Citrus Sinensis ID: 006246

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650----
Protein Sequence
MSTKVTTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW
Secondary Structure (PSIPRED)
cccccccccccccccHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHcccccccEEHHHHHHHHccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHccccccEEHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHcccccHHHHHHHHHHHcHHHcccccccccHHHHHHHHHccccHHHHHHHHHcccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHcccccccHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHcccEEEEEccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcHccccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHccccccccEEEEcccHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEccccccccccccEcccccc
Coil and Loop (DISEMBL)
mstkvtttdlphhlkpeeisatniptsefsqKTILDILNTKCHTSWQHLKQAHAVILKsghfqdhyvsgtlvkchansrfsnFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEmvgvdskpnkftyptvfkacsiteadKEGVQVHAHVVKnglcgdvhvkssgiqmyacfgcvnkarqilddgsksdVICWNALIDGYLKCGDIEGAKELFKStkdkntgsyNAMISGFARFGRFEEARKLFNEmndkdeitwSAIIDGYTKDGYYKEALEVFNEMqrdkikprkFVLSCVLAACASLgaldqgiwihdhvkrnsicvDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQRekmrpdriTFACVLSACAHAGMIDRGLQALTYMQQmygidpevehYGCIVDLLGRAGYLAEAEEVissmpmepnAAVWEALLGACRKHGEVEFGERLGKILLemepqnrrcdDVAKMRKLMKErgiktnpgssmidvngvihefrtgdgshpqVKEIYLMLKKIIEKLkmegyspnssqvlfdideeeketapkyhsEKLAIAFGfintdpgaTIRVIKNLRVCEDCHSATKLISKVFkrdiivrdrvryhhfrngkcscndfw
Flexible Loop (DISEMBL)
mstkvtttdlphhlkpeeisatniptsefSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFkstkdkntgsyNAMISGFARFGRFEEARKLFnemndkdeitwSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLgkillemepqnrrcddVAKMRKLMkergiktnpgssmidvNGVIHEfrtgdgshpqvKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSAtkliskvfkrdiivrdrvryhhfrngkcscndfw
Low Complexity Region (SEG)
MSTKVTTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVkeiylmlkkiieklkmeGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW
Disordered region (IsUnstruct)
*****************************SQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEM*****************************MIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGY******VLF************YHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCN***
Disordered Region (DISOPRED)
***************************EFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW
Disordered Region (DISEMBL)
MSTKVTTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW
Disordered Region (DISPRO)
*STKVTTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSTKVTTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	654	2.2.26 [Sep-21-2011]
Q9FI80	646	Pentatricopeptide repeat-	yes	no	0.894	0.905	0.416	1e-147
Q9FJY7	620	Pentatricopeptide repeat-	no	no	0.882	0.930	0.402	1e-143
O82380	738	Pentatricopeptide repeat-	no	no	0.980	0.868	0.373	1e-142
Q9LN01	741	Pentatricopeptide repeat-	no	no	0.986	0.870	0.379	1e-141
Q9FND7	612	Putative pentatricopeptid	no	no	0.885	0.946	0.378	1e-130
Q9SZT8	632	Pentatricopeptide repeat-	no	no	0.937	0.969	0.371	1e-129
Q9FG16	622	Pentatricopeptide repeat-	no	no	0.886	0.932	0.370	1e-128
Q9MAT2	665	Pentatricopeptide repeat-	no	no	0.922	0.906	0.373	1e-126
Q9SR82	685	Putative pentatricopeptid	no	no	0.966	0.922	0.346	1e-124
O23337	722	Pentatricopeptide repeat-	no	no	0.957	0.867	0.353	1e-123

>sp|Q9FI80|PP425_ARATH Pentatricopeptide repeat-containing protein At5g48910 OS=Arabidopsis thaliana GN=PCMP-H38 PE=2 SV=1

 Score =  523 bits (1346), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 262/629 (41%), Positives = 401/629 (63%), Gaps = 44/629 (6%)

Query: 49  LKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFEL--ALKVFNSVHKPNVFVWNSVLR 106
           L Q HAV +KSG  +D   +  +++  A S   + +L  A K+FN + + N F WN+++R
Sbjct: 39  LSQIHAVFIKSGQMRDTLAAAEILRFCATSDLHHRDLDYAHKIFNQMPQRNCFSWNTIIR 98

Query: 107 ACLEHNEPWRVI--SLYSEMVGVD-SKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNG 163
              E +E   +I  +L+ EM+  +  +PN+FT+P+V KAC+ T   +EG Q+H   +K G
Sbjct: 99  GFSESDEDKALIAITLFYEMMSDEFVEPNRFTFPSVLKACAKTGKIQEGKQIHGLALKYG 158

Query: 164 LCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFK 223
             GD  V S+ ++MY   G +  AR          V+ +  +I+           K++  
Sbjct: 159 FGGDEFVMSNLVRMYVMCGFMKDAR----------VLFYKNIIE-----------KDMVV 197

Query: 224 ST----KDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKE 279
            T    +D     +N MI G+ R G  + AR LF++M  +  ++W+ +I GY+ +G++K+
Sbjct: 198 MTDRRKRDGEIVLWNVMIDGYMRLGDCKAARMLFDKMRQRSVVSWNTMISGYSLNGFFKD 257

Query: 280 ALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD 339
           A+EVF EM++  I+P    L  VL A + LG+L+ G W+H + + + I +D VLG+AL+D
Sbjct: 258 AVEVFREMKKGDIRPNYVTLVSVLPAISRLGSLELGEWLHLYAEDSGIRIDDVLGSALID 317

Query: 340 MYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT 399
           MY+KCG ++ A  VFE +  + V TW+AMI G A+HG+A DAI+ F KM++  +RP  + 
Sbjct: 318 MYSKCGIIEKAIHVFERLPRENVITWSAMINGFAIHGQAGDAIDCFCKMRQAGVRPSDVA 377

Query: 400 FACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM 459
           +  +L+AC+H G+++ G +  + M  + G++P +EHYGC+VDLLGR+G L EAEE I +M
Sbjct: 378 YINLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEHYGCMVDLLGRSGLLDEAEEFILNM 437

Query: 460 PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRC--------------DDVA 505
           P++P+  +W+ALLGACR  G VE G+R+  IL++M P +                  +V+
Sbjct: 438 PIKPDDVIWKALLGACRMQGNVEMGKRVANILMDMVPHDSGAYVALSNMYASQGNWSEVS 497

Query: 506 KMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSP 565
           +MR  MKE+ I+ +PG S+ID++GV+HEF   D SHP+ KEI  ML +I +KL++ GY P
Sbjct: 498 EMRLRMKEKDIRKDPGCSLIDIDGVLHEFVVEDDSHPKAKEINSMLVEISDKLRLAGYRP 557

Query: 566 NSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLIS 625
            ++QVL +++EE+KE    YHSEK+A AFG I+T PG  IR++KNLR+CEDCHS+ KLIS
Sbjct: 558 ITTQVLLNLEEEDKENVLHYHSEKIATAFGLISTSPGKPIRIVKNLRICEDCHSSIKLIS 617

Query: 626 KVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
           KV+KR I VRDR R+HHF++G CSC D+W
Sbjct: 618 KVYKRKITVRDRKRFHHFQDGSCSCMDYW 646

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g66520 OS=Arabidopsis thaliana GN=PCMP-H61 PE=2 SV=1

 Score =  510 bits (1313), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 251/624 (40%), Positives = 377/624 (60%), Gaps = 47/624 (7%)

Query: 47  QHLKQAHAVILKSGHFQDHY-VSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVL 105
           + LKQ HA +LK+G  QD Y ++  L  C +++       A  VF+   +P+ F+WN ++
Sbjct: 28  EELKQIHARMLKTGLMQDSYAITKFLSFCISSTSSDFLPYAQIVFDGFDRPDTFLWNLMI 87

Query: 106 RACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLC 165
           R     +EP R + LY  M+   +  N +T+P++ KACS   A +E  Q+HA + K G  
Sbjct: 88  RGFSCSDEPERSLLLYQRMLCSSAPHNAYTFPSLLKACSNLSAFEETTQIHAQITKLGY- 146

Query: 166 GDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKST 225
                                         ++DV   N+LI+ Y   G+ + A  LF   
Sbjct: 147 ------------------------------ENDVYAVNSLINSYAVTGNFKLAHLLFDRI 176

Query: 226 KDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFN 285
            + +  S+N++I G+ + G+ + A  LF +M +K+ I+W+ +I GY +    KEAL++F+
Sbjct: 177 PEPDDVSWNSVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEALQLFH 236

Query: 286 EMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCG 345
           EMQ   ++P    L+  L+ACA LGAL+QG WIH ++ +  I +D+VLG  L+DMYAKCG
Sbjct: 237 EMQNSDVEPDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCG 296

Query: 346 RLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLS 405
            ++ A +VF+++K K V  W A+I G A HG   +AI  F +MQ+  ++P+ ITF  VL+
Sbjct: 297 EMEEALEVFKNIKKKSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLT 356

Query: 406 ACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNA 465
           AC++ G+++ G      M++ Y + P +EHYGCIVDLLGRAG L EA+  I  MP++PNA
Sbjct: 357 ACSYTGLVEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNA 416

Query: 466 AVWEALLGACRKHGEVEFGERLGKILLEMEP--------------QNRRCDDVAKMRKLM 511
            +W ALL ACR H  +E GE +G+IL+ ++P               +++ D  A+ R+LM
Sbjct: 417 VIWGALLKACRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHAMDKKWDKAAETRRLM 476

Query: 512 KERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVL 571
           KE+G+   PG S I + G  HEF  GD SHP++++I    + +  KL+  GY P   ++L
Sbjct: 477 KEQGVAKVPGCSTISLEGTTHEFLAGDRSHPEIEKIQSKWRIMRRKLEENGYVPELEEML 536

Query: 572 FD-IDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKR 630
            D +D++E+E     HSEKLAI +G I T PG  IR++KNLRVC+DCH  TKLISK++KR
Sbjct: 537 LDLVDDDEREAIVHQHSEKLAITYGLIKTKPGTIIRIMKNLRVCKDCHKVTKLISKIYKR 596

Query: 631 DIIVRDRVRYHHFRNGKCSCNDFW 654
           DI++RDR R+HHFR+GKCSC D+W
Sbjct: 597 DIVMRDRTRFHHFRDGKCSCGDYW 620

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score =  504 bits (1299), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 274/733 (37%), Positives = 412/733 (56%), Gaps = 92/733 (12%)

Query: 9   DLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVS 68
            LP H      S  N PT+   +   + ++  +C  S + LKQ H  ++++G F D Y +
Sbjct: 11  SLPRH---PNFSNPNQPTTNNERSRHISLIE-RC-VSLRQLKQTHGHMIRTGTFSDPYSA 65

Query: 69  GTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVD 128
             L    A S F++ E A KVF+ + KPN F WN+++RA     +P   I  + +MV   
Sbjct: 66  SKLFAMAALSSFASLEYARKVFDEIPKPNSFAWNTLIRAYASGPDPVLSIWAFLDMVSES 125

Query: 129 S-KPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGL----------------CGDVH-- 169
              PNK+T+P + KA +   +   G  +H   VK+ +                CGD+   
Sbjct: 126 QCYPNKYTFPFLIKAAAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGDLDSA 185

Query: 170 ------------------------------------------VKSSGIQMYACFGCVNKA 187
                                                     VK+S + M        K 
Sbjct: 186 CKVFTTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKI 245

Query: 188 RQ----------ILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMI 237
           R           I ++    ++   NA++D Y KCG IE AK LF + ++K+  ++  M+
Sbjct: 246 RNLEFGRQVCSYIEENRVNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDNVTWTTML 305

Query: 238 SGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDK-IKPRK 296
            G+A    +E AR++ N M  KD + W+A+I  Y ++G   EAL VF+E+Q  K +K  +
Sbjct: 306 DGYAISEDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNMKLNQ 365

Query: 297 FVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFED 356
             L   L+ACA +GAL+ G WIH ++K++ I ++  + +AL+ MY+KCG L+ + +VF  
Sbjct: 366 ITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKSREVFNS 425

Query: 357 MKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRG 416
           ++ ++VF W+AMIGGLAMHG  ++A+++F+KMQ   ++P+ +TF  V  AC+H G++D  
Sbjct: 426 VEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEA 485

Query: 417 LQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACR 476
                 M+  YGI PE +HY CIVD+LGR+GYL +A + I +MP+ P+ +VW ALLGAC+
Sbjct: 486 ESLFHQMESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWGALLGACK 545

Query: 477 KHGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTNPGS 522
            H  +   E     LLE+EP+N               + ++V+++RK M+  G+K  PG 
Sbjct: 546 IHANLNLAEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTGLKKEPGC 605

Query: 523 SMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEE-KET 581
           S I+++G+IHEF +GD +HP  +++Y  L +++EKLK  GY P  SQVL  I+EEE KE 
Sbjct: 606 SSIEIDGMIHEFLSGDNAHPMSEKVYGKLHEVMEKLKSNGYEPEISQVLQIIEEEEMKEQ 665

Query: 582 APKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYH 641
           +   HSEKLAI +G I+T+    IRVIKNLRVC DCHS  KLIS+++ R+IIVRDR R+H
Sbjct: 666 SLNLHSEKLAICYGLISTEAPKVIRVIKNLRVCGDCHSVAKLISQLYDREIIVRDRYRFH 725

Query: 642 HFRNGKCSCNDFW 654
           HFRNG+CSCNDFW
Sbjct: 726 HFRNGQCSCNDFW 738

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LN01|PPR21_ARATH Pentatricopeptide repeat-containing protein At1g08070 OS=Arabidopsis thaliana GN=PCMP-H12 PE=2 SV=1

 Score =  504 bits (1297), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 280/737 (37%), Positives = 418/737 (56%), Gaps = 92/737 (12%)

Query: 5   VTTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQD 64
           V ++  P H  P   S+++ P         L +L+  C T  Q L+  HA ++K G    
Sbjct: 10  VPSSSYPFHFLP---SSSDPPYDSIRNHPSLSLLHN-CKT-LQSLRIIHAQMIKIGLHNT 64

Query: 65  HYVSGTLVK-CHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSE 123
           +Y    L++ C  +  F     A+ VF ++ +PN+ +WN++ R     ++P   + LY  
Sbjct: 65  NYALSKLIEFCILSPHFEGLPYAISVFKTIQEPNLLIWNTMFRGHALSSDPVSALKLYVC 124

Query: 124 MVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMY----- 178
           M+ +   PN +T+P V K+C+ ++A KEG Q+H HV+K G   D++V +S I MY     
Sbjct: 125 MISLGLLPNSYTFPFVLKSCAKSKAFKEGQQIHGHVLKLGCDLDLYVHTSLISMYVQNGR 184

Query: 179 --------------------------ACFGCVNKARQILDDGSKSDVICWNALIDGYLKC 212
                                     A  G +  A+++ D+    DV+ WNA+I GY + 
Sbjct: 185 LEDAHKVFDKSPHRDVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAET 244

Query: 213 GDIEGAKELFKSTKDKN-----------------TGS----------------------Y 233
           G+ + A ELFK     N                 +GS                       
Sbjct: 245 GNYKEALELFKDMMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIV 304

Query: 234 NAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIK 293
           NA+I  +++ G  E A  LF  +  KD I+W+ +I GYT    YKEAL +F EM R    
Sbjct: 305 NALIDLYSKCGELETACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGET 364

Query: 294 PRKFVLSCVLAACASLGALDQGIWIHDHVKR--NSICVDAVLGTALVDMYAKCGRLDMAW 351
           P    +  +L ACA LGA+D G WIH ++ +    +   + L T+L+DMYAKCG ++ A 
Sbjct: 365 PNDVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAH 424

Query: 352 KVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAG 411
           +VF  +  K + +WNAMI G AMHGRAD + +LF +M++  ++PD ITF  +LSAC+H+G
Sbjct: 425 QVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSG 484

Query: 412 MIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEAL 471
           M+D G      M Q Y + P++EHYGC++DLLG +G   EAEE+I+ M MEP+  +W +L
Sbjct: 485 MLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSL 544

Query: 472 LGACRKHGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIK 517
           L AC+ HG VE GE   + L+++EP+N               R ++VAK R L+ ++G+K
Sbjct: 545 LKACKMHGNVELGESFAENLIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMK 604

Query: 518 TNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEE 577
             PG S I+++ V+HEF  GD  HP+ +EIY ML+++   L+  G+ P++S+VL +++EE
Sbjct: 605 KVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAGFVPDTSEVLQEMEEE 664

Query: 578 EKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDR 637
            KE A ++HSEKLAIAFG I+T PG  + ++KNLRVC +CH ATKLISK++KR+II RDR
Sbjct: 665 WKEGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRVCRNCHEATKLISKIYKREIIARDR 724

Query: 638 VRYHHFRNGKCSCNDFW 654
            R+HHFR+G CSCND+W
Sbjct: 725 TRFHHFRDGVCSCNDYW 741

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FND7|PP410_ARATH Putative pentatricopeptide repeat-containing protein At5g40405 OS=Arabidopsis thaliana GN=PCMP-H14 PE=3 SV=1

 Score =  467 bits (1202), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 237/626 (37%), Positives = 363/626 (57%), Gaps = 47/626 (7%)

Query: 45  SWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSV 104
           +++ ++Q HA +   G  +D ++ G  VK  A S     + A ++ +   KP +F  NS+
Sbjct: 18  TFKEVRQIHAKLYVDGTLKDDHLVGHFVKAVALSDHKYLDYANQILDRSEKPTLFALNSM 77

Query: 105 LRACLEHNEPWRVISLYSEMV--GVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKN 162
           +RA  +   P +    Y  ++  G D KP+ +T   + +AC+     + G+QVH   ++ 
Sbjct: 78  IRAHCKSPVPEKSFDFYRRILSSGNDLKPDNYTVNFLVQACTGLRMRETGLQVHGMTIRR 137

Query: 163 GLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELF 222
           G   D HV++  I +YA  GC++   ++ +     D +C  A++    +CGD+     +F
Sbjct: 138 GFDNDPHVQTGLISLYAELGCLDSCHKVFNSIPCPDFVCRTAMVTACARCGDV-----VF 192

Query: 223 KSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALE 282
                                     ARKLF  M ++D I W+A+I GY + G  +EAL 
Sbjct: 193 --------------------------ARKLFEGMPERDPIAWNAMISGYAQVGESREALN 226

Query: 283 VFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYA 342
           VF+ MQ + +K     +  VL+AC  LGALDQG W H +++RN I +   L T LVD+YA
Sbjct: 227 VFHLMQLEGVKVNGVAMISVLSACTQLGALDQGRWAHSYIERNKIKITVRLATTLVDLYA 286

