols=69  Identities=6%  Similarity=0.272  Sum_probs=33.4

Q ss_pred             hHHHHHHHHHHHHHH---HHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          136 QLEDVYSSISAAQRQ---LSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       136 qLeqVs~sL~~aKrh---LsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                      +...-.+.+..+|.+   |..+|++|...++.+...-....+.+.++..   +...+++..+..+..||.-|..+
T Consensus        25 ~~~~~~~~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~---~~~~~l~~~q~~i~~lE~eL~~~   96 (131)
T 3tnu_A           25 EVATNSELVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKG---RYCMQLAQIQEMIGSVEEQLAQL   96 (131)
T ss_dssp             ----------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence            333334555555543   4456777777777766666666666655554   23445666666666666666544

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

Probab=85.03  E-value=12  Score=32.02  Aligned_cols=77  Identities=13%  Similarity=0.223  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHH------------HhhhchhhhhhhHHHHHHHHH--------HHHH
Q 021664          143 SISAAQRQLSSKITSVDRDVNKIVEISQATQEEVT------------ILRGRSKLIGDEFQSVRDIVQ--------TLES  202 (309)
Q Consensus       143 sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~------------~v~~dl~~ig~Dv~~v~~~V~--------~Le~  202 (309)
                      -+.+-|++|..|.|+|=.++|+.+.+.+.+|++|.            .++.|+.....|++.+...+.        .+|.
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            344555555555555555543        4667


Q ss_pred             HHHHhhhhhhhHhHHHH
Q 021664          203 KLIEIEGKQDITTLGVK  219 (309)
Q Consensus       203 Ki~~ie~kQd~Tn~GV~  219 (309)
                      -|..|..-|+|=|.==.
T Consensus        91 EL~~VceEQqfl~~Qed  107 (141)
T 3okq_A           91 ELDKVCEEQQFLTLQEE  107 (141)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            77777777777665433

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

Probab=84.03  E-value=1  Score=29.65  Aligned_cols=29  Identities=21%  Similarity=0.371  Sum_probs=25.3

Q ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHhhhhh
Q 021664          183 SKLIGDEFQSVRDIVQTLESKLIEIEGKQ  211 (309)
Q Consensus       183 l~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQ  211 (309)
                      +++..+|+.+++.+|+.|..+++++|..-
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            35678899999999999999999999764

>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=83.86  E-value=1.3  Score=35.27  Aligned_cols=62  Identities=10%  Similarity=0.124  Sum_probs=45.2

Q ss_pred             CcchhhhhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhh
Q 021664          116 PDMMFATRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILR  180 (309)
Q Consensus       116 SDlMfVTKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~  180 (309)
                      |+++----+.+...++++.+.++++...=...|+.   -|..++..|||..|+..+|.-||..+-
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   377888999999999999999987663

>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=83.58  E-value=8.3  Score=37.24  Aligned_cols=37  Identities=3%  Similarity=0.083  Sum_probs=30.1

Q ss_pred             hhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhh
Q 021664          123 RRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVD  159 (309)
Q Consensus       123 KRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD  159 (309)
                      ...+.+.+..+...+++....++..++++..|.+...
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            3446678888888888888999999999988887766

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

Probab=83.40  E-value=2.1  Score=40.06  Aligned_cols=58  Identities=9%  Similarity=0.213  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHH
Q 021664          137 LEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVR  194 (309)
Q Consensus       137 LeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~  194 (309)
                      ..|++++++.++....+|+.+|+.++++...=..++.+.|.++-..+-.|..+++.|+
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            5677778899999888888888877777666666666666655555555555555544

>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=83.23  E-value=2.9  Score=34.80  Aligned_cols=59  Identities=19%  Similarity=0.279  Sum_probs=35.3

Q ss_pred             hhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhh-hHHHHHHHHHHHHHHHHHhhhc
Q 021664          122 TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDR-DVNKIVEISQATQEEVTILRGR  182 (309)
Q Consensus       122 TKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~-klde~~eis~~i~~eV~~v~~d  182 (309)
                      |++-|.++|.++..+|+.+.+++..+.++=. |- +++. .+..=+.....++++|..++..
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            5677777888888888888877777765532 22 2222 2444455555555555555544

>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=83.23  E-value=12  Score=27.78  Aligned_cols=75  Identities=12%  Similarity=0.172  Sum_probs=40.1

Q ss_pred             HHHHhHHHHHHHHHHHHHHHHHhHhhhhh-----hHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHH
Q 021664          132 SVARQLEDVYSSISAAQRQLSSKITSVDR-----DVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIE  206 (309)
Q Consensus       132 sv~KqLeqVs~sL~~aKrhLsqRI~~vD~-----klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~  206 (309)
                      .+++++.+..+.|...-..|.+.|+.|..     --+.-.+...+.+..+..+...|..|...+...-..++.-|.++.+
T Consensus        15 ~~A~~~~~~~~~i~~~l~~L~~~~~~l~~~W~G~a~~aF~~~~~~~~~~~~~~~~~L~~i~~~L~~~a~~~~~~D~~~A~   94 (98)
T 3gwk_C           15 SSAQKYTAGSQQVTEVLNLLTQEQAVIDENWDGSTFDSFEAQFNELSPKITEFAQLLEDINQQLLKVADIIEQTDADIAS   94 (98)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHBCSSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444411     1123344555666666677777777777777777666666665543