Query: 343 KCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFAC 402
           KCG ++ A +VF  M+ K V+TW++ + GLAM+G  +  +ELF  M+++ + P+ +TF  
Sbjct: 287 KCGDMEKAMEVFWGMEEKNVYTWSSALNGLAMNGFGEKCLELFSLMKQDGVTPNAVTFVS 346

Query: 403 VLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPME 462
           VL  C+  G +D G +    M+  +GI+P++EHYGC+VDL  RAG L +A  +I  MPM+
Sbjct: 347 VLRGCSVVGFVDEGQRHFDSMRNEFGIEPQLEHYGCLVDLYARAGRLEDAVSIIQQMPMK 406

Query: 463 PNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRC--------------DDVAKMR 508
           P+AAVW +LL A R +  +E G    K +LE+E  N                 D+V+ +R
Sbjct: 407 PHAAVWSSLLHASRMYKNLELGVLASKKMLELETANHGAYVLLSNIYADSNDWDNVSHVR 466

Query: 509 KLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSS 568
           + MK +G++  PG S+++VNG +HEF  GD SHP+  +I  + K I  +L++ GY  +++
Sbjct: 467 QSMKSKGVRKQPGCSVMEVNGEVHEFFVGDKSHPKYTQIDAVWKDISRRLRLAGYKADTT 526

Query: 569 QVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVF 628
            V+FDIDEEEKE A   HSEK AIAFG ++      IR++KNLRVC DCH  + +ISK+F
Sbjct: 527 PVMFDIDEEEKEDALCLHSEKAAIAFGIMSLKEDVPIRIVKNLRVCGDCHQVSMMISKIF 586

Query: 629 KRDIIVRDRVRYHHFRNGKCSCNDFW 654
            R+IIVRDR R+HHF++G CSCN FW
Sbjct: 587 NREIIVRDRNRFHHFKDGHCSCNGFW 612

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZT8|PP354_ARATH Pentatricopeptide repeat-containing protein At4g37380, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H48 PE=3 SV=1

 Score =  464 bits (1193), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 249/670 (37%), Positives = 379/670 (56%), Gaps = 57/670 (8%)

Query: 2   STKVTTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGH 61
           S+ +  T LP +    ++S T            L +L  K   S   + Q HA IL+   
Sbjct: 3   SSPLLATSLPQN----QLSTTATARFRLPPPEKLAVLIDKSQ-SVDEVLQIHAAILRHNL 57

Query: 62  FQDHYVSGTLVKCH-ANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISL 120
                     +K H A +       +L +F+    P++F++ + +     +    +   L
Sbjct: 58  LLHPRYPVLNLKLHRAYASHGKIRHSLALFHQTIDPDLFLFTAAINTASINGLKDQAFLL 117

Query: 121 YSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC 180
           Y +++  +  PN+FT+ ++ K+CS     K G  +H HV+K GL         GI  Y  
Sbjct: 118 YVQLLSSEINPNEFTFSSLLKSCS----TKSGKLIHTHVLKFGL---------GIDPYVA 164

Query: 181 FGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGF 240
            G                      L+D Y K GD+  A+++F    +++  S  AMI+ +
Sbjct: 165 TG----------------------LVDVYAKGGDVVSAQKVFDRMPERSLVSSTAMITCY 202

Query: 241 ARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRD-KIKPRKFVL 299
           A+ G  E AR LF+ M ++D ++W+ +IDGY + G+  +AL +F ++  + K KP +  +
Sbjct: 203 AKQGNVEAARALFDSMCERDIVSWNVMIDGYAQHGFPNDALMLFQKLLAEGKPKPDEITV 262

Query: 300 SCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM 359
              L+AC+ +GAL+ G WIH  VK + I ++  + T L+DMY+KCG L+ A  VF D   
Sbjct: 263 VAALSACSQIGALETGRWIHVFVKSSRIRLNVKVCTGLIDMYSKCGSLEEAVLVFNDTPR 322

Query: 360 KEVFTWNAMIGGLAMHGRADDAIELFFKMQR-EKMRPDRITFACVLSACAHAGMIDRGLQ 418
           K++  WNAMI G AMHG + DA+ LF +MQ    ++P  ITF   L ACAHAG+++ G++
Sbjct: 323 KDIVAWNAMIAGYAMHGYSQDALRLFNEMQGITGLQPTDITFIGTLQACAHAGLVNEGIR 382

Query: 419 ALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKH 478
               M Q YGI P++EHYGC+V LLGRAG L  A E I +M M+ ++ +W ++LG+C+ H
Sbjct: 383 IFESMGQEYGIKPKIEHYGCLVSLLGRAGQLKRAYETIKNMNMDADSVLWSSVLGSCKLH 442

Query: 479 GEVEFGERLGKILLEMEPQNRRC--------------DDVAKMRKLMKERGIKTNPGSSM 524
           G+   G+ + + L+ +  +N                 + VAK+R LMKE+GI   PG S 
Sbjct: 443 GDFVLGKEIAEYLIGLNIKNSGIYVLLSNIYASVGDYEGVAKVRNLMKEKGIVKEPGIST 502

Query: 525 IDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPK 584
           I++   +HEFR GD  H + KEIY ML+KI E++K  GY PN++ VL D++E EKE + +
Sbjct: 503 IEIENKVHEFRAGDREHSKSKEIYTMLRKISERIKSHGYVPNTNTVLQDLEETEKEQSLQ 562

Query: 585 YHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFR 644
            HSE+LAIA+G I+T PG+ +++ KNLRVC DCH+ TKLISK+  R I++RDR R+HHF 
Sbjct: 563 VHSERLAIAYGLISTKPGSPLKIFKNLRVCSDCHTVTKLISKITGRKIVMRDRNRFHHFT 622

Query: 645 NGKCSCNDFW 654
           +G CSC DFW
Sbjct: 623 DGSCSCGDFW 632

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FG16|PP367_ARATH Pentatricopeptide repeat-containing protein At5g06540 OS=Arabidopsis thaliana GN=PCMP-H88 PE=2 SV=1

 Score =  461 bits (1185), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 234/631 (37%), Positives = 380/631 (60%), Gaps = 51/631 (8%)

Query: 44  TSWQHLKQAHAVILKSGHFQDHYVSGTLVK-CHANSRFSN----FELALKVFNSVHKPNV 98
           +S+  LK  H  +L++    D +V+  L+  C  +S F+        A  +F+ +  PN+
Sbjct: 23  SSFSDLKIIHGFLLRTHLISDVFVASRLLALCVDDSTFNKPTNLLGYAYGIFSQIQNPNL 82

Query: 99  FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAH 158
           FV+N ++R      EP +    Y++M+     P+  T+P + KA S  E    G Q H+ 
Sbjct: 83  FVFNLLIRCFSTGAEPSKAFGFYTQMLKSRIWPDNITFPFLIKASSEMECVLVGEQTHSQ 142

Query: 159 VVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGA 218
           +V+ G   DV+V+                               N+L+  Y  CG I  A
Sbjct: 143 IVRFGFQNDVYVE-------------------------------NSLVHMYANCGFIAAA 171

Query: 219 KELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYK 278
             +F     ++  S+ +M++G+ + G  E AR++F+EM  ++  TWS +I+GY K+  ++
Sbjct: 172 GRIFGQMGFRDVVSWTSMVAGYCKCGMVENAREMFDEMPHRNLFTWSIMINGYAKNNCFE 231

Query: 279 EALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALV 338
           +A+++F  M+R+ +   + V+  V+++CA LGAL+ G   +++V ++ + V+ +LGTALV
Sbjct: 232 KAIDLFEFMKREGVVANETVMVSVISSCAHLGALEFGERAYEYVVKSHMTVNLILGTALV 291

Query: 339 DMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI 398
           DM+ +CG ++ A  VFE +   +  +W+++I GLA+HG A  A+  F +M      P  +
Sbjct: 292 DMFWRCGDIEKAIHVFEGLPETDSLSWSSIIKGLAVHGHAHKAMHYFSQMISLGFIPRDV 351

Query: 399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISS 458
           TF  VLSAC+H G++++GL+    M++ +GI+P +EHYGCIVD+LGRAG LAEAE  I  
Sbjct: 352 TFTAVLSACSHGGLVEKGLEIYENMKKDHGIEPRLEHYGCIVDMLGRAGKLAEAENFILK 411

Query: 459 MPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR--------------RCDDV 504
           M ++PNA +  ALLGAC+ +   E  ER+G +L++++P++               + D +
Sbjct: 412 MHVKPNAPILGALLGACKIYKNTEVAERVGNMLIKVKPEHSGYYVLLSNIYACAGQWDKI 471

Query: 505 AKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGS-HPQVKEIYLMLKKIIEKLKMEGY 563
             +R +MKE+ +K  PG S+I+++G I++F  GD   HP++ +I    ++I+ K+++ GY
Sbjct: 472 ESLRDMMKEKLVKKPPGWSLIEIDGKINKFTMGDDQKHPEMGKIRRKWEEILGKIRLIGY 531

Query: 564 SPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKL 623
             N+    FD+DEEEKE++   HSEKLAIA+G + T PG TIR++KNLRVCEDCH+ TKL
Sbjct: 532 KGNTGDAFFDVDEEEKESSIHMHSEKLAIAYGMMKTKPGTTIRIVKNLRVCEDCHTVTKL 591

Query: 624 ISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
           IS+V+ R++IVRDR R+HHFRNG CSC D+W
Sbjct: 592 ISEVYGRELIVRDRNRFHHFRNGVCSCRDYW 622

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MAT2|PPR10_ARATH Pentatricopeptide repeat-containing protein At1g04840 OS=Arabidopsis thaliana GN=PCMP-H64 PE=2 SV=1

 Score =  454 bits (1167), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 233/624 (37%), Positives = 365/624 (58%), Gaps = 21/624 (3%)

Query: 49  LKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRAC 108
           L+  HA IL+ G      V+  LV C  +S   + + +L +F +  + N FV N+++R  
Sbjct: 45  LRHVHAQILRRGVLSSR-VAAQLVSC--SSLLKSPDYSLSIFRNSEERNPFVLNALIRGL 101

Query: 109 LEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDV 168
            E+      +  +  M+ +  KP++ T+P V K+ S       G  +HA  +KN +  D 
Sbjct: 102 TENARFESSVRHFILMLRLGVKPDRLTFPFVLKSNSKLGFRWLGRALHAATLKNFVDCDS 161

Query: 169 HVKSSGIQMYACFGCVNKARQILDDG----SKSDVICWNALIDGYLKCGDIEGAKELFKS 224
            V+ S + MYA  G +  A Q+ ++      K  ++ WN LI+GY +  D+  A  LF+S
Sbjct: 162 FVRLSLVDMYAKTGQLKHAFQVFEESPDRIKKESILIWNVLINGYCRAKDMHMATTLFRS 221

Query: 225 TKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVF 284
             ++N+GS++ +I G+   G    A++LF  M +K+ ++W+ +I+G+++ G Y+ A+  +
Sbjct: 222 MPERNSGSWSTLIKGYVDSGELNRAKQLFELMPEKNVVSWTTLINGFSQTGDYETAISTY 281

Query: 285 NEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKC 344
            EM    +KP ++ ++ VL+AC+  GAL  GI IH ++  N I +D  +GTALVDMYAKC
Sbjct: 282 FEMLEKGLKPNEYTIAAVLSACSKSGALGSGIRIHGYILDNGIKLDRAIGTALVDMYAKC 341

Query: 345 GRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVL 404
           G LD A  VF +M  K++ +W AMI G A+HGR   AI+ F +M     +PD + F  VL
Sbjct: 342 GELDCAATVFSNMNHKDILSWTAMIQGWAVHGRFHQAIQCFRQMMYSGEKPDEVVFLAVL 401

Query: 405 SACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPN 464
           +AC ++  +D GL     M+  Y I+P ++HY  +VDLLGRAG L EA E++ +MP+ P+
Sbjct: 402 TACLNSSEVDLGLNFFDSMRLDYAIEPTLKHYVLVVDLLGRAGKLNEAHELVENMPINPD 461

Query: 465 AAVWEALLGACRKHGEVEFGERLGKILLEMEPQ--------------NRRCDDVAKMRKL 510
              W AL  AC+ H      E + + LLE++P+                   DV K R  
Sbjct: 462 LTTWAALYRACKAHKGYRRAESVSQNLLELDPELCGSYIFLDKTHASKGNIQDVEKRRLS 521

Query: 511 MKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQV 570
           +++R  + + G S I+++G +++F  GD SH   +EI L L +II     +GY+P +   
Sbjct: 522 LQKRIKERSLGWSYIELDGQLNKFSAGDYSHKLTQEIGLKLDEIISLAIQKGYNPGADWS 581

Query: 571 LFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKR 630
           + DI+EEEKE     HSEKLA+  GF+ T PG TIR+IKNLR+C DCHS  K +SK+ +R
Sbjct: 582 IHDIEEEEKENVTGIHSEKLALTLGFLRTAPGTTIRIIKNLRICGDCHSLMKYVSKISQR 641

Query: 631 DIIVRDRVRYHHFRNGKCSCNDFW 654
           DI++RD  ++HHF++G+CSC D+W
Sbjct: 642 DILLRDARQFHHFKDGRCSCGDYW 665

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SR82|PP219_ARATH Putative pentatricopeptide repeat-containing protein At3g08820 OS=Arabidopsis thaliana GN=PCMP-H84 PE=3 SV=1

 Score =  446 bits (1147), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 239/689 (34%), Positives = 373/689 (54%), Gaps = 57/689 (8%)

Query: 19  ISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANS 78
           +S   +P++    + I  +++  C  +  HLKQ H  ++      D ++   L+K     
Sbjct: 1   MSIVTVPSATSKVQQIKTLISVACTVN--HLKQIHVSLINHHLHHDTFLVNLLLKRTLFF 58

Query: 79  RFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPT 138
           R + +   L  F+    PN+F++NS++   + ++     + L+  +       + FT+P 
Sbjct: 59  RQTKYSYLL--FSHTQFPNIFLYNSLINGFVNNHLFHETLDLFLSIRKHGLYLHGFTFPL 116

Query: 139 VFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSD 198
           V KAC+   + K G+ +H+ VVK G   DV   +S + +Y+  G +N A ++ D+     
Sbjct: 117 VLKACTRASSRKLGIDLHSLVVKCGFNHDVAAMTSLLSIYSGSGRLNDAHKLFDEIPDRS 176

Query: 199 VICWNALIDGYLKCGDIEGAKELFKSTKD------------------------------- 227
           V+ W AL  GY   G    A +LFK   +                               
Sbjct: 177 VVTWTALFSGYTTSGRHREAIDLFKKMVEMGVKPDSYFIVQVLSACVHVGDLDSGEWIVK 236

Query: 228 --------KNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKE 279
                   KN+     +++ +A+ G+ E+AR +F+ M +KD +TWS +I GY  + + KE
Sbjct: 237 YMEEMEMQKNSFVRTTLVNLYAKCGKMEKARSVFDSMVEKDIVTWSTMIQGYASNSFPKE 296

Query: 280 ALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD 339
            +E+F +M ++ +KP +F +   L++CASLGALD G W    + R+    +  +  AL+D
Sbjct: 297 GIELFLQMLQENLKPDQFSIVGFLSSCASLGALDLGEWGISLIDRHEFLTNLFMANALID 356

Query: 340 MYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT 399
           MYAKCG +   ++VF++MK K++   NA I GLA +G    +  +F + ++  + PD  T
Sbjct: 357 MYAKCGAMARGFEVFKEMKEKDIVIMNAAISGLAKNGHVKLSFAVFGQTEKLGISPDGST 416

Query: 400 FACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM 459
           F  +L  C HAG+I  GL+    +  +Y +   VEHYGC+VDL GRAG L +A  +I  M
Sbjct: 417 FLGLLCGCVHAGLIQDGLRFFNAISCVYALKRTVEHYGCMVDLWGRAGMLDDAYRLICDM 476

Query: 460 PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR--------------RCDDVA 505
           PM PNA VW ALL  CR   + +  E + K L+ +EP N               R D+ A
Sbjct: 477 PMRPNAIVWGALLSGCRLVKDTQLAETVLKELIALEPWNAGNYVQLSNIYSVGGRWDEAA 536

Query: 506 KMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSP 565
           ++R +M ++G+K  PG S I++ G +HEF   D SHP   +IY  L+ +  ++++ G+ P
Sbjct: 537 EVRDMMNKKGMKKIPGYSWIELEGKVHEFLADDKSHPLSDKIYAKLEDLGNEMRLMGFVP 596

Query: 566 NSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLIS 625
            +  V FD++EEEKE    YHSEKLA+A G I+TD G  IRV+KNLRVC DCH   KLIS
Sbjct: 597 TTEFVFFDVEEEEKERVLGYHSEKLAVALGLISTDHGQVIRVVKNLRVCGDCHEVMKLIS 656

Query: 626 KVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
           K+ +R+I+VRD  R+H F NG CSCND+W
Sbjct: 657 KITRREIVVRDNNRFHCFTNGSCSCNDYW 685

Arabidopsis thaliana (taxid: 3702)

>sp|O23337|PP311_ARATH Pentatricopeptide repeat-containing protein At4g14820 OS=Arabidopsis thaliana GN=PCMP-H3 PE=2 SV=1

 Score =  443 bits (1139), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 255/721 (35%), Positives = 384/721 (53%), Gaps = 95/721 (13%)

Query: 25  PTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFE 84
           P +  +  TIL+ L+  C  S  H+KQ HA IL++    +H ++  L     +S   N  
Sbjct: 6   PIASTAANTILEKLSF-C-KSLNHIKQLHAHILRT--VINHKLNSFLFNLSVSSSSINLS 61

Query: 85  LALKVFNSV-HKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKAC 143
            AL VF+S+   P   V+N  LR     +EP   I  Y  +  V  + ++F++  + KA 
Sbjct: 62  YALNVFSSIPSPPESIVFNPFLRDLSRSSEPRATILFYQRIRHVGGRLDQFSFLPILKAV 121

Query: 144 SITEADKEGVQVHA----------HVVKNGL------CG---------------DVHVKS 172
           S   A  EG+++H             V+ G       CG               DV   +
Sbjct: 122 SKVSALFEGMELHGVAFKIATLCDPFVETGFMDMYASCGRINYARNVFDEMSHRDVVTWN 181

Query: 173 SGIQMYACFGCVNKARQILDDGSKSDVI-------------------------------- 200
           + I+ Y  FG V++A ++ ++   S+V+                                
Sbjct: 182 TMIERYCRFGLVDEAFKLFEEMKDSNVMPDEMILCNIVSACGRTGNMRYNRAIYEFLIEN 241

Query: 201 -------CWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLF 253
                     AL+  Y   G ++ A+E F+    +N     AM+SG+++ GR ++A+ +F
Sbjct: 242 DVRMDTHLLTALVTMYAGAGCMDMAREFFRKMSVRNLFVSTAMVSGYSKCGRLDDAQVIF 301

Query: 254 NEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALD 313
           ++   KD + W+ +I  Y +  Y +EAL VF EM    IKP    +  V++ACA+LG LD
Sbjct: 302 DQTEKKDLVCWTTMISAYVESDYPQEALRVFEEMCCSGIKPDVVSMFSVISACANLGILD 361

Query: 314 QGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLA 373
           +  W+H  +  N +  +  +  AL++MYAKCG LD    VFE M  + V +W++MI  L+
Sbjct: 362 KAKWVHSCIHVNGLESELSINNALINMYAKCGGLDATRDVFEKMPRRNVVSWSSMINALS 421

Query: 374 MHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEV 433
           MHG A DA+ LF +M++E + P+ +TF  VL  C+H+G+++ G +    M   Y I P++
Sbjct: 422 MHGEASDALSLFARMKQENVEPNEVTFVGVLYGCSHSGLVEEGKKIFASMTDEYNITPKL 481

Query: 434 EHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLE 493
           EHYGC+VDL GRA  L EA EVI SMP+  N  +W +L+ ACR HGE+E G+   K +LE
Sbjct: 482 EHYGCMVDLFGRANLLREALEVIESMPVASNVVIWGSLMSACRIHGELELGKFAAKRILE 541

Query: 494 MEP--------------QNRRCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDG 539
           +EP              + +R +DV  +R++M+E+ +    G S ID NG  HEF  GD 
Sbjct: 542 LEPDHDGALVLMSNIYAREQRWEDVRNIRRVMEEKNVFKEKGLSRIDQNGKSHEFLIGDK 601

Query: 540 SHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFIN- 598
            H Q  EIY  L +++ KLK+ GY P+   VL D++EEEK+    +HSEKLA+ FG +N 
Sbjct: 602 RHKQSNEIYAKLDEVVSKLKLAGYVPDCGSVLVDVEEEEKKDLVLWHSEKLALCFGLMNE 661

Query: 599 -----TDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDF 653
                 D    IR++KNLRVCEDCH   KL+SKV++R+IIVRDR R+H ++NG CSC D+
Sbjct: 662 EKEEEKDSCGVIRIVKNLRVCEDCHLFFKLVSKVYEREIIVRDRTRFHCYKNGLCSCRDY 721

Query: 654 W 654
           W
Sbjct: 722 W 722

Arabidopsis thaliana (taxid: 3702)

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	654
224124674	665	predicted protein [Populus trichocarpa]	0.992	0.975	0.680	0.0
449526834	666	PREDICTED: pentatricopeptide repeat-cont	0.993	0.975	0.617	0.0
449435966	666	PREDICTED: pentatricopeptide repeat-cont	0.993	0.975	0.614	0.0
147775281	673	hypothetical protein VITISV_030555 [Viti	0.989	0.961	0.611	0.0
225450565	672	PREDICTED: pentatricopeptide repeat-cont	0.989	0.962	0.609	0.0
296089786	624	unnamed protein product [Vitis vinifera]	0.886	0.929	0.531	0.0
255542916	422	pentatricopeptide repeat-containing prot	0.643	0.997	0.630	1e-163
224134923	635	predicted protein [Populus trichocarpa]	0.911	0.938	0.439	1e-160
449464596	734	PREDICTED: pentatricopeptide repeat-cont	0.969	0.863	0.397	1e-154
225423499	738	PREDICTED: pentatricopeptide repeat-cont	0.972	0.861	0.398	1e-152

>gi|224124674|ref|XP_002330082.1| predicted protein [Populus trichocarpa] gi|222871507|gb|EEF08638.1| predicted protein [Populus trichocarpa]

 Score =  938 bits (2424), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 451/663 (68%), Positives = 538/663 (81%), Gaps = 14/663 (2%)

Query: 6   TTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDH 65
           TTT+LP+HL  ++ S  N  TS+ SQKTILD+LNTK  TS  HLKQ HAV L++GHFQDH
Sbjct: 3   TTTNLPYHLASKDFSTENKFTSQLSQKTILDLLNTKSSTSLHHLKQVHAVALRTGHFQDH 62

Query: 66  YVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMV 125
           YVSGTLVKC+AN  FSN   ALKVF  V  PNVFV+N +++ CL++NEP + I  Y +M+
Sbjct: 63  YVSGTLVKCYANPHFSNLNFALKVFEYVPNPNVFVFNIIIKGCLQNNEPCKAICCYYKMM 122

Query: 126 GVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVN 185
              ++PNKFTYPT+FKAC+  EA +EGVQVHAHV+K GL GDVH++S+GIQMY  FG V 
Sbjct: 123 IAHARPNKFTYPTLFKACTAAEAAEEGVQVHAHVIKQGLSGDVHIRSAGIQMYGSFGEVE 182

Query: 186 KARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGR 245
            AR++L +   SDVIC+NA+IDGYLKCG++E AKELF S +DKN GS+N M+SG A+ G 
Sbjct: 183 GARRMLGEDGNSDVICFNAMIDGYLKCGEVEAAKELFWSMEDKNVGSWNVMVSGMAKCGM 242

Query: 246 FEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA 305
            EEAR+LFNEM +K+EI+WSA+IDGY K GYYKEALEVFN MQR++I+PRKFVLS VLAA
Sbjct: 243 IEEARELFNEMKEKNEISWSAMIDGYIKGGYYKEALEVFNVMQREEIRPRKFVLSSVLAA 302

Query: 306 CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTW 365
           CA+LGALDQG WIH +V  NS   DAVLGTALVDMYAKCGRLDMAW VFE M+ KEVFTW
Sbjct: 303 CANLGALDQGRWIHAYVNNNSNSFDAVLGTALVDMYAKCGRLDMAWDVFEKMEKKEVFTW 362

Query: 366 NAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ 425
           NAMI GL MHGRA+DAIELFFKMQ++K RP+ IT   VLSACAH+GM+D GL+    M++
Sbjct: 363 NAMICGLGMHGRAEDAIELFFKMQKQKFRPNGITLLGVLSACAHSGMVDEGLRIFNSMEE 422

Query: 426 MYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGE 485
           +YGI+P +EHYGC+VDLLGRAG L EAEEV+ SMPMEP+AAVW ALLGACRKHG+VE GE
Sbjct: 423 VYGIEPGMEHYGCVVDLLGRAGLLGEAEEVMYSMPMEPSAAVWGALLGACRKHGDVELGE 482

Query: 486 RLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTNPGSSMIDVNGVI 531
           R+GKILLE+EPQN               R DDVA +RKLMKERG+KT+ G SMID +GV+
Sbjct: 483 RVGKILLELEPQNSGRYALLSNIYARAGRWDDVANVRKLMKERGVKTSTGISMIDFDGVV 542

Query: 532 HEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLA 591
           HEF+ GDGSHPQ+K IYLMLK +I++LKMEG+SPN+SQVLFDI+EEEKE   +YHSEKLA
Sbjct: 543 HEFKMGDGSHPQMKNIYLMLKNMIKRLKMEGFSPNTSQVLFDIEEEEKEAELQYHSEKLA 602

Query: 592 IAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCN 651
           IAFG INT PG TI V+KNLR+CEDCHSA KLIS+V+ R+IIVRDR RYHHF+ G CSC 
Sbjct: 603 IAFGLINTKPGTTIHVVKNLRMCEDCHSAFKLISQVYDREIIVRDRARYHHFKTGTCSCK 662

Query: 652 DFW 654
           DFW
Sbjct: 663 DFW 665

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449526834|ref|XP_004170418.1| PREDICTED: pentatricopeptide repeat-containing protein At5g48910-like [Cucumis sativus]

 Score =  902 bits (2331), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 412/667 (61%), Positives = 534/667 (80%), Gaps = 17/667 (2%)

Query: 3   TKVTTTDLPHHLKPEEISA-TNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGH 61
           + ++T+ LP   KP + SA  NIPTS+  QKT+L + ++K  TS Q+L Q HA++L+SGH
Sbjct: 2   SSISTSHLPSPFKPVDFSAEKNIPTSKLPQKTVLKLFDSKSITSLQYLTQLHALVLRSGH 61

Query: 62  FQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLY 121
           FQDHYVSG L+KC+AN  FSNF+ ALKVF+S+  PNVF+WN V++ CLE+N+ ++ I  Y
Sbjct: 62  FQDHYVSGALLKCYANPHFSNFDFALKVFSSIPNPNVFIWNIVIKGCLENNKLFKAIYFY 121

Query: 122 SEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACF 181
             MV +D++PNKFTYPT+FKACS+ +A +EG Q+H HVVK+G+  DVH+KS+GIQMYA F
Sbjct: 122 GRMV-IDARPNKFTYPTLFKACSVAQAVQEGRQIHGHVVKHGIGSDVHIKSAGIQMYASF 180

Query: 182 GCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFA 241
           G +  AR++   G +SDV+CWN +IDGYLKCG +E AK LF     KN GS+N MI+G A
Sbjct: 181 GRLEDARKMFYSG-ESDVVCWNTMIDGYLKCGVLEAAKGLFAQMPVKNIGSWNVMINGLA 239

Query: 242 RFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSC 301
           + G   +ARKLF+EM+++DEI+WS+++DGY   G YKEALE+F +MQR++ +P +F+LS 
Sbjct: 240 KGGNLGDARKLFDEMSERDEISWSSMVDGYISAGRYKEALEIFQQMQREETRPGRFILSS 299

Query: 302 VLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKE 361
           VLAAC+++GA+DQG W+H ++KRNSI +DAVLGTAL+DMYAKCGRLDM W+VFE+MK +E
Sbjct: 300 VLAACSNIGAIDQGRWVHAYLKRNSIKLDAVLGTALLDMYAKCGRLDMGWEVFEEMKERE 359

Query: 362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALT 421
           +FTWNAMIGGLA+HGRA+DA+ELF K+Q  +M+P+ IT   VL+ACAHAG +D+GL+   
Sbjct: 360 IFTWNAMIGGLAIHGRAEDALELFSKLQEGRMKPNGITLVGVLTACAHAGFVDKGLRIFQ 419

Query: 422 YMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEV 481
            M++ YG+DPE+EHYGC+VDLLGR+G  +EAE++I+SMPM+PNAAVW ALLGACR HG  
Sbjct: 420 TMREFYGVDPELEHYGCMVDLLGRSGLFSEAEDLINSMPMKPNAAVWGALLGACRIHGNF 479

Query: 482 EFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTNPGSSMIDV 527
           +  ER+GKILLE+EPQN               R DDV+K+RKLMK RGIKT PG S++D+
Sbjct: 480 DLAERVGKILLELEPQNSGRYVLLSNIYAKVGRFDDVSKIRKLMKNRGIKTVPGVSIVDL 539

Query: 528 NGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHS 587
           NG +HEF+ GDGSHPQ+KEIY  LK I E+L+M G+SP++SQVLFDIDEEEKETA  YHS
Sbjct: 540 NGTVHEFKMGDGSHPQMKEIYRKLKIIKERLQMAGHSPDTSQVLFDIDEEEKETAVNYHS 599

Query: 588 EKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGK 647
           EKLAIAFG INT PG  I ++KNLRVC+DCHSATKLIS++F R+IIVRDRVRYHHF+NG 
Sbjct: 600 EKLAIAFGLINTLPGKRIHIVKNLRVCDDCHSATKLISQIFDREIIVRDRVRYHHFKNGT 659

Query: 648 CSCNDFW 654
           CSC DFW
Sbjct: 660 CSCKDFW 666

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449435966|ref|XP_004135765.1| PREDICTED: pentatricopeptide repeat-containing protein At5g48910-like [Cucumis sativus]

 Score =  899 bits (2324), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 410/667 (61%), Positives = 533/667 (79%), Gaps = 17/667 (2%)

Query: 3   TKVTTTDLPHHLKPEEISA-TNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGH 61
           + ++T+ LP   KP + SA  NIPTS+  QKT+L + ++K  TS Q+L Q H ++L+SGH
Sbjct: 2   SSISTSHLPSPFKPVDFSAEKNIPTSKLPQKTVLKLFDSKSITSLQYLTQLHGLVLRSGH 61

Query: 62  FQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLY 121
           FQDHYVSG L+KC+AN  FSNF+ ALKVF+S+  PNVF+WN V++ CLE+N+ ++ I  Y
Sbjct: 62  FQDHYVSGALLKCYANPHFSNFDFALKVFSSIPNPNVFIWNIVIKGCLENNKLFKAIYFY 121

Query: 122 SEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACF 181
             MV +D++PNKFTYPT+FKACS+ +A +EG Q+H HVVK+G+  DVH+KS+GI MYA F
Sbjct: 122 GRMV-IDARPNKFTYPTLFKACSVAQAVQEGRQIHGHVVKHGIGSDVHIKSAGIHMYASF 180

Query: 182 GCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFA 241
           G +  AR++   G +SDV+CWN +IDGYLKCG +E AK LF     KN GS+N MI+G A
Sbjct: 181 GRLEDARKMFYSG-ESDVVCWNTMIDGYLKCGVLEAAKGLFAQMPVKNIGSWNVMINGLA 239

Query: 242 RFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSC 301
           + G   +ARKLF+EM+++DEI+WS+++DGY   G YKEALE+F +MQR++ +P +F+LS 
Sbjct: 240 KGGNLGDARKLFDEMSERDEISWSSMVDGYISAGRYKEALEIFQQMQREETRPGRFILSS 299

Query: 302 VLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKE 361
           VLAAC+++GA+DQG W+H ++KRNSI +DAVLGTAL+DMYAKCGRLDM W+VFE+MK +E
Sbjct: 300 VLAACSNIGAIDQGRWVHAYLKRNSIKLDAVLGTALLDMYAKCGRLDMGWEVFEEMKERE 359

Query: 362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALT 421
           +FTWNAMIGGLA+HGRA+DA+ELF K+Q  +M+P+ IT   VL+ACAHAG +D+GL+   
Sbjct: 360 IFTWNAMIGGLAIHGRAEDALELFSKLQEGRMKPNGITLVGVLTACAHAGFVDKGLRIFQ 419

Query: 422 YMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEV 481
            M++ YG+DPE+EHYGC+VDLLGR+G  +EAE++I+SMPM+PNAAVW ALLGACR HG  
Sbjct: 420 TMREFYGVDPELEHYGCMVDLLGRSGLFSEAEDLINSMPMKPNAAVWGALLGACRIHGNF 479

Query: 482 EFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTNPGSSMIDV 527
           +  ER+GKILLE+EPQN               R DDV+K+RKLMK+RGIKT PG S++D+
Sbjct: 480 DLAERVGKILLELEPQNSGRYVLLSNIYAKVGRFDDVSKIRKLMKDRGIKTVPGVSIVDL 539

Query: 528 NGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHS 587
           NG +HEF+ GDGSHPQ+KEIY  LK I E+L+M G+SP++SQVLFDIDEEEKETA  YHS
Sbjct: 540 NGTVHEFKMGDGSHPQMKEIYRKLKIIKERLQMAGHSPDTSQVLFDIDEEEKETAVNYHS 599

Query: 588 EKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGK 647
           EKLAIAFG INT PG  I ++KNLRVC+DCHSATKLIS++F R+IIVRDRVRYHHF+NG 
Sbjct: 600 EKLAIAFGLINTLPGKRIHIVKNLRVCDDCHSATKLISQIFDREIIVRDRVRYHHFKNGT 659

Query: 648 CSCNDFW 654
           CSC DFW
Sbjct: 660 CSCKDFW 666

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147775281|emb|CAN61593.1| hypothetical protein VITISV_030555 [Vitis vinifera]

 Score =  865 bits (2236), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 414/677 (61%), Positives = 527/677 (77%), Gaps = 30/677 (4%)

Query: 2   STKVTTTDLP----HHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVIL 57
           ST  T T+ P    HHL P+     +  TS+ S K IL +LNT+C TS  HLKQAHA+IL
Sbjct: 3   STATTATEAPYHHHHHLIPK---GHSTETSKLSHKAILHLLNTQCTTSLHHLKQAHALIL 59

Query: 58  KSGHFQDHYVSGTLVKCHAN---SRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEP 114
           ++GH QD Y++G+LVK +AN   +R+ +FE +L+VF+ V KPNVF+WN +++ C+E+NEP
Sbjct: 60  RTGHLQDSYIAGSLVKSYANVSTNRYLSFESSLRVFDFVRKPNVFLWNCMIKVCIENNEP 119

Query: 115 WRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSG 174
           ++ I LY EMV   S+PNK+TYP V KACS +    EGVQVHAH+VK+GL GD H+ SS 
Sbjct: 120 FKAILLYYEMVVAHSRPNKYTYPAVLKACSDSGVVAEGVQVHAHLVKHGLGGDGHILSSA 179

Query: 175 IQMYACFGCVNKARQILDD-GSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKN-TGS 232
           I+MYA FG + +AR+ILDD G + D +CWNA+IDGYL+ G++E A+ELF+   D++   +
Sbjct: 180 IRMYASFGRLVEARRILDDKGGEVDAVCWNAMIDGYLRFGEVEAARELFEGMPDRSMIST 239

Query: 233 YNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKI 292
           +NAMISGF+R G  E AR+ F+EM ++DEI+WSA+IDGY ++G + EALE+F++MQ++KI
Sbjct: 240 WNAMISGFSRCGMVEVAREFFDEMKERDEISWSAMIDGYIQEGCFMEALEIFHQMQKEKI 299

Query: 293 KPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWK 352
           +PRKFVL  VL+ACA+LGALDQG WIH + KRNSI +D VLGT+LVDMYAKCGR+D+AW+
Sbjct: 300 RPRKFVLPSVLSACANLGALDQGRWIHTYAKRNSIQLDGVLGTSLVDMYAKCGRIDLAWE 359

Query: 353 VFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM 412
           VFE M  KEV +WNAMIGGLAMHGRA+DAI+LF KM    + P+ ITF  VL+ACAH G+
Sbjct: 360 VFEKMSNKEVSSWNAMIGGLAMHGRAEDAIDLFSKMD---IYPNEITFVGVLNACAHGGL 416

Query: 413 IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALL 472
           + +GL     M++ YG++P++EHYGCIVDLLGRAG L EAE+V+SS+P EP  AVW ALL
Sbjct: 417 VQKGLTIFNSMRKEYGVEPQIEHYGCIVDLLGRAGLLTEAEKVVSSIPTEPTPAVWGALL 476

Query: 473 GACRKHGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKT 518
           GACRKHG VE GER+GKILLE+EPQN               R ++V ++RKLMKERGIKT
Sbjct: 477 GACRKHGNVELGERVGKILLELEPQNSGRYTLLSNIYAKAGRWEEVGEVRKLMKERGIKT 536