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

Probab=82.66  E-value=19  Score=29.57  Aligned_cols=35  Identities=17%  Similarity=0.227  Sum_probs=13.7

Q ss_pred             HHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHh
Q 021664          173 QEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEI  207 (309)
Q Consensus       173 ~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~i  207 (309)
                      +.++..+...+..+..++..+..-+..++..+..+
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (284)
T 1c1g_A           68 QEKLELAEKKATDAEADVASLNRRIQLFEEELDRA  102 (284)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33333333333444444444443333343333333

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

Probab=82.15  E-value=13  Score=35.10  Aligned_cols=44  Identities=7%  Similarity=0.243  Sum_probs=28.5

Q ss_pred             hhHHHHHHHHHHhHHHHHHHH------HHHHHHHHHhHhhhhhhHHHHHH
Q 021664          124 RSLSDACNSVARQLEDVYSSI------SAAQRQLSSKITSVDRDVNKIVE  167 (309)
Q Consensus       124 Rnms~Av~sv~KqLeqVs~sL------~~aKrhLsqRI~~vD~klde~~e  167 (309)
                      ....+|++.+.+++++.-+.+      ..+.++|.+.|+++.+++-+...
T Consensus       369 ~t~eeal~~~~~~i~~~l~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~  418 (471)
T 3mq9_A          369 QTVDEALKDAQTRITAARDGLRAVMEARNVTHLLQQELTEAQKGFQDVEA  418 (471)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhhHHHHHhhhHHHHHHHHHHHHhhhHHHHHH
Confidence            456666666666666554443      34456788888888888765433

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

Probab=82.04  E-value=31  Score=31.76  Aligned_cols=15  Identities=20%  Similarity=0.251  Sum_probs=7.4

Q ss_pred             HHHHHHHHHHHhhcc
Q 021664          216 LGVKKLCDRARELEN  230 (309)
Q Consensus       216 ~GV~~LC~f~~~~~~  230 (309)
                      .....|-+.+..++.
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

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

Probab=81.15  E-value=34  Score=31.54  Aligned_cols=9  Identities=22%  Similarity=0.313  Sum_probs=3.8

Q ss_pred             HHHHHHHHH
Q 021664           61 LLAEVSSVQ   69 (309)
Q Consensus        61 L~aQV~~La   69 (309)
                      |...+++++
T Consensus        11 l~~~~~~ia   19 (341)
T 3zx6_A           11 LSNTVDKIA   19 (341)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444444

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=80.39  E-value=11  Score=29.44  Aligned_cols=68  Identities=15%  Similarity=0.205  Sum_probs=48.9

Q ss_pred             HhhhhhhHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHH
Q 021664          155 ITSVDRDVNKIVEISQATQEEVTILRGRSKLIGDEFQSVRDIVQTLESKLIEIEGKQDITTLGVKKLC  222 (309)
Q Consensus       155 I~~vD~klde~~eis~~i~~eV~~v~~dl~~ig~Dv~~v~~~V~~Le~Ki~~ie~kQd~Tn~GV~~LC  222 (309)
                      ++.|..|+++..+.+...+-||.+++++-.....+.+.++.-...|+.....+..-|..=...|..|.
T Consensus         8 leqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~~~~~~~L~~en~qLk~E~~~wq~Rl~~LL   75 (81)
T 2jee_A            8 FEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQERLQALL   75 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56677777777777777788888888777777777777777777777777777666666666665553

---

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	309
d1lvfa_	106	Syntaxin 6, SNAP-25 homolog {Rat (Rattus norvegicu	88.66

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

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

Probab=88.66  E-value=0.37  Score=36.62  Aligned_cols=62  Identities=18%  Similarity=0.213  Sum_probs=44.7

Q ss_pred             hhhhHHHHHHHHHHhHHHHHHHHHHHHHHHHHhHhhhhhhHHHHHHHHHHHHHHHHHhhhchh
Q 021664          122 TRRSLSDACNSVARQLEDVYSSISAAQRQLSSKITSVDRDVNKIVEISQATQEEVTILRGRSK  184 (309)
Q Consensus       122 TKRnms~Av~sv~KqLeqVs~sL~~aKrhLsqRI~~vD~klde~~eis~~i~~eV~~v~~dl~  184 (309)
                      +++-|.++|.++-.+|+.+.+++..+.++ -.|-.-=+..++.-....+.++++|..++..+.
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            57889999999999999999999998876 333321133466666667777777766666543