Query: 519 NPGSSMIDVN-GVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEE 577
            PG+S+ID+  G +H+F  GDGSHPQVK+IY ML K+ E+L+MEGY P+ SQVLFDIDEE
Sbjct: 537 TPGTSIIDLGRGEVHKFIIGDGSHPQVKDIYQMLDKVKERLQMEGYEPDPSQVLFDIDEE 596

Query: 578 EKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDR 637
           EKETA   HSEKLAI FG INT PG TIR++KNLRVCEDCHSATKLIS+V+ R+IIVRDR
Sbjct: 597 EKETAVWQHSEKLAIGFGLINTSPGTTIRIVKNLRVCEDCHSATKLISQVYNREIIVRDR 656

Query: 638 VRYHHFRNGKCSCNDFW 654
           +RYHHFRNG CSC DFW
Sbjct: 657 IRYHHFRNGACSCKDFW 673

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225450565|ref|XP_002281942.1| PREDICTED: pentatricopeptide repeat-containing protein At5g48910 isoform 1 [Vitis vinifera]

 Score =  861 bits (2225), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 412/676 (60%), Positives = 525/676 (77%), Gaps = 29/676 (4%)

Query: 2   STKVTTTDLP---HHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILK 58
           ST  T T+ P   HHL P   +  +  TS+ S K IL +LNT+C TS  HLKQAHA+IL+
Sbjct: 3   STATTATEAPYHHHHLIP---NGHSTETSKLSHKAILHLLNTQCTTSLHHLKQAHALILR 59

Query: 59  SGHFQDHYVSGTLVKCHAN---SRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPW 115
           +GH QD Y++G+LVK +AN   +R+ +FE +L+VF+ V KPNVF+WN +++ C+E+NEP+
Sbjct: 60  TGHLQDSYIAGSLVKSYANVSTNRYLSFESSLRVFDFVRKPNVFLWNCMIKVCIENNEPF 119

Query: 116 RVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGI 175
           + I LY EM+    +PNK+TYP V KACS      EGVQVHAH+VK+GL GD H+ SS I
Sbjct: 120 KAILLYYEMMVAHFRPNKYTYPAVLKACSDAGVVAEGVQVHAHLVKHGLGGDGHILSSAI 179

Query: 176 QMYACFGCVNKARQILDD-GSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKN-TGSY 233
           +MYA FG + +AR+ILDD G + D +CWNA+IDGYL+ G++E A+ELF+   D++   ++
Sbjct: 180 RMYASFGRLVEARRILDDKGGEVDAVCWNAMIDGYLRFGEVEAARELFEGMPDRSMISTW 239

Query: 234 NAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIK 293
           NAMISGF+R G  E AR+ F+EM ++DEI+WSA+IDGY ++G + EALE+F++MQ++KI+
Sbjct: 240 NAMISGFSRCGMVEVAREFFDEMKERDEISWSAMIDGYIQEGCFMEALEIFHQMQKEKIR 299

Query: 294 PRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKV 353
           PRKFVL  VL+ACA+LGALDQG WIH + KRNSI +D VLGT+LVDMYAKCGR+D+AW+V
Sbjct: 300 PRKFVLPSVLSACANLGALDQGRWIHTYAKRNSIQLDGVLGTSLVDMYAKCGRIDLAWEV 359

Query: 354 FEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMI 413
           FE M  KEV +WNAMIGGLAMHGRA+DAI+LF KM    + P+ ITF  VL+ACAH G++
Sbjct: 360 FEKMSNKEVSSWNAMIGGLAMHGRAEDAIDLFSKMD---INPNEITFVGVLNACAHGGLV 416

Query: 414 DRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLG 473
            +GL     M++ YG++P++EHYGCIVDLLGRAG L EAE+V+SS+P EP  AVW ALLG
Sbjct: 417 QKGLTIFNSMRKEYGVEPQIEHYGCIVDLLGRAGLLTEAEKVVSSIPTEPTPAVWGALLG 476

Query: 474 ACRKHGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTN 519
           ACRKHG VE GER+GKILLE+EPQN               R ++V ++RKLMKERGIKT 
Sbjct: 477 ACRKHGNVELGERVGKILLELEPQNSGRYTLLSNIYAKAGRWEEVGEVRKLMKERGIKTT 536

Query: 520 PGSSMIDVN-GVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEE 578
           PG+S+ID+  G +H+F  GDGSHPQVK+IY ML K+ E+L+MEGY P+ SQVLFDIDEEE
Sbjct: 537 PGTSIIDLGRGEVHKFIIGDGSHPQVKDIYQMLDKVKERLQMEGYEPDPSQVLFDIDEEE 596

Query: 579 KETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRV 638
           KETA   HSEKLAI FG INT PG TIR++KNLRVCEDCHSATKLIS+V+ R+IIVRDR+
Sbjct: 597 KETAVWQHSEKLAIGFGLINTSPGTTIRIVKNLRVCEDCHSATKLISQVYNREIIVRDRI 656

Query: 639 RYHHFRNGKCSCNDFW 654
           RYHHFRNG CSC DFW
Sbjct: 657 RYHHFRNGACSCKDFW 672

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089786|emb|CBI39605.3| unnamed protein product [Vitis vinifera]

 Score =  701 bits (1810), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 358/674 (53%), Positives = 461/674 (68%), Gaps = 94/674 (13%)

Query: 2   STKVTTTDLP---HHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILK 58
           ST  T T+ P   HHL P   +  +  TS+ S K IL +LNT+C TS  HLKQAHA+IL+
Sbjct: 24  STATTATEAPYHHHHLIP---NGHSTETSKLSHKAILHLLNTQCTTSLHHLKQAHALILR 80

Query: 59  SGHFQDHYVSGTLVKCHAN---SRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPW 115
           +GH QD Y++G+LVK +AN   +R+ +FE +L+VF+ V KPNVF+WN +++ C+E+NEP+
Sbjct: 81  TGHLQDSYIAGSLVKSYANVSTNRYLSFESSLRVFDFVRKPNVFLWNCMIKVCIENNEPF 140

Query: 116 RVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGI 175
           + I LY EM+    +PNK+TYP V KACS                      D  V + G+
Sbjct: 141 KAILLYYEMMVAHFRPNKYTYPAVLKACS----------------------DAGVVAEGV 178

Query: 176 QMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNA 235
           Q++A          ++  G   D         G++                       ++
Sbjct: 179 QVHA---------HLVKHGLGGD---------GHI----------------------LSS 198

Query: 236 MISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPR 295
            I  +A FGR  EAR++ ++     E+    + D   + G + EALE+F++MQ++KI+PR
Sbjct: 199 AIRMYASFGRLVEARRILDDKGG--EVDAVCMPD---RKGCFMEALEIFHQMQKEKIRPR 253

Query: 296 KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFE 355
           KFVL  VL+ACA+LGALDQG WIH + KRNSI +D VLGT+LVDMYAKCGR+D+AW+VFE
Sbjct: 254 KFVLPSVLSACANLGALDQGRWIHTYAKRNSIQLDGVLGTSLVDMYAKCGRIDLAWEVFE 313

Query: 356 DMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDR 415
            M  KEV +WNAMIGGLAMHGRA+DAI+LF KM    + P+ ITF  VL+ACAH G++ +
Sbjct: 314 KMSNKEVSSWNAMIGGLAMHGRAEDAIDLFSKMD---INPNEITFVGVLNACAHGGLVQK 370

Query: 416 GLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGAC 475
           GL     M++ YG++P++EHYGCIVDLLGRAG L EAE+V+SS+P EP  AVW ALLGAC
Sbjct: 371 GLTIFNSMRKEYGVEPQIEHYGCIVDLLGRAGLLTEAEKVVSSIPTEPTPAVWGALLGAC 430

Query: 476 RKHGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTNPG 521
           RKHG VE GER+GKILLE+EPQN               R ++V ++RKLMKERGIKT PG
Sbjct: 431 RKHGNVELGERVGKILLELEPQNSGRYTLLSNIYAKAGRWEEVGEVRKLMKERGIKTTPG 490

Query: 522 SSMIDVN-GVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKE 580
           +S+ID+  G +H+F  GDGSHPQVK+IY ML K+ E+L+MEGY P+ SQVLFDIDEEEKE
Sbjct: 491 TSIIDLGRGEVHKFIIGDGSHPQVKDIYQMLDKVKERLQMEGYEPDPSQVLFDIDEEEKE 550

Query: 581 TAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRY 640
           TA   HSEKLAI FG INT PG TIR++KNLRVCEDCHSATKLIS+V+ R+IIVRDR+RY
Sbjct: 551 TAVWQHSEKLAIGFGLINTSPGTTIRIVKNLRVCEDCHSATKLISQVYNREIIVRDRIRY 610

Query: 641 HHFRNGKCSCNDFW 654
           HHFRNG CSC DFW
Sbjct: 611 HHFRNGACSCKDFW 624

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542916|ref|XP_002512521.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223548482|gb|EEF49973.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  581 bits (1498), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 268/425 (63%), Positives = 344/425 (80%), Gaps = 4/425 (0%)

Query: 1   MSTKVTTTDLPHHLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSG 60
           M T  TTT LP+HL P E    N PTS+ +QKTILD+LN+KC+ S+Q+LKQ HAVIL+SG
Sbjct: 1   MHTATTTTHLPYHLSPAE----NKPTSKLTQKTILDLLNSKCNASFQYLKQIHAVILRSG 56

Query: 61  HFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISL 120
           HF+DHYVSGTL+KC+AN  F N +LA  VF+ V KPNVFV+N +++ACL+++EP++ I  
Sbjct: 57  HFEDHYVSGTLLKCYANPHFKNIDLAFTVFDHVPKPNVFVYNIIIKACLDNDEPFKAICF 116

Query: 121 YSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC 180
           Y +MV  +++PNKFTYP++ KAC +  A KEGVQ+H HV+K GL GDVH++S+GIQMYA 
Sbjct: 117 YYKMVAANARPNKFTYPSLLKACGVATAAKEGVQLHGHVIKQGLTGDVHIRSAGIQMYAT 176

Query: 181 FGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGF 240
            G +  AR++LD+  +SDVIC+NA+IDGY K GD++ AKELF+  +D++ GS+N M+SG 
Sbjct: 177 LGHMAAARRMLDEDGESDVICFNAMIDGYYKFGDVDSAKELFEKMEDRSVGSWNVMVSGL 236

Query: 241 ARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLS 300
           A+ G  +EAR+LFN+M +KDEI+WS++IDGY K G YKEALEVFN MQ +KI+P+KFVLS
Sbjct: 237 AKNGMVKEARELFNDMREKDEISWSSMIDGYIKGGNYKEALEVFNVMQEEKIRPKKFVLS 296

Query: 301 CVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK 360
            VLAACA+LGALDQG WIH +VK+N + +DAVLGTALVDMYAKCGRLDMAW VFE MK K
Sbjct: 297 SVLAACANLGALDQGRWIHAYVKKNPMYLDAVLGTALVDMYAKCGRLDMAWDVFETMKEK 356

Query: 361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQAL 420
           EVFTWNAMI GLAMHGRA+DAI+LF KMQ+EK+R + ITF  +L+ACAH GM+D GL  L
Sbjct: 357 EVFTWNAMICGLAMHGRAEDAIKLFLKMQKEKVRSNEITFVGLLNACAHKGMVDEGLNIL 416

Query: 421 TYMQQ 425
             M++
Sbjct: 417 DSMEK 421

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134923|ref|XP_002327523.1| predicted protein [Populus trichocarpa] gi|222836077|gb|EEE74498.1| predicted protein [Populus trichocarpa]

 Score =  571 bits (1471), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 274/624 (43%), Positives = 400/624 (64%), Gaps = 28/624 (4%)

Query: 45  SWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSV 104
           S  HLKQ H+  +K+G   +  +   ++    +  F +   A ++F+++ +P+VF WN +
Sbjct: 26  SMYHLKQIHSRTIKTGIICNPIIQNKILSFCCSREFGDMCYARQLFDTIPEPSVFSWNIM 85

Query: 105 LRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGL 164
            +       P   +SLY EM+  + KP+ +TYP +FK  + + A + G ++H HVVK GL
Sbjct: 86  FKGYSRIACPKLGVSLYLEMLERNVKPDCYTYPFLFKGFTRSVALQLGRELHCHVVKYGL 145

Query: 165 CGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKS 224
             +V   ++ I MY+  G ++ AR I D   KSDV+ WNA+I GY +             
Sbjct: 146 DSNVFAHNALINMYSLCGLIDMARGIFDMSCKSDVVTWNAMISGYNRI------------ 193

Query: 225 TKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVF 284
              K+  S+ A+++GF   G+ + ARK F++M ++D ++W+A+IDGY +   YKEAL +F
Sbjct: 194 --KKDVISWTAIVTGFVNTGQVDAARKYFHKMPERDHVSWTAMIDGYLRLNCYKEALMLF 251

Query: 285 NEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKC 344
            EMQ  KIKP +F +  VL ACA LGAL+ G WI  ++ +N +  D  +G AL+DMY KC
Sbjct: 252 REMQTSKIKPDEFTMVSVLTACAQLGALELGEWIRTYIDKNKVKNDTFVGNALIDMYFKC 311

Query: 345 GRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVL 404
           G ++MA  +F  +  ++ FTW AM+ GLA++G  ++A+ +F +M +  + PD +T+  VL
Sbjct: 312 GNVEMALSIFNTLPQRDKFTWTAMVVGLAINGCGEEALNMFSQMLKASVTPDEVTYVGVL 371

Query: 405 SACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPN 464
           SAC H GM+D G +    M   +GI+P + HYGC+VDLLG+AG+L EA E+I +MPM+PN
Sbjct: 372 SACTHTGMVDEGKKFFASMTARHGIEPNIAHYGCMVDLLGKAGHLKEAHEIIKNMPMKPN 431

Query: 465 AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN--------------RRCDDVAKMRKL 510
           + VW ALLGACR H + E  ER  + +LE+EP N               + D + ++R++
Sbjct: 432 SIVWGALLGACRIHKDAEMAERAIEQILELEPNNGAVYVLQCNIYAACNKWDKLRELRQV 491

Query: 511 MKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQV 570
           M +RGIK  PG S+I++NG++HEF  GD SHPQ KEIY  L K+   LK+ GYSPN+S+V
Sbjct: 492 MMDRGIKKTPGCSLIEMNGIVHEFVAGDQSHPQTKEIYGKLNKMTSDLKIAGYSPNTSEV 551

Query: 571 LFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKR 630
             DI EE+KE A   HSEKLAIAFG IN+ PG TIR++KNLR+C DCH   KL+SKV+ R
Sbjct: 552 FLDIAEEDKENAVYRHSEKLAIAFGLINSGPGVTIRIVKNLRMCIDCHHVAKLVSKVYDR 611

Query: 631 DIIVRDRVRYHHFRNGKCSCNDFW 654
           ++IVRDR R+HHFR+G CSC D+W
Sbjct: 612 EVIVRDRTRFHHFRHGSCSCKDYW 635

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464596|ref|XP_004150015.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Cucumis sativus] gi|449529868|ref|XP_004171920.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Cucumis sativus]

 Score =  551 bits (1421), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 286/720 (39%), Positives = 422/720 (58%), Gaps = 86/720 (11%)

Query: 19  ISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANS 78
           + +++ P     +   L +L +KC  S +  KQ HA I+K+G     +    L++  A S
Sbjct: 17  LPSSDPPYRVLQEHPSLKLL-SKCQ-SIRTFKQIHAHIIKTGLHNTLFALSKLIEFSAVS 74

Query: 79  RFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPT 138
           R  +   A+ +FNS+ +PN+F+WNS++R       P   +  +  M+    +PN +T+P 
Sbjct: 75  RSGDISYAISLFNSIEEPNLFIWNSMIRGLSMSLSPALALVFFVRMIYSGVEPNSYTFPF 134

Query: 139 VFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYA------------------- 179
           + K+C+   +  EG Q+HAHV+K G   DV + +S I MYA                   
Sbjct: 135 LLKSCAKLASAHEGKQIHAHVLKLGFVSDVFIHTSLINMYAQSGEMNNAQLVFDQSNFRD 194

Query: 180 ------------CFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD 227
                        +G +++ARQ+ D+    DV+ WNA+I GY + G  + A  LF+  + 
Sbjct: 195 AISFTALIAGYALWGYMDRARQLFDEMPVKDVVSWNAMIAGYAQMGRSKEALLLFEDMRK 254

Query: 228 KNTGS---------------------------------------YNAMISGFARFGRFEE 248
            N                                           NA+I  +++ G  + 
Sbjct: 255 ANVPPNESTIVSVLSACAQSNALDLGNSMRSWIEDRGLCSNLKLVNALIDMYSKCGDLQT 314

Query: 249 ARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACAS 308
           AR+LF++M ++D I+W+ +I GYT    YKEAL +F EM    ++P +     +L +CA 
Sbjct: 315 ARELFDDMLERDVISWNVMIGGYTHMCSYKEALALFREMLASGVEPTEITFLSILPSCAH 374

Query: 309 LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAM 368
           LGA+D G WIH ++ +N   V   L T+L+D+YAKCG +  A +VF+ MK+K + +WNAM
Sbjct: 375 LGAIDLGKWIHAYINKNFNSVSTSLSTSLIDLYAKCGNIVAARQVFDGMKIKSLASWNAM 434

Query: 369 IGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYG 428
           I GLAMHG+AD A ELF KM  + + P+ ITF  +LSAC HAG++D G Q  + M Q Y 
Sbjct: 435 ICGLAMHGQADKAFELFSKMSSDGIEPNEITFVGILSACKHAGLVDLGQQFFSSMVQDYK 494

Query: 429 IDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLG 488
           I P+ +HYGC++DLLGRAG   EAE ++ +M ++P+ A+W +LLGACR HG VE GE + 
Sbjct: 495 ISPKSQHYGCMIDLLGRAGLFEEAESLLQNMEVKPDGAIWGSLLGACRDHGRVELGELVA 554

Query: 489 KILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEF 534
           + L E+EP N               + DDVA++R  + +RG+K  PG + I+V+ V+HEF
Sbjct: 555 ERLFELEPDNPGAYVLLSNIYAGAGKWDDVARIRTRLNDRGMKKVPGCTTIEVDNVVHEF 614

Query: 535 RTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAF 594
             GD  HPQ ++IY ML+++ E+LK+ G+  ++S+VL+D+DEE KE A  +HSEKLAIAF
Sbjct: 615 LVGDKVHPQSEDIYRMLEEVDEQLKVFGFVADTSEVLYDMDEEWKEGALSHHSEKLAIAF 674

Query: 595 GFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
           G I+T PG  IR+IKNLRVC +CHSATKLISK+F R+II RDR R+HHF++G CSCND+W
Sbjct: 675 GLISTKPGTPIRIIKNLRVCRNCHSATKLISKIFNREIIARDRNRFHHFKDGSCSCNDYW 734

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225423499|ref|XP_002274432.1| PREDICTED: pentatricopeptide repeat-containing protein At1g08070-like [Vitis vinifera]

 Score =  546 bits (1407), Expect = e-152,   Method: Compositional matrix adjust.
 Identities = 290/727 (39%), Positives = 419/727 (57%), Gaps = 91/727 (12%)

Query: 13  HLKPEEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLV 72
           H +P     ++ P         L +L+T C  S+Q+LKQ H+ I+K+G     +    L+
Sbjct: 18  HFQP----TSDPPYKLLQNHPSLTLLST-C-KSFQNLKQIHSQIIKTGLHNTQFALSKLI 71

Query: 73  KCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPN 132
           +  A S F N   AL +F S+ +PN F+WN+++R     + P   I  Y  M+    +PN
Sbjct: 72  EFCAISPFGNLSYALLLFESIEQPNQFIWNTMIRGNSLSSSPVGAIDFYVRMLLCGVEPN 131

Query: 133 KFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYA------------- 179
            +T+P + K+C+   A +EG Q+H HV+K GL  D  V +S I MYA             
Sbjct: 132 SYTFPFLLKSCAKVGATQEGKQIHGHVLKLGLESDPFVHTSLINMYAQNGELGYAELVFS 191

Query: 180 ------------------CFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKEL 221
                               GC++ AR++ ++    D + WNA+I GY + G  E A   
Sbjct: 192 KSSLRDAVSFTALITGYTLRGCLDDARRLFEEIPVRDAVSWNAMIAGYAQSGRFEEALAF 251

Query: 222 FKSTKDKN-----------------TGSY----------------------NAMISGFAR 242
           F+  K  N                 +GS                       NA+I  +++
Sbjct: 252 FQEMKRANVAPNESTMVTVLSACAQSGSLELGNWVRSWIEDHGLGSNLRLVNALIDMYSK 311

Query: 243 FGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCV 302
            G  ++AR LF  + +KD I+W+ +I GY+    YKEAL +F +MQ+  ++P       +
Sbjct: 312 CGDLDKARDLFEGICEKDIISWNVMIGGYSHMNSYKEALALFRKMQQSNVEPNDVTFVSI 371

Query: 303 LAACASLGALDQGIWIHDHVKRNSI-CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKE 361
           L ACA LGALD G WIH ++ +  +   +  L T+L+DMYAKCG ++ A +VF  MK K 
Sbjct: 372 LPACAYLGALDLGKWIHAYIDKKFLGLTNTSLWTSLIDMYAKCGNIEAAKQVFAGMKPKS 431

Query: 362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALT 421
           + +WNAMI GLAMHG A+ A+ELF +M+ E   PD ITF  VLSAC+HAG+++ G Q  +
Sbjct: 432 LGSWNAMISGLAMHGHANMALELFRQMRDEGFEPDDITFVGVLSACSHAGLVELGRQCFS 491

Query: 422 YMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEV 481
            M + Y I P+++HYGC++DLLGRAG   EAE ++ +M M+P+ A+W +LLGACR HG V
Sbjct: 492 SMVEDYDISPKLQHYGCMIDLLGRAGLFDEAEALMKNMEMKPDGAIWGSLLGACRVHGNV 551

Query: 482 EFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTNPGSSMIDV 527
           E GE   K L E+EP+N               R DDVA++R  + ++G+K  PG S I+V
Sbjct: 552 ELGEFAAKHLFELEPENPGAYVLLSNIYATAGRWDDVARIRTKLNDKGMKKVPGCSSIEV 611

Query: 528 NGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHS 587
           + V+HEF  GD  H Q ++IY ML +I + L+  G+ P++S+VL+D+DEE KE +  +HS
Sbjct: 612 DSVVHEFLVGDKVHEQSQDIYKMLDEIDQLLEKAGHVPDTSEVLYDMDEEWKEGSLSHHS 671

Query: 588 EKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGK 647
           EKLAIAFG I+T P  TIR++KNLRVC +CHSA KLISK+F R+II RDR R+HHF++G 
Sbjct: 672 EKLAIAFGLISTKPETTIRIVKNLRVCGNCHSAIKLISKIFNREIIARDRNRFHHFKDGS 731

Query: 648 CSCNDFW 654
           CSC D+W
Sbjct: 732 CSCMDYW 738

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	654
TAIR|locus:2154389	646	LPA66 "LOW PSII ACCUMULATION 6	0.888	0.899	0.386	4.9e-117
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.814	0.859	0.392	4.1e-113
TAIR|locus:2010652	665	AT1G04840 "AT1G04840" [Arabido	0.922	0.906	0.363	2e-111
TAIR|locus:2019160	643	AT1G74630 [Arabidopsis thalian	0.944	0.961	0.353	2e-111
TAIR|locus:4010713776	659	AT3G26782 [Arabidopsis thalian	0.654	0.649	0.424	1.5e-110
TAIR|locus:2060640	738	OTP81 "ORGANELLE TRANSCRIPT PR	0.691	0.612	0.446	4.8e-110
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.654	0.480	0.403	9.2e-107
TAIR|locus:2144143	622	AT5G06540 [Arabidopsis thalian	0.911	0.958	0.359	1.9e-106
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.665	0.501	0.372	7.3e-105
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.746	0.658	0.421	2e-104

TAIR|locus:2154389 LPA66 "LOW PSII ACCUMULATION 66" [Arabidopsis thaliana (taxid:3702)]

 Score = 1153 (410.9 bits), Expect = 4.9e-117, P = 4.9e-117
 Identities = 250/646 (38%), Positives = 381/646 (58%)

Query:    42 CHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFEL--ALKVFNSVHKPNVF 99
             C T  + L Q HAV +KSG  +D   +  +++  A S   + +L  A K+FN + + N F
Sbjct:    33 CRTI-RDLSQIHAVFIKSGQMRDTLAAAEILRFCATSDLHHRDLDYAHKIFNQMPQRNCF 91

Query:   100 VWNSVLRACLEHNEPWRVIS--LYSEMVGVDSKPNKFTYPTVFKACSITEA-DKEGVQVH 156
              WN+++R   E +E   +I+  L+ EM+      ++F  P  F   S+ +A  K G    
Sbjct:    92 SWNTIIRGFSESDEDKALIAITLFYEMMS-----DEFVEPNRFTFPSVLKACAKTGK--- 143

Query:   157 AHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIE 216
                ++ G    +H    G+ +   FG               D    + L+  Y+ CG ++
Sbjct:   144 ---IQEGK--QIH----GLALKYGFG--------------GDEFVMSNLVRMYVMCGFMK 180

Query:   217 GAKELFKST---KD--------KNTGS---YNAMISGFARFGRFEEARKLFNEMNDKDEI 262
              A+ LF      KD        K  G    +N MI G+ R G  + AR LF++M  +  +
Sbjct:   181 DARVLFYKNIIEKDMVVMTDRRKRDGEIVLWNVMIDGYMRLGDCKAARMLFDKMRQRSVV 240

Query:   263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV 322
             +W+ +I GY+ +G++K+A+EVF EM++  I+P    L  VL A + LG+L+ G W+H + 
Sbjct:   241 SWNTMISGYSLNGFFKDAVEVFREMKKGDIRPNYVTLVSVLPAISRLGSLELGEWLHLYA 300

Query:   323 KRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAI 382
             + + I +D VLG+AL+DMY+KCG ++ A  VFE +  + V TW+AMI G A+HG+A DAI
Sbjct:   301 EDSGIRIDDVLGSALIDMYSKCGIIEKAIHVFERLPRENVITWSAMINGFAIHGQAGDAI 360

Query:   383 ELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDL 442
             + F KM++  +RP  + +  +L+AC+H G+++ G +  + M  + G++P +EHYGC+VDL
Sbjct:   361 DCFCKMRQAGVRPSDVAYINLLTACSHGGLVEEGRRYFSQMVSVDGLEPRIEHYGCMVDL 420

Query:   443 LGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRC- 501
             LGR+G L EAEE I +MP++P+  +W+ALLGACR  G VE G+R+  IL++M P +    
Sbjct:   421 LGRSGLLDEAEEFILNMPIKPDDVIWKALLGACRMQGNVEMGKRVANILMDMVPHDSGAY 480

Query:   502 -------------DDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVXXXX 548
                           +V++MR  MKE+ I+ +PG S+ID++GV+HEF   D SHP+     
Sbjct:   481 VALSNMYASQGNWSEVSEMRLRMKEKDIRKDPGCSLIDIDGVLHEFVVEDDSHPKAKEIN 540

Query:   549 XXXXXXXXXXXXXGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVI 608
                          GY P ++QVL +++EE+KE    YHSEK+A AFG I+T PG  IR++
Sbjct:   541 SMLVEISDKLRLAGYRPITTQVLLNLEEEDKENVLHYHSEKIATAFGLISTSPGKPIRIV 600

Query:   609 KNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
             KNLR+CEDCHS+ KLISKV+KR I VRDR R+HHF++G CSC D+W
Sbjct:   601 KNLRICEDCHSSIKLISKVYKRKITVRDRKRFHHFQDGSCSCMDYW 646

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0007020 "microtubule nucleation" evidence=RCA

TAIR|locus:2154855 AT5G66520 "AT5G66520" [Arabidopsis thaliana (taxid:3702)]

 Score = 1116 (397.9 bits), Expect = 4.1e-113, P = 4.1e-113
 Identities = 218/555 (39%), Positives = 337/555 (60%)

Query:   121 YSEMV--GVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMY 178
             Y+++V  G D +P+ F +  + +  S ++  +  + ++  ++ +    + +   S ++  
Sbjct:    67 YAQIVFDGFD-RPDTFLWNLMIRGFSCSDEPERSLLLYQRMLCSSAPHNAYTFPSLLKAC 125

Query:   179 ACFGCVNKARQILDD----GSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYN 234
             +      +  QI       G ++DV   N+LI+ Y   G+ + A  LF    + +  S+N
Sbjct:   126 SNLSAFEETTQIHAQITKLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVSWN 185

Query:   235 AMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP 294
             ++I G+ + G+ + A  LF +M +K+ I+W+ +I GY +    KEAL++F+EMQ   ++P
Sbjct:   186 SVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSDVEP 245

Query:   295 RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVF 354
                 L+  L+ACA LGAL+QG WIH ++ +  I +D+VLG  L+DMYAKCG ++ A +VF
Sbjct:   246 DNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALEVF 305

Query:   355 EDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMID 414
             +++K K V  W A+I G A HG   +AI  F +MQ+  ++P+ ITF  VL+AC++ G+++
Sbjct:   306 KNIKKKSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTGLVE 365

Query:   415 RGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGA 474
              G      M++ Y + P +EHYGCIVDLLGRAG L EA+  I  MP++PNA +W ALL A
Sbjct:   366 EGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGALLKA 425

Query:   475 CRKHGEVEFGERLGKILLEMEP--------------QNRRCDDVAKMRKLMKERGIKTNP 520
             CR H  +E GE +G+IL+ ++P               +++ D  A+ R+LMKE+G+   P
Sbjct:   426 CRIHKNIELGEEIGEILIAIDPYHGGRYVHKANIHAMDKKWDKAAETRRLMKEQGVAKVP 485

Query:   521 GSSMIDVNGVIHEFRTGDGSHPQVXXXXXXXXXXXXXXXXXGYSPNSSQVLFD-IDEEEK 579
             G S I + G  HEF  GD SHP++                 GY P   ++L D +D++E+
Sbjct:   486 GCSTISLEGTTHEFLAGDRSHPEIEKIQSKWRIMRRKLEENGYVPELEEMLLDLVDDDER 545

Query:   580 ETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVR 639
             E     HSEKLAI +G I T PG  IR++KNLRVC+DCH  TKLISK++KRDI++RDR R
Sbjct:   546 EAIVHQHSEKLAITYGLIKTKPGTIIRIMKNLRVCKDCHKVTKLISKIYKRDIVMRDRTR 605

Query:   640 YHHFRNGKCSCNDFW 654
             +HHFR+GKCSC D+W
Sbjct:   606 FHHFRDGKCSCGDYW 620

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2010652 AT1G04840 "AT1G04840" [Arabidopsis thaliana (taxid:3702)]

 Score = 1100 (392.3 bits), Expect = 2.0e-111, P = 2.0e-111
 Identities = 227/624 (36%), Positives = 356/624 (57%)

Query:    49 LKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRAC 108
             L+  HA IL+ G      V+  LV C  +S   + + +L +F +  + N FV N+++R  
Sbjct:    45 LRHVHAQILRRGVLSSR-VAAQLVSC--SSLLKSPDYSLSIFRNSEERNPFVLNALIRGL 101

Query:   109 LEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDV 168
              E+      +  +  M+ +  KP++ T+P V K+ S       G  +HA  +KN +  D 
Sbjct:   102 TENARFESSVRHFILMLRLGVKPDRLTFPFVLKSNSKLGFRWLGRALHAATLKNFVDCDS 161

Query:   169 HVKSSGIQMYACFGCVNKARQILDDG----SKSDVICWNALIDGYLKCGDIEGAKELFKS 224
              V+ S + MYA  G +  A Q+ ++      K  ++ WN LI+GY +  D+  A  LF+S
Sbjct:   162 FVRLSLVDMYAKTGQLKHAFQVFEESPDRIKKESILIWNVLINGYCRAKDMHMATTLFRS 221

Query:   225 TKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVF 284
               ++N+GS++ +I G+   G    A++LF  M +K+ ++W+ +I+G+++ G Y+ A+  +
Sbjct:   222 MPERNSGSWSTLIKGYVDSGELNRAKQLFELMPEKNVVSWTTLINGFSQTGDYETAISTY 281

Query:   285 NEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKC 344
              EM    +KP ++ ++ VL+AC+  GAL  GI IH ++  N I +D  +GTALVDMYAKC
Sbjct:   282 FEMLEKGLKPNEYTIAAVLSACSKSGALGSGIRIHGYILDNGIKLDRAIGTALVDMYAKC 341

Query:   345 GRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVL 404
             G LD A  VF +M  K++ +W AMI G A+HGR   AI+ F +M     +PD + F  VL
Sbjct:   342 GELDCAATVFSNMNHKDILSWTAMIQGWAVHGRFHQAIQCFRQMMYSGEKPDEVVFLAVL 401

Query:   405 SACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPN 464
             +AC ++  +D GL     M+  Y I+P ++HY  +VDLLGRAG L EA E++ +MP+ P+
Sbjct:   402 TACLNSSEVDLGLNFFDSMRLDYAIEPTLKHYVLVVDLLGRAGKLNEAHELVENMPINPD 461

Query:   465 AAVWEALLGACRKHGEVEFGERLGKILLEMEPQ--------------NRRCDDVAKMRKL 510
                W AL  AC+ H      E + + LLE++P+                   DV K R  
Sbjct:   462 LTTWAALYRACKAHKGYRRAESVSQNLLELDPELCGSYIFLDKTHASKGNIQDVEKRRLS 521

Query:   511 MKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVXXXXXXXXXXXXXXXXXGYSPNSSQV 570
             +++R  + + G S I+++G +++F  GD SH                    GY+P +   
Sbjct:   522 LQKRIKERSLGWSYIELDGQLNKFSAGDYSHKLTQEIGLKLDEIISLAIQKGYNPGADWS 581

Query:   571 LFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKR 630
             + DI+EEEKE     HSEKLA+  GF+ T PG TIR+IKNLR+C DCHS  K +SK+ +R
Sbjct:   582 IHDIEEEEKENVTGIHSEKLALTLGFLRTAPGTTIRIIKNLRICGDCHSLMKYVSKISQR 641

Query:   631 DIIVRDRVRYHHFRNGKCSCNDFW 654
             DI++RD  ++HHF++G+CSC D+W
Sbjct:   642 DILLRDARQFHHFKDGRCSCGDYW 665

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2019160 AT1G74630 [Arabidopsis thaliana (taxid:3702)]

 Score = 1100 (392.3 bits), Expect = 2.0e-111, P = 2.0e-111
 Identities = 225/637 (35%), Positives = 365/637 (57%)

Query:    35 LDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH 94
             L +LN+ C  + + L Q H + +K G   D Y +G L+   A S       A ++     
Sbjct:     9 LSLLNS-CK-NLRALTQIHGLFIKYGVDTDSYFTGKLILHCAISISDALPYARRLLLCFP 66

Query:    95 KPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSK-PNKFTYPTVFKACSITEADKEGV 153
             +P+ F++N+++R   E +EP   ++++ EM+      P+ F++  V KA     + + G 
Sbjct:    67 EPDAFMFNTLVRGYSESDEPHNSVAVFVEMMRKGFVFPDSFSFAFVIKAVENFRSLRTGF 126

Query:   154 QVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCG 213
             Q+H   +K+GL   + V ++ I MY   GCV  AR++ D+  + +++ WNA+I    +  
Sbjct:   127 QMHCQALKHGLESHLFVGTTLIGMYGGCGCVEFARKVFDEMHQPNLVAWNAVITACFRGN 186

Query:   214 DIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTK 273
             D+ GA+E+F     +N  S+N M++G+ + G  E A+++F+EM  +D+++WS +I G   
Sbjct:   187 DVAGAREIFDKMLVRNHTSWNVMLAGYIKAGELESAKRIFSEMPHRDDVSWSTMIVGIAH 246

Query:   274 DGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVL 333
             +G + E+   F E+QR  + P +  L+ VL+AC+  G+ + G  +H  V++        +
Sbjct:   247 NGSFNESFLYFRELQRAGMSPNEVSLTGVLSACSQSGSFEFGKILHGFVEKAGYSWIVSV 306

Query:   334 GTALVDMYAKCGRLDMAWKVFEDMKMKE-VFTWNAMIGGLAMHGRADDAIELFFKMQREK 392
               AL+DMY++CG + MA  VFE M+ K  + +W +MI GLAMHG+ ++A+ LF +M    
Sbjct:   307 NNALIDMYSRCGNVPMARLVFEGMQEKRCIVSWTSMIAGLAMHGQGEEAVRLFNEMTAYG 366

Query:   393 MRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEA 452
             + PD I+F  +L AC+HAG+I+ G    + M+++Y I+PE+EHYGC+VDL GR+G L +A
Sbjct:   367 VTPDGISFISLLHACSHAGLIEEGEDYFSEMKRVYHIEPEIEHYGCMVDLYGRSGKLQKA 426

Query:   453 EEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR------------- 499
              + I  MP+ P A VW  LLGAC  HG +E  E++ + L E++P N              
Sbjct:   427 YDFICQMPIPPTAIVWRTLLGACSSHGNIELAEQVKQRLNELDPNNSGDLVLLSNAYATA 486

Query:   500 -RCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHP-QVXXXXXXXXXXXXX 557
              +  DVA +RK M  + IK     S+++V   +++F  G+      +             
Sbjct:   487 GKWKDVASIRKSMIVQRIKKTTAWSLVEVGKTMYKFTAGEKKKGIDIEAHEKLKEIILRL 546

Query:   558 XXXXGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDC 617
                 GY+P  +  L+D++EEEKE     HSEKLA+AF       GA IR++KNLR+C DC
Sbjct:   547 KDEAGYTPEVASALYDVEEEEKEDQVSKHSEKLALAFALARLSKGANIRIVKNLRICRDC 606

Query:   618 HSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
             H+  KL SKV+  +I+VRDR R+H F++G CSC D+W
Sbjct:   607 HAVMKLTSKVYGVEILVRDRNRFHSFKDGSCSCRDYW 643

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:4010713776 AT3G26782 [Arabidopsis thaliana (taxid:3702)]

 Score = 940 (336.0 bits), Expect = 1.5e-110, Sum P(2) = 1.5e-110
 Identities = 189/445 (42%), Positives = 268/445 (60%)

Query:   227 DKNTGSYNAMISGFARFGR--FEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVF 284
             D+     N ++  +A+ G      ARK+F+++ DKD +++++I+  Y + G   EA EVF
Sbjct:   215 DRGVSVGNTLLDAYAKGGEGGVAVARKIFDQIVDKDRVSYNSIMSVYAQSGMSNEAFEVF 274

Query:   285 NEMQRDKIKP-RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK 343
               + ++K+       LS VL A +  GAL  G  IHD V R  +  D ++GT+++DMY K
Sbjct:   275 RRLVKNKVVTFNAITLSTVLLAVSHSGALRIGKCIHDQVIRMGLEDDVIVGTSIIDMYCK 334

Query:   344 CGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACV 403
             CGR++ A K F+ MK K V +W AMI G  MHG A  A+ELF  M    +RP+ ITF  V
Sbjct:   335 CGRVETARKAFDRMKNKNVRSWTAMIAGYGMHGHAAKALELFPAMIDSGVRPNYITFVSV 394

Query:   404 LSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEP 463
             L+AC+HAG+   G +    M+  +G++P +EHYGC+VDLLGRAG+L +A ++I  M M+P
Sbjct:   395 LAACSHAGLHVEGWRWFNAMKGRFGVEPGLEHYGCMVDLLGRAGFLQKAYDLIQRMKMKP 454

Query:   464 NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN--------------RRCDDVAKMRK 509
             ++ +W +LL ACR H  VE  E     L E++  N               R  DV ++R 
Sbjct:   455 DSIIWSSLLAACRIHKNVELAEISVARLFELDSSNCGYYMLLSHIYADAGRWKDVERVRM 514

Query:   510 LMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVXXXXXXXXXXXXXXXXXGYSPNSSQ 569
             +MK RG+   PG S++++NG +H F  GD  HPQ                  GY  N+S 
Sbjct:   515 IMKNRGLVKPPGFSLLELNGEVHVFLIGDEEHPQREKIYEFLAELNRKLLEAGYVSNTSS 574

Query:   570 VLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFK 629
             V  D+DEEEKE   + HSEKLAIAFG +NT PG+T+ V+KNLRVC DCH+  KLISK+  
Sbjct:   575 VCHDVDEEEKEMTLRVHSEKLAIAFGIMNTVPGSTVNVVKNLRVCSDCHNVIKLISKIVD 634

Query:   630 RDIIVRDRVRYHHFRNGKCSCNDFW 654
             R+ +VRD  R+HHF++G CSC D+W
Sbjct:   635 REFVVRDAKRFHHFKDGGCSCGDYW 659

GO:0005739 "mitochondrion" evidence=ISM;IDA

TAIR|locus:2060640 OTP81 "ORGANELLE TRANSCRIPT PROCESSING 81" [Arabidopsis thaliana (taxid:3702)]

 Score = 1087 (387.7 bits), Expect = 4.8e-110, P = 4.8e-110
 Identities = 209/468 (44%), Positives = 304/468 (64%)

Query:   203 NALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEI 262
             NA++D Y KCG IE AK LF + ++K+  ++  M+ G+A    +E AR++ N M  KD +
Sbjct:   271 NAMLDMYTKCGSIEDAKRLFDAMEEKDNVTWTTMLDGYAISEDYEAAREVLNSMPQKDIV 330

Query:   263 TWSAIIDGYTKDGYYKEALEVFNEMQRDK-IKPRKFVLSCVLAACASLGALDQGIWIHDH 321
              W+A+I  Y ++G   EAL VF+E+Q  K +K  +  L   L+ACA +GAL+ G WIH +
Sbjct:   331 AWNALISAYEQNGKPNEALIVFHELQLQKNMKLNQITLVSTLSACAQVGALELGRWIHSY 390

Query:   322 VKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDA 381
             +K++ I ++  + +AL+ MY+KCG L+ + +VF  ++ ++VF W+AMIGGLAMHG  ++A
Sbjct:   391 IKKHGIRMNFHVTSALIHMYSKCGDLEKSREVFNSVEKRDVFVWSAMIGGLAMHGCGNEA 450

Query:   382 IELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD 441
             +++F+KMQ   ++P+ +TF  V  AC+H G++D        M+  YGI PE +HY CIVD
Sbjct:   451 VDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEAESLFHQMESNYGIVPEEKHYACIVD 510

Query:   442 LLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR-- 499
             +LGR+GYL +A + I +MP+ P+ +VW ALLGAC+ H  +   E     LLE+EP+N   
Sbjct:   511 VLGRSGYLEKAVKFIEAMPIPPSTSVWGALLGACKIHANLNLAEMACTRLLELEPRNDGA 570

Query:   500 ------------RCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVXXX 547
                         + ++V+++RK M+  G+K  PG S I+++G+IHEF +GD +HP     
Sbjct:   571 HVLLSNIYAKLGKWENVSELRKHMRVTGLKKEPGCSSIEIDGMIHEFLSGDNAHPMSEKV 630

Query:   548 XXXXXXXXXXXXXXGYSPNSSQVLFDIDEEE-KETAPKYHSEKLAIAFGFINTDPGATIR 606
                           GY P  SQVL  I+EEE KE +   HSEKLAI +G I+T+    IR
Sbjct:   631 YGKLHEVMEKLKSNGYEPEISQVLQIIEEEEMKEQSLNLHSEKLAICYGLISTEAPKVIR 690

Query:   607 VIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
             VIKNLRVC DCHS  KLIS+++ R+IIVRDR R+HHFRNG+CSCNDFW
Sbjct:   691 VIKNLRVCGDCHSVAKLISQLYDREIIVRDRYRFHHFRNGQCSCNDFW 738

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2103483 OTP84 "ORGANELLE TRANSCRIPT PROCESSING 84" [Arabidopsis thaliana (taxid:3702)]

 Score = 924 (330.3 bits), Expect = 9.2e-107, Sum P(2) = 9.2e-107
 Identities = 183/454 (40%), Positives = 271/454 (59%)

Query:   227 DKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNE 286
             D++    N ++  ++R G+ + A ++F +M D+D +TW+ +I GY    ++++AL + ++
Sbjct:   437 DRDRFVQNTLMDMYSRLGKIDIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHK 496

Query:   287 MQ-----------RDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGT 335
             MQ           R  +KP    L  +L +CA+L AL +G  IH +  +N++  D  +G+
Sbjct:   497 MQNLERKVSKGASRVSLKPNSITLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGS 556

Query:   336 ALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP 395
             ALVDMYAKCG L M+ KVF+ +  K V TWN +I    MHG   +AI+L   M  + ++P
Sbjct:   557 ALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKP 616

Query:   396 DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEV 455
             + +TF  V +AC+H+GM+D GL+    M+  YG++P  +HY C+VDLLGRAG + EA ++
Sbjct:   617 NEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQL 676

Query:   456 ISSMPMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRR-------------- 500
             ++ MP + N A  W +LLGA R H  +E GE   + L+++EP                  
Sbjct:   677 MNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGL 736

Query:   501 CDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVXXXXXXXXXXXXXXXX 560
              D   ++R+ MKE+G++  PG S I+    +H+F  GD SHPQ                 
Sbjct:   737 WDKATEVRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRK 796

Query:   561 XGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSA 620
              GY P++S VL +++E+EKE     HSEKLAIAFG +NT PG  IRV KNLRVC DCH A
Sbjct:   797 EGYVPDTSCVLHNVEEDEKEILLCGHSEKLAIAFGILNTSPGTIIRVAKNLRVCNDCHLA 856

Query:   621 TKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
             TK ISK+  R+II+RD  R+H F+NG CSC D+W
Sbjct:   857 TKFISKIVDREIILRDVRRFHRFKNGTCSCGDYW 890

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2144143 AT5G06540 [Arabidopsis thaliana (taxid:3702)]

 Score = 1053 (375.7 bits), Expect = 1.9e-106, P = 1.9e-106
 Identities = 224/623 (35%), Positives = 363/623 (58%)

Query:    55 VILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK-PNVFVWNSVLRACLEH-- 111
             ++L +  F+ H     L  C   S FS+ ++        H   +VFV + +L  C++   
Sbjct:     4 IVLNTLRFK-HPKLALLQSC---SSFSDLKIIHGFLLRTHLISDVFVASRLLALCVDDST 59

Query:   112 -NEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHV 170
              N+P  ++     +      PN F +  + +  S      +    +  ++K+ +  D   
Sbjct:    60 FNKPTNLLGYAYGIFSQIQNPNLFVFNLLIRCFSTGAEPSKAFGFYTQMLKSRIWPDNIT 119

Query:   171 KSSGIQMYACFGCV----NKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTK 226
                 I+  +   CV        QI+  G ++DV   N+L+  Y  CG I  A  +F    
Sbjct:   120 FPFLIKASSEMECVLVGEQTHSQIVRFGFQNDVYVENSLVHMYANCGFIAAAGRIFGQMG 179

Query:   227 DKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNE 286
              ++  S+ +M++G+ + G  E AR++F+EM  ++  TWS +I+GY K+  +++A+++F  
Sbjct:   180 FRDVVSWTSMVAGYCKCGMVENAREMFDEMPHRNLFTWSIMINGYAKNNCFEKAIDLFEF 239

Query:   287 MQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGR 346
             M+R+ +   + V+  V+++CA LGAL+ G   +++V ++ + V+ +LGTALVDM+ +CG 
Sbjct:   240 MKREGVVANETVMVSVISSCAHLGALEFGERAYEYVVKSHMTVNLILGTALVDMFWRCGD 299

Query:   347 LDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA 406
             ++ A  VFE +   +  +W+++I GLA+HG A  A+  F +M      P  +TF  VLSA
Sbjct:   300 IEKAIHVFEGLPETDSLSWSSIIKGLAVHGHAHKAMHYFSQMISLGFIPRDVTFTAVLSA 359

Query:   407 CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAA 466
             C+H G++++GL+    M++ +GI+P +EHYGCIVD+LGRAG LAEAE  I  M ++PNA 
Sbjct:   360 CSHGGLVEKGLEIYENMKKDHGIEPRLEHYGCIVDMLGRAGKLAEAENFILKMHVKPNAP 419

Query:   467 VWEALLGACRKHGEVEFGERLGKILLEMEPQNR----------RC----DDVAKMRKLMK 512
             +  ALLGAC+ +   E  ER+G +L++++P++            C    D +  +R +MK
Sbjct:   420 ILGALLGACKIYKNTEVAERVGNMLIKVKPEHSGYYVLLSNIYACAGQWDKIESLRDMMK 479

Query:   513 ERGIKTNPGSSMIDVNGVIHEFRTGDGS-HPQVXXXXXXXXXXXXXXXXXGYSPNSSQVL 571
             E+ +K  PG S+I+++G I++F  GD   HP++                 GY  N+    
Sbjct:   480 EKLVKKPPGWSLIEIDGKINKFTMGDDQKHPEMGKIRRKWEEILGKIRLIGYKGNTGDAF 539

Query:   572 FDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRD 631
             FD+DEEEKE++   HSEKLAIA+G + T PG TIR++KNLRVCEDCH+ TKLIS+V+ R+
Sbjct:   540 FDVDEEEKESSIHMHSEKLAIAYGMMKTKPGTTIRIVKNLRVCEDCHTVTKLISEVYGRE 599

Query:   632 IIVRDRVRYHHFRNGKCSCNDFW 654
             +IVRDR R+HHFRNG CSC D+W
Sbjct:   600 LIVRDRNRFHHFRNGVCSCRDYW 622

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 837 (299.7 bits), Expect = 7.3e-105, Sum P(2) = 7.3e-105
 Identities = 168/451 (37%), Positives = 262/451 (58%)

Query:   220 ELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKE 279
             ++ K+  ++++    A++  + + G+ EEA K+F+ ++DKD + WSA++ GY + G  + 
Sbjct:   418 QVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGETEA 477

Query:   280 ALEVFNEMQRDKIKPRKFVLSCVLAACASLGA-LDQGIWIHDHVKRNSICVDAVLGTALV 338
             A+++F E+ +  IKP +F  S +L  CA+  A + QG   H    ++ +     + +AL+
Sbjct:   478 AIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSALL 537

Query:   339 DMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI 398
              MYAK G ++ A +VF+  + K++ +WN+MI G A HG+A  A+++F +M++ K++ D +
Sbjct:   538 TMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMDGV 597

Query:   399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISS 458
             TF  V +AC HAG+++ G +    M +   I P  EH  C+VDL  RAG L +A +VI +
Sbjct:   598 TFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVIEN 657

Query:   459 MPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRC--------------DDV 504
             MP    + +W  +L ACR H + E G    + ++ M+P++                  + 
Sbjct:   658 MPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQER 717

Query:   505 AKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVXXXXXXXXXXXXXXXXXGYS 564
             AK+RKLM ER +K  PG S I+V    + F  GD SHP                   GY 
Sbjct:   718 AKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLGYE 777

Query:   565 PNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLI 624
             P++S VL DID+E KE     HSE+LAIAFG I T  G+ + +IKNLRVC DCH   KLI
Sbjct:   778 PDTSYVLQDIDDEHKEAVLAQHSERLAIAFGLIATPKGSPLLIIKNLRVCGDCHLVIKLI 837

Query:   625 SKVFKRDIIVRDRVRYHHFRN-GKCSCNDFW 654
             +K+ +R+I+VRD  R+HHF + G CSC DFW
Sbjct:   838 AKIEEREIVVRDSNRFHHFSSDGVCSCGDFW 868

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2205200 OTP82 "AT1G08070" [Arabidopsis thaliana (taxid:3702)]

 Score = 1034 (369.0 bits), Expect = 2.0e-104, P = 2.0e-104
 Identities = 216/512 (42%), Positives = 312/512 (60%)

Query:   167 DVHVKSSGIQMYACFGCVNKARQILDDGSKSDV----ICWNALIDGYLKCGDIEGAKELF 222
             DV   ++ I  YA  G   +A ++  D  K++V         ++    + G IE  +++ 
Sbjct:   230 DVVSWNAMISGYAETGNYKEALELFKDMMKTNVRPDESTMVTVVSACAQSGSIELGRQVH 289

Query:   223 KSTKDKNTGS----YNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYK 278
                 D   GS     NA+I  +++ G  E A  LF  +  KD I+W+ +I GYT    YK
Sbjct:   290 LWIDDHGFGSNLKIVNALIDLYSKCGELETACGLFERLPYKDVISWNTLIGGYTHMNLYK 349

Query:   279 EALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV-KR-NSICVDAVLGTA 336
             EAL +F EM R    P    +  +L ACA LGA+D G WIH ++ KR   +   + L T+
Sbjct:   350 EALLLFQEMLRSGETPNDVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTS 409

Query:   337 LVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD 396
             L+DMYAKCG ++ A +VF  +  K + +WNAMI G AMHGRAD + +LF +M++  ++PD
Sbjct:   410 LIDMYAKCGDIEAAHQVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPD 469

Query:   397 RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVI 456
              ITF  +LSAC+H+GM+D G      M Q Y + P++EHYGC++DLLG +G   EAEE+I
Sbjct:   470 DITFVGLLSACSHSGMLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMI 529

Query:   457 SSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR--------------RCD 502
             + M MEP+  +W +LL AC+ HG VE GE   + L+++EP+N               R +
Sbjct:   530 NMMEMEPDGVIWCSLLKACKMHGNVELGESFAENLIKIEPENPGSYVLLSNIYASAGRWN 589

Query:   503 DVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVXXXXXXXXXXXXXXXXXG 562
             +VAK R L+ ++G+K  PG S I+++ V+HEF  GD  HP+                  G
Sbjct:   590 EVAKTRALLNDKGMKKVPGCSSIEIDSVVHEFIIGDKFHPRNREIYGMLEEMEVLLEKAG 649

Query:   563 YSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATK 622
             + P++S+VL +++EE KE A ++HSEKLAIAFG I+T PG  + ++KNLRVC +CH ATK
Sbjct:   650 FVPDTSEVLQEMEEEWKEGALRHHSEKLAIAFGLISTKPGTKLTIVKNLRVCRNCHEATK 709

Query:   623 LISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
             LISK++KR+II RDR R+HHFR+G CSCND+W
Sbjct:   710 LISKIYKREIIARDRTRFHHFRDGVCSCNDYW 741

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FI80	PP425_ARATH	No assigned EC number	0.4165	0.8944	0.9055	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	654
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-144
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-131
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-58
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-37
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-37
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-22
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	3e-21
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-18
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-18
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-07
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-06
pfam01535	31	pfam01535, PPR, PPR repeat	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-05
pfam01535	31	pfam01535, PPR, PPR repeat	3e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	5e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.004

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  440 bits (1134), Expect = e-144
 Identities = 228/660 (34%), Positives = 353/660 (53%), Gaps = 58/660 (8%)

Query: 46  WQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVL 105
               ++ HA +++ G   D  V   L+  +   +  +   A  VF+ + + +   WN+++
Sbjct: 203 LARGREVHAHVVRFGFELDVDVVNALITMYV--KCGDVVSARLVFDRMPRRDCISWNAMI 260

Query: 106 RACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLC 165
               E+ E    + L+  M  +   P+  T  +V  AC +   ++ G ++H +VVK G  
Sbjct: 261 SGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFA 320

Query: 166 GDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLK-------------- 211
            DV V +S IQMY   G   +A ++       D + W A+I GY K              
Sbjct: 321 VDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALM 380

Query: 212 ------------------C---GDIEGAKELFKSTKDKNTGSY----NAMISGFARFGRF 246
                             C   GD++   +L +  + K   SY    NA+I  +++    
Sbjct: 381 EQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCI 440

Query: 247 EEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAAC 306
           ++A ++F+ + +KD I+W++II G   +    EAL  F +M    +KP    L   L+AC
Sbjct: 441 DKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSAC 499

Query: 307 ASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWN 366
           A +GAL  G  IH HV R  I  D  L  AL+D+Y +CGR++ AW  F   + K+V +WN
Sbjct: 500 ARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE-KDVVSWN 558

Query: 367 AMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQM 426
            ++ G   HG+   A+ELF +M    + PD +TF  +L AC+ +GM+ +GL+    M++ 
Sbjct: 559 ILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK 618

Query: 427 YGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGER 486
           Y I P ++HY C+VDLLGRAG L EA   I+ MP+ P+ AVW ALL ACR H  VE GE 
Sbjct: 619 YSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGEL 678

Query: 487 LGKILLEMEPQN--------------RRCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIH 532
             + + E++P +               + D+VA++RK M+E G+  +PG S ++V G +H
Sbjct: 679 AAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVH 738

Query: 533 EFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAI 592
            F T D SHPQ+KEI  +L+   EK+K  G + + S  + +I+  + +     HSE+LAI
Sbjct: 739 AFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVSKDDIFCG-HSERLAI 797

Query: 593 AFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCND 652
           AFG INT PG  I V KNL +CE+CH+  K ISK+ +R+I VRD  ++HHF++G+CSC D
Sbjct: 798 AFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  402 bits (1034), Expect = e-131
 Identities = 187/583 (32%), Positives = 301/583 (51%), Gaps = 76/583 (13%)

Query: 86  ALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSI 145
           A ++F+ + + N+  W +++   ++        +L+ EM    S     T+  + +A + 
Sbjct: 177 ARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG 236

Query: 146 TEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNAL 205
             + + G Q+H  V+K G+ GD  V        +C                       AL
Sbjct: 237 LGSARAGQQLHCCVLKTGVVGDTFV--------SC-----------------------AL 265

Query: 206 IDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWS 265
           ID Y KCGDIE                               +AR +F+ M +K  + W+
Sbjct: 266 IDMYSKCGDIE-------------------------------DARCVFDGMPEKTTVAWN 294

Query: 266 AIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRN 325
           +++ GY   GY +EAL ++ EM+   +   +F  S ++   + L  L+     H  + R 
Sbjct: 295 SMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT 354

Query: 326 SICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELF 385
              +D V  TALVD+Y+K GR++ A  VF+ M  K + +WNA+I G   HGR   A+E+F
Sbjct: 355 GFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMF 414

Query: 386 FKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGR 445
            +M  E + P+ +TF  VLSAC ++G+ ++G +    M + + I P   HY C+++LLGR
Sbjct: 415 ERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGR 474

Query: 446 AGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQ-------- 497
            G L EA  +I   P +P   +W ALL ACR H  +E G    + L  M P+        
Sbjct: 475 EGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVL 534

Query: 498 ----NR--RCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLML 551
               N   R  + AK+ + +K +G+  +P  + I+V    H F +GD  HPQ +EIY  L
Sbjct: 535 LNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKL 594

Query: 552 KKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNL 611
            ++++++   GY    +++L D+DE+E++ + +YHSEKLAIAFG INT     +++ ++ 
Sbjct: 595 DELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSH 654

Query: 612 RVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCNDFW 654
           R+C+DCH   K I+ V KR+I+VRD  R+HHF+ GKCSC D+W
Sbjct: 655 RICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW 697

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  211 bits (538), Expect = 2e-58
 Identities = 129/456 (28%), Positives = 215/456 (47%), Gaps = 43/456 (9%)

Query: 79  RFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPT 138
           RF     A  VF  + + ++F WN ++    +       + LY  M+    +P+ +T+P 
Sbjct: 133 RFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPC 192

Query: 139 VFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSD 198
           V + C        G +VHAHVV+ G   DV V ++ I MY   G V  AR + D   + D
Sbjct: 193 VLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRD 252

Query: 199 VICWNALIDGYLKCGDIEGAKELF------------------------------------ 222
            I WNA+I GY + G+     ELF                                    
Sbjct: 253 CISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHG 312

Query: 223 ---KSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKE 279
              K+    +    N++I  +   G + EA K+F+ M  KD ++W+A+I GY K+G   +
Sbjct: 313 YVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDK 372

Query: 280 ALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD 339
           ALE +  M++D + P +  ++ VL+ACA LG LD G+ +H+  +R  +    V+  AL++
Sbjct: 373 ALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE 432

Query: 340 MYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT 399
           MY+KC  +D A +VF ++  K+V +W ++I GL ++ R  +A+ +FF+     ++P+ +T
Sbjct: 433 MYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEAL-IFFRQMLLTLKPNSVT 491

Query: 400 FACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM 459
               LSACA  G +  G +   ++ +  GI  +      ++DL  R G +  A    +S 
Sbjct: 492 LIAALSACARIGALMCGKEIHAHVLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNS- 549

Query: 460 PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEME 495
             E +   W  LL     HG+      L   ++E  
Sbjct: 550 -HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESG 584

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  149 bits (377), Expect = 2e-37
 Identities = 85/271 (31%), Positives = 137/271 (50%), Gaps = 5/271 (1%)

Query: 234 NAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIK 293
           NAM+S F RFG    A  +F +M ++D  +W+ ++ GY K GY+ EAL +++ M    ++
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 294 PRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKV 353
           P  +   CVL  C  +  L +G  +H HV R    +D  +  AL+ MY KCG +  A  V
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 354 FEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMI 413
           F+ M  ++  +WNAMI G   +G   + +ELFF M+   + PD +T   V+SAC   G  
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 414 DRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLG 473
             G +   Y+ +  G   +V     ++ +    G   EAE+V S M  + +A  W A++ 
Sbjct: 305 RLGREMHGYVVKT-GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK-DAVSWTAMIS 362

Query: 474 ACRKHGEVEFGERLGKILLEMEPQNRRCDDV 504
              K+G     ++  +    ME  N   D++
Sbjct: 363 GYEKNG---LPDKALETYALMEQDNVSPDEI 390

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  147 bits (373), Expect = 3e-37
 Identities = 88/328 (26%), Positives = 155/328 (47%), Gaps = 15/328 (4%)

Query: 173 SGIQMYACFGCVNKAR---QILDDGS--KSDVICWNALIDGYLKCGDIEGAKELF----K 223
           S I+     G   +A    +IL+ G         ++AL++  +    I   K ++     
Sbjct: 92  SQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVES 151

Query: 224 STKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEV 283
           S  + +    N ++    + G   +AR+LF+EM +++  +W  II G    G Y+EA  +
Sbjct: 152 SGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFAL 211

Query: 284 FNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK 343
           F EM  D           +L A A LG+   G  +H  V +  +  D  +  AL+DMY+K
Sbjct: 212 FREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSK 271

Query: 344 CGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACV 403
           CG ++ A  VF+ M  K    WN+M+ G A+HG +++A+ L+++M+   +  D+ TF+ +
Sbjct: 272 CGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIM 331

Query: 404 LSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEP 463
           +   +   +++   QA   + +  G   ++     +VDL  + G + +A  V   MP + 
Sbjct: 332 IRIFSRLALLEHAKQAHAGLIR-TGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRK- 389

Query: 464 NAAVWEALLGACRKHGE----VEFGERL 487
           N   W AL+     HG     VE  ER+
Sbjct: 390 NLISWNALIAGYGNHGRGTKAVEMFERM 417

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  100 bits (251), Expect = 5e-22
 Identities = 55/233 (23%), Positives = 108/233 (46%), Gaps = 2/233 (0%)

Query: 265 SAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKR 324
           ++ +      G  ++AL++   MQ  ++   +     +   C    A+++G  +      
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 325 NSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIEL 384
           +   +   LG A++ M+ + G L  AW VF  M  +++F+WN ++GG A  G  D+A+ L
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCL 174

Query: 385 FFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLG 444
           + +M    +RPD  TF CVL  C     + RG +   ++ + +G + +V+    ++ +  
Sbjct: 175 YHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVR-FGFELDVDVVNALITMYV 233

Query: 445 RAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQ 497
           + G +  A  V   MP   +   W A++    ++GE   G  L   + E+   
Sbjct: 234 KCGDVVSARLVFDRMPRR-DCISWNAMISGYFENGECLEGLELFFTMRELSVD 285

Length = 857

>gnl|CDD|222749 pfam14432, DYW_deaminase, DYW family of nucleic acid deaminases

 Score = 89.4 bits (222), Expect = 3e-21
 Identities = 44/121 (36%), Positives = 67/121 (55%), Gaps = 19/121 (15%)

Query: 531 IHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKY----- 585
             +  +GDGSHP  KE      ++ +++K+EG  P + ++  D+D EE            
Sbjct: 8   GKKTLSGDGSHPTSKE------ELFQRIKVEGVVPETKEIGHDVDAEEFRDNGIKGKLLA 61

Query: 586 -HSEKLAIAFGFINTDPGATIRVIKNL-RVCEDCHSATKLISKVFKRDIIVRDRVRYHHF 643
            H+EK A+A+G + T      R+IK L R+C DCH   + I+K   R+IIVRD  R+HHF
Sbjct: 62  SHAEKQALAYGLLTT------RIIKVLKRMCGDCHEFFRYIAKYTGREIIVRDPSRFHHF 115

Query: 644 R 644
           +
Sbjct: 116 K 116

A family of nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members of this family are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. The classical DYW family contain an additional C-terminal metal-binding cluster composed of 2 histidines and a CxC motif and are often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems. Length = 116

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 90.3 bits (224), Expect = 1e-18
 Identities = 74/323 (22%), Positives = 148/323 (45%), Gaps = 24/323 (7%)

Query: 187 ARQIL----DDGSKSDVICWNALIDGYLKCGDIEGAKELF----KSTKDKNTGSYNAMIS 238
           A ++L    + G K+D   +  LI    K G ++   E+F     +  + N  ++ A+I 
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID 515

Query: 239 GFARFGRFEEARKLFNEMNDK----DEITWSAIIDGYTKDGYYKEALEVFNEMQRDK--I 292
           G AR G+  +A   +  M  K    D + ++A+I    + G    A +V  EM+ +   I
Sbjct: 516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPI 575

Query: 293 KPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWK 352
            P    +  ++ ACA+ G +D+   ++  +   +I     + T  V+  ++ G  D A  
Sbjct: 576 DPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS 635

Query: 353 VFEDMKMK-----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSAC 407
           +++DMK K     EVF ++A++      G  D A E+    +++ ++   ++++ ++ AC
Sbjct: 636 IYDDMKKKGVKPDEVF-FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Query: 408 AHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMP---MEPN 464
           ++A    + L+    ++ +  + P V     ++  L     L +A EV+S M    + PN
Sbjct: 695 SNAKNWKKALELYEDIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN 753

Query: 465 AAVWEALLGACRKHGEVEFGERL 487
              +  LL A  +  + + G  L
Sbjct: 754 TITYSILLVASERKDDADVGLDL 776

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 89.6 bits (222), Expect = 2e-18
 Identities = 91/362 (25%), Positives = 153/362 (42%), Gaps = 56/362 (15%)

Query: 135 TYPTVFKACSITEADKEG-VQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDD 193
           T+  +   C+ +  D +G ++V   V + GL  D  + ++ I   A  G V+   ++  +
Sbjct: 439 TFNMLMSVCA-SSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHE 497

Query: 194 ----GSKSDVICWNALIDGYLKCGDIE---GAKELFKSTKDK-NTGSYNAMISGFARFGR 245
               G +++V  + ALIDG  + G +    GA  + +S   K +   +NA+IS   + G 
Sbjct: 498 MVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGA 557

Query: 246 FEEARKLFNEMN------DKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVL 299
            + A  +  EM       D D IT  A++      G    A EV+  +    IK    V 
Sbjct: 558 VDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY 617

Query: 300 SCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMA--------- 350
           +  + +C+  G  D  + I+D +K+  +  D V  +ALVD+    G LD A         
Sbjct: 618 TIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK 677

Query: 351 ----------------------WK----VFEDMK----MKEVFTWNAMIGGLAMHGRADD 380
                                 WK    ++ED+K       V T NA+I  L    +   
Sbjct: 678 QGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPK 737

Query: 381 AIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIV 440
           A+E+  +M+R  + P+ IT++ +L A       D GL  L+  ++  GI P +    CI 
Sbjct: 738 ALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCIT 796

Query: 441 DL 442
            L
Sbjct: 797 GL 798

Length = 1060

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 73.8 bits (181), Expect = 2e-13
 Identities = 74/315 (23%), Positives = 125/315 (39%), Gaps = 69/315 (21%)

Query: 223 KSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMN-----DKDEITWSAIIDGYTKDGYY 277
           + + +     YN ++    R GR ++   L  +M      D D+I  +       K    
Sbjct: 368 RKSPEYIDA-YNRLL----RDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAV 422

Query: 278 KEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTAL 337
           KEA   F ++ R+   P     + +++ CAS   +D  + +   V+   +  D  L T L
Sbjct: 423 KEAFR-FAKLIRN---PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTL 478

Query: 338 VDMYAKCGRLDMAWKVFEDMKMKE----VFTWNAMIGGLAMHGRADDAIELFFKMQREKM 393
           +   AK G++D  ++VF +M        V T+ A+I G A  G+   A   +  M+ + +
Sbjct: 479 ISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNV 538

Query: 394 RPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAE 453
           +PDR+ F  ++SAC  +G +DR    L  M+                         AE  
Sbjct: 539 KPDRVVFNALISACGQSGAVDRAFDVLAEMK-------------------------AETH 573

Query: 454 EVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKE 513
                 P++P+     AL+ AC   G+V+                 R  +V +M   + E
Sbjct: 574 ------PIDPDHITVGALMKACANAGQVD-----------------RAKEVYQM---IHE 607

Query: 514 RGIKTNPGSSMIDVN 528
             IK  P    I VN
Sbjct: 608 YNIKGTPEVYTIAVN 622

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 56.6 bits (138), Expect = 1e-10
 Identities = 20/50 (40%), Positives = 30/50 (60%), Gaps = 4/50 (8%)

Query: 228 KNTGSYNAMISGFARFGRFEEARKLFNEMNDK----DEITWSAIIDGYTK 273
            +  +YN +I G+ + G+ EEA KLFNEM  +    +  T+S +IDG  K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 63.4 bits (154), Expect = 3e-10
 Identities = 58/280 (20%), Positives = 118/280 (42%), Gaps = 55/280 (19%)

Query: 214 DIEGAKELFKSTKDKNTGS----YNAMISGFARFGRFEEARKLFNEMNDKDEI-----TW 264
           DI+GA  + +  ++    +    Y  +IS  A+ G+ +   ++F+EM     +     T+
Sbjct: 452 DIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM-VNAGVEANVHTF 510

Query: 265 SAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKR 324
            A+IDG  + G   +A   +  M+   +KP + V + +++AC   GA+D+          
Sbjct: 511 GALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDR---------- 560

Query: 325 NSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK------EVFTWNAMIGGLAMHGRA 378
                                    A+ V  +MK +      +  T  A++   A  G+ 
Sbjct: 561 -------------------------AFDVLAEMKAETHPIDPDHITVGALMKACANAGQV 595

Query: 379 DDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGC 438
           D A E++  +    ++     +   +++C+  G  D  L     M++  G+ P+   +  
Sbjct: 596 DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSA 654

Query: 439 IVDLLGRAGYLAEAEEVISSMP---MEPNAAVWEALLGAC 475
           +VD+ G AG L +A E++       ++     + +L+GAC
Sbjct: 655 LVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694

Length = 1060

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 52.8 bits (128), Expect = 3e-09
 Identities = 19/49 (38%), Positives = 28/49 (57%), Gaps = 4/49 (8%)

Query: 198 DVICWNALIDGYLKCGDIEGAKELFKSTKDK----NTGSYNAMISGFAR 242
           DV+ +N LIDGY K G +E A +LF   K +    N  +Y+ +I G  +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 51.6 bits (125), Expect = 7e-09
 Identities = 12/48 (25%), Positives = 29/48 (60%)

Query: 362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAH 409
           V T+N +I G    G+ ++A++LF +M++  ++P+  T++ ++     
Sbjct: 3   VVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 48.9 bits (118), Expect = 6e-08
 Identities = 18/36 (50%), Positives = 27/36 (75%)

Query: 259 KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP 294
            D +T++ +IDGY K G  +EAL++FNEM++  IKP
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKP 36

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 47.4 bits (114), Expect = 2e-07
 Identities = 14/43 (32%), Positives = 26/43 (60%), Gaps = 4/43 (9%)

Query: 335 TALVDMYAKCGRLDMAWKVFEDMKMKEV----FTWNAMIGGLA 373
             L+D Y K G+++ A K+F +MK + +    +T++ +I GL 
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|205222 pfam13041, PPR_2, PPR repeat family

 Score = 46.6 bits (112), Expect = 4e-07
 Identities = 11/48 (22%), Positives = 23/48 (47%)

Query: 96  PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKAC 143
           P+V  +N+++    +  +    + L++EM     KPN +TY  +    
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR. Length = 50

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 44.8 bits (107), Expect = 1e-06
 Identities = 13/31 (41%), Positives = 22/31 (70%)

Query: 262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKI 292
           +T++++I GY K G  +EALE+F EM+   +
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 50.3 bits (120), Expect = 2e-06
 Identities = 48/224 (21%), Positives = 94/224 (41%), Gaps = 19/224 (8%)

Query: 47  QHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLR 106
           +H KQAHA ++++G   D   +  LV  +  S++   E A  VF+ + + N+  WN+++ 
Sbjct: 342 EHAKQAHAGLIRTGFPLDIVANTALVDLY--SKWGRMEDARNVFDRMPRKNLISWNALIA 399

Query: 107 ACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCG 166
               H    + + ++  M+     PN  T+  V  AC  +   ++G ++   + +N    
Sbjct: 400 GYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEN---- 455

Query: 167 DVHVKSSGIQMYACF-------GCVNKARQILDDGS-KSDVICWNALIDGYLKCGDIEGA 218
             H        YAC        G +++A  ++     K  V  W AL+       ++E  
Sbjct: 456 --HRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELG 513

Query: 219 K---ELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDK 259
           +   E       +   +Y  +++ +   GR  EA K+   +  K
Sbjct: 514 RLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRK 557

Length = 697

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 43.6 bits (104), Expect = 3e-06
 Identities = 13/25 (52%), Positives = 20/25 (80%)

Query: 232 SYNAMISGFARFGRFEEARKLFNEM 256
           +YN++ISG+ + G+ EEA +LF EM
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEM 26

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 43.6 bits (104), Expect = 4e-06
 Identities = 15/33 (45%), Positives = 23/33 (69%)

Query: 262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP 294
           +T++ +IDG  K G  +EALE+F EM+   I+P
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.8 bits (102), Expect = 6e-06
 Identities = 14/34 (41%), Positives = 22/34 (64%)

Query: 363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD 396
            T+N +I GL   GR ++A+ELF +M+   + PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 42.0 bits (100), Expect = 1e-05
 Identities = 12/28 (42%), Positives = 18/28 (64%)

Query: 229 NTGSYNAMISGFARFGRFEEARKLFNEM 256
           +  +YN +I G  R GR +EA +L +EM
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEM 33

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 10/29 (34%), Positives = 20/29 (68%)

Query: 363 FTWNAMIGGLAMHGRADDAIELFFKMQRE 391
            T+N++I G    G+ ++A+ELF +M+ +
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEK 29

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 40.8 bits (97), Expect = 3e-05
 Identities = 11/29 (37%), Positives = 20/29 (68%)

Query: 260 DEITWSAIIDGYTKDGYYKEALEVFNEMQ 288
           D +T++ +IDG  + G   EA+E+ +EM+
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.5 bits (96), Expect = 5e-05
 Identities = 13/25 (52%), Positives = 17/25 (68%)

Query: 232 SYNAMISGFARFGRFEEARKLFNEM 256
           +YN +I G  + GR EEA +LF EM
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEM 26

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

>gnl|CDD|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 43.3 bits (102), Expect = 4e-04
 Identities = 57/259 (22%), Positives = 108/259 (41%), Gaps = 53/259 (20%)

Query: 64  DHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNV----FVWNSVLRACLEHNEPWRVIS 119
           DH   G L+K  AN+     + A +V+  +H+ N+     V+   + +C +  +    +S
Sbjct: 578 DHITVGALMKACANA--GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS 635

Query: 120 LYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYA 179
           +Y +M     KP++     VF +  +   D  G   HA                      
Sbjct: 636 IYDDMKKKGVKPDE-----VFFSALV---DVAG---HA---------------------- 662

Query: 180 CFGCVNKARQILDD----GSKSDVICWNALIDGYLKCGDIEGAKELF---KSTKDKNTGS 232
             G ++KA +IL D    G K   + +++L+       + + A EL+   KS K + T S
Sbjct: 663 --GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVS 720

Query: 233 -YNAMISGFARFGRFEEARKLFNEMND----KDEITWSAIIDGYTKDGYYKEALEVFNEM 287
             NA+I+      +  +A ++ +EM       + IT+S ++    +       L++ ++ 
Sbjct: 721 TMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQA 780

Query: 288 QRDKIKPRKFVLSCVLAAC 306
           + D IKP   +  C+   C
Sbjct: 781 KEDGIKPNLVMCRCITGLC 799

Length = 1060

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.5 bits (88), Expect = 5e-04
 Identities = 11/34 (32%), Positives = 17/34 (50%)

Query: 261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP 294
             T++A++    K G    AL V  EM+   +KP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 15/30 (50%), Positives = 20/30 (66%)

Query: 200 ICWNALIDGYLKCGDIEGAKELFKSTKDKN 229
           + +N+LI GY K G +E A ELFK  K+K 
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 36.2 bits (85), Expect = 0.001
 Identities = 13/28 (46%), Positives = 19/28 (67%)

Query: 362 VFTWNAMIGGLAMHGRADDAIELFFKMQ 389
           V T+N +I GL   GR D+A+EL  +M+
Sbjct: 7   VVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.4 bits (85), Expect = 0.001
 Identities = 8/25 (32%), Positives = 14/25 (56%)

Query: 232 SYNAMISGFARFGRFEEARKLFNEM 256
           +YNA++   A+ G  + A  +  EM
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEM 27

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 41.4 bits (95), Expect = 0.001
 Identities = 36/223 (16%), Positives = 72/223 (32%), Gaps = 15/223 (6%)

Query: 226 KDKNTGSYNAMISGFARFGRFEEARKLFNE-----MNDKDEITWSAIIDGYTKDGYYKEA 280
                G    +     + GR EEA +L  +     +          +       G Y+EA
Sbjct: 55  NSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEA 114

Query: 281 LEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGI--WIHDHVKRNSICVDAVLGTALV 338
           LE+  +       P        L A   LG  ++ +  +         +   A    AL 
Sbjct: 115 LELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALG 174

Query: 339 DMYAKCGRLDMAWKVFEDM----KMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR 394
            +    GR + A ++ E         +      +       G+ ++A+E + K   E   
Sbjct: 175 ALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKA-LELDP 233

Query: 395 PDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYG 437
            +      +       G  +   +AL  +++   +DP++ + G
Sbjct: 234 DNAEALYNLALLLLELGRYE---EALEALEKALELDPDLYNLG 273

Length = 291

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 34.6 bits (81), Expect = 0.004
 Identities = 13/31 (41%), Positives = 18/31 (58%)

Query: 193 DGSKSDVICWNALIDGYLKCGDIEGAKELFK 223
            G K DV+ +N LIDG  + G ++ A EL  
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLD 31

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	654
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.97
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.97
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.9
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.89
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.87
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.84
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.82
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.81
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.79
PRK14574	822	hmsH outer membrane protein; Provisional	99.79
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.79
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.78
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.72
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.68
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.64
KOG2003	840	consensus TPR repeat-containing protein [General f	99.62
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.58
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.58
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.57
KOG2003	840	consensus TPR repeat-containing protein [General f	99.56
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.49
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.47
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.47
KOG2076	895	consensus RNA polymerase III transcription factor	99.47
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.47
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.46
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.45
KOG1126	638	consensus DNA-binding cell division cycle control	99.45
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.42
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.4
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.4
KOG2076	895	consensus RNA polymerase III transcription factor	99.4
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.39
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.38
KOG1126	638	consensus DNA-binding cell division cycle control	99.34
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.33
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.3
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.28
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.28
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.27
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.26
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.25
PF13041	50	PPR_2: PPR repeat family	99.24
PF13041	50	PPR_2: PPR repeat family	99.24
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.23
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.2
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.16
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.16
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.14
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.12
KOG1129	478	consensus TPR repeat-containing protein [General f	99.1
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.09
PRK12370	553	invasion protein regulator; Provisional	99.08
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.07
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.05
PRK12370	553	invasion protein regulator; Provisional	99.04
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.02
PRK11189	296	lipoprotein NlpI; Provisional	99.02
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.01
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.97
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.96
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.93
KOG1129	478	consensus TPR repeat-containing protein [General f	98.92
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.87
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.81
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.81
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.8
PRK11189	296	lipoprotein NlpI; Provisional	98.76
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.76
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.76
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.74
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.73
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.73
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.72
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.68
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.68
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.68
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.67
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.66
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.65
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.64
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.62
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.62
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.62
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.61
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.6
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.56
PRK04841	903	transcriptional regulator MalT; Provisional	98.56
PRK04841	903	transcriptional regulator MalT; Provisional	98.53
KOG1125	579	consensus TPR repeat-containing protein [General f	98.49
PF12854	34	PPR_1: PPR repeat	98.48
PF12854	34	PPR_1: PPR repeat	98.43
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.43
PLN02789	320	farnesyltranstransferase	98.4
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.39
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.38
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.36
PRK15359	144	type III secretion system chaperone protein SscB;	98.36
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.33
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.32
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.32
KOG1125	579	consensus TPR repeat-containing protein [General f	98.3
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.22
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.21
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.2
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.18
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.14
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.13
PRK15359	144	type III secretion system chaperone protein SscB;	98.12
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.11
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.09
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.09
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.09
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.08
PLN02789	320	farnesyltranstransferase	98.08
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.06
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.06
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.01
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.0
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.0
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.97
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.96
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.94
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.91
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.9
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.85
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.81
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.8
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.77
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.76
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.73
KOG0553	304	consensus TPR repeat-containing protein [General f	97.69
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.67
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.66
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.66
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.63
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.61
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.53
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.47
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.45
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.43
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.38
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.33
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.28
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.27
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.27
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.22
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.21
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.21
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.2
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.19
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.15
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.12
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.11
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.1
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.04
KOG0553	304	consensus TPR repeat-containing protein [General f	97.03
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.02
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.98
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.98
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.98
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.96
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.96
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.94
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.9
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.9
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.89
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.88
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.87
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.84
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.81
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.77
PF12688	120	TPR_5: Tetratrico peptide repeat	96.76
PF12688	120	TPR_5: Tetratrico peptide repeat	96.74
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.73
PRK10803	263	tol-pal system protein YbgF; Provisional	96.7
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.68
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.61
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.61
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.52
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.51
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.48
PF13371	73	TPR_9: Tetratricopeptide repeat	96.47
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.45
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.34
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.28
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.22
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.13
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.1
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.05
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.99
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.98
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	95.9
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.9
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.85
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.82
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.78
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.74
KOG2796	366	consensus Uncharacterized conserved protein [Funct	95.73
PRK10803	263	tol-pal system protein YbgF; Provisional	95.7
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.68
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.66
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.63
PF13428	44	TPR_14: Tetratricopeptide repeat	95.59
KOG1258	577	consensus mRNA processing protein [RNA processing	95.56
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.45
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.3
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.18
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.1
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.07
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.04
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.04
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.02
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.93
PF13512	142	TPR_18: Tetratricopeptide repeat	94.93
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	94.79
KOG3941	406	consensus Intermediate in Toll signal transduction	94.69
PRK09687	280	putative lyase; Provisional	94.67
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.59
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.32
KOG1258	577	consensus mRNA processing protein [RNA processing	94.14
PF13512	142	TPR_18: Tetratricopeptide repeat	94.13
PRK09687	280	putative lyase; Provisional	94.1
PF13371	73	TPR_9: Tetratricopeptide repeat	94.09
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.08
COG3898	531	Uncharacterized membrane-bound protein [Function u	93.94
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	93.91
COG3898	531	Uncharacterized membrane-bound protein [Function u	93.84
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	93.81
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.71
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	93.61
PRK15331	165	chaperone protein SicA; Provisional	93.5
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.44
PF03704	146	BTAD: Bacterial transcriptional activator domain;	93.36
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	93.33
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	93.29
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	93.04
PRK15331	165	chaperone protein SicA; Provisional	93.02
KOG3941	406	consensus Intermediate in Toll signal transduction	92.9
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	92.9
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.83
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	92.79
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.79
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.57
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	92.57
PRK11906	458	transcriptional regulator; Provisional	92.5
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.42
PRK11906	458	transcriptional regulator; Provisional	92.38
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.36
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.24
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.11
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.08
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	91.93
COG0457	291	NrfG FOG: TPR repeat [General function prediction	91.93
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.9
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	91.89
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.8
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.69
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.66
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.03
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	90.93
KOG1585	308	consensus Protein required for fusion of vesicles	90.76
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	90.75
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.25
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.19
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.14
KOG2610	491	consensus Uncharacterized conserved protein [Funct	90.1
KOG4555	175	consensus TPR repeat-containing protein [Function	90.01
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.9
KOG4555	175	consensus TPR repeat-containing protein [Function	89.53
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	88.92
KOG1585	308	consensus Protein required for fusion of vesicles	88.6
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	88.48
COG3629	280	DnrI DNA-binding transcriptional activator of the	88.37
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	88.13
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	88.07
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.95
PF13428	44	TPR_14: Tetratricopeptide repeat	87.93
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.74
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	87.47
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	86.99
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	86.94
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	86.81
COG3118	304	Thioredoxin domain-containing protein [Posttransla	86.61
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	86.58
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	86.33
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.13
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.85
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.62
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	85.47
KOG2610	491	consensus Uncharacterized conserved protein [Funct	84.63
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	84.23
COG3629	280	DnrI DNA-binding transcriptional activator of the	84.2
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	84.05
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.74
KOG2062	929	consensus 26S proteasome regulatory complex, subun	83.18
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	82.37
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	82.29
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	81.96
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	81.88
KOG4570	418	consensus Uncharacterized conserved protein [Funct	81.82
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	81.6
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	81.44
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	80.81
PF13431	34	TPR_17: Tetratricopeptide repeat	80.51
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	80.13
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	80.13

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.6e-124  Score=1062.47  Aligned_cols=629  Identities=36%  Similarity=0.640  Sum_probs=613.3

Q ss_pred             cccccCCCCCCcchHHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCC
Q 006246           17 EEISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKP   96 (654)
Q Consensus        17 ~~~~~~g~~~~~~t~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~   96 (654)
                      ..|...|+.||.+||++++  ++|+..+++..+.++|..+++.|+.||+.++|+||++|++  +|++++|+++|++|++|
T Consensus       176 ~~M~~~g~~Pd~~t~~~ll--~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k--~g~~~~A~~lf~~m~~~  251 (857)
T PLN03077        176 HRMLWAGVRPDVYTFPCVL--RTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVK--CGDVVSARLVFDRMPRR  251 (857)
T ss_pred             HHHHHcCCCCChhHHHHHH--HHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhc--CCCHHHHHHHHhcCCCC
Confidence            3567789999999999997  4899999999999999999999999999999999999999  99999999999999999


Q ss_pred             CcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHH
Q 006246           97 NVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQ  176 (654)
Q Consensus        97 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  176 (654)
                      |+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.|.++|..+.+.|+.||..+||+|+.
T Consensus       252 d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~  331 (857)
T PLN03077        252 DCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQ  331 (857)
T ss_pred             CcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----C------------------------
Q 006246          177 MYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD----K------------------------  228 (654)
Q Consensus       177 ~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~------------------------  228 (654)
                      +|+++|++++|.++|++|..+|.++||++|.+|++.|++++|+++|++|.+    |                        
T Consensus       332 ~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l  411 (857)
T PLN03077        332 MYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKL  411 (857)
T ss_pred             HHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHH
Confidence            999999999999999999999999999999999999999999999999852    3                        


Q ss_pred             -----------CcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcc
Q 006246          229 -----------NTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKF  297 (654)
Q Consensus       229 -----------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  297 (654)
                                 +..+||+|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+++|++|.. +++||..
T Consensus       412 ~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~  490 (857)
T PLN03077        412 HELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSV  490 (857)
T ss_pred             HHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHh
Confidence                       4556788999999999999999999999999999999999999999999999999999986 5999999


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCC
Q 006246          298 VLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGR  377 (654)
Q Consensus       298 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~  377 (654)
                      ||+.++.+|++.|+++.+.++|..+.+.|+.+|..++|+|+++|+|+|++++|.++|+.+ .+|+++||+||.+|+++|+
T Consensus       491 t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~  569 (857)
T PLN03077        491 TLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGK  569 (857)
T ss_pred             HHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCC
Confidence            999999999999999999999999999999999999999999999999999999999999 8999999999999999999


Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHH
Q 006246          378 ADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVIS  457 (654)
Q Consensus       378 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  457 (654)
                      .++|+++|++|.+.|+.||.+||+.++.+|++.|++++|.++|+.|.+.+|+.|+..+|++|+++|+++|++++|.++++
T Consensus       570 ~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~  649 (857)
T PLN03077        570 GSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFIN  649 (857)
T ss_pred             HHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999778999999999999999999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC--------------CchHHHHHHHHHHhcCCccCCcee
Q 006246          458 SMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGIKTNPGSS  523 (654)
Q Consensus       458 ~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~--------------~~~~a~~~~~~m~~~g~~~~~~~s  523 (654)
                      +|+.+||..+|++|+.+|..+|+.+.|+.+++++++++|++.              +|++|.++++.|+++|++|+||+|
T Consensus       650 ~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s  729 (857)
T PLN03077        650 KMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCS  729 (857)
T ss_pred             HCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCcc
Confidence            999999999999999999999999999999999999999987              999999999999999999999999


Q ss_pred             EEEECCEEEEEeeCCCCCcchHHHHHHHHHHHHHHHHcCcccCCCccccccchhhhhccchhhhhHHHHHHhcccCCCCC
Q 006246          524 MIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGA  603 (654)
Q Consensus       524 ~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~g~~pd~~~~~~~~~~~~~~~~~~~~~e~la~~~~~~~~~~~~  603 (654)
                      ||++++.+|.|++||.+||+.++||.+|++|..+|++.||+||++.+++ .++++|+..+++||||||+|||||+||+|+
T Consensus       730 ~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~~-~~~~~k~~~~~~hse~la~a~~l~~~~~~~  808 (857)
T PLN03077        730 WVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMD-EIEVSKDDIFCGHSERLAIAFGLINTVPGM  808 (857)
T ss_pred             EEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhcc-ccHHHHHHHHHhccHHHHHHHhhhcCCCCC
Confidence            9999999999999999999999999999999999999999999998884 478899999999999999999999999999


Q ss_pred             cEEEecccccCcchhhHHHhHhhhcCceEEEecCCccccccCccccCCC
Q 006246          604 TIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCSCND  652 (654)
Q Consensus       604 ~~~~~~~l~~c~~~h~~~~~~s~~~~~~~~~~d~~~~h~f~~g~csc~~  652 (654)
                      ||||+||||||+|||+++||||++.+|+|||||.+|||||+||+|||||
T Consensus       809 ~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        809 PIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             eEEEeCCCEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            9999999999999999999999999999999999999999999999998

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=4.1e-116  Score=976.45  Aligned_cols=565  Identities=33%  Similarity=0.615  Sum_probs=484.7

Q ss_pred             CCCCcchHHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHH
Q 006246           24 IPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNS  103 (654)
Q Consensus        24 ~~~~~~t~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~  103 (654)
                      +.||..||+.++.  +|++.++++.+.++|..+.+.|+.||+.++|.|+++|++  +|++++|+++|++|++||+++||+
T Consensus       119 ~~~~~~t~~~ll~--a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k--~g~~~~A~~lf~~m~~~~~~t~n~  194 (697)
T PLN03081        119 FTLPASTYDALVE--ACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVK--CGMLIDARRLFDEMPERNLASWGT  194 (697)
T ss_pred             CCCCHHHHHHHHH--HHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhc--CCCHHHHHHHHhcCCCCCeeeHHH
Confidence            4455555555542  455555555555555555555555555555555555555  555555555555555555555555


Q ss_pred             HHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCC
Q 006246          104 VLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGC  183 (654)
Q Consensus       104 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  183 (654)
                      +|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|+.+.+.++|..+.+.|+.+|.               
T Consensus       195 li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~---------------  259 (697)
T PLN03081        195 IIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDT---------------  259 (697)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccc---------------
Confidence            55555555555555555555555555555555555555555555555555555555555544444               


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhH
Q 006246          184 VNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEIT  263 (654)
Q Consensus       184 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~  263 (654)
                                                                     .+|++|+++|+++|++++|.++|++|.++|+++
T Consensus       260 -----------------------------------------------~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt  292 (697)
T PLN03081        260 -----------------------------------------------FVSCALIDMYSKCGDIEDARCVFDGMPEKTTVA  292 (697)
T ss_pred             -----------------------------------------------eeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhH
Confidence                                                           444455555566666777777788888889999


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH
Q 006246          264 WSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK  343 (654)
Q Consensus       264 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~  343 (654)
                      ||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|..+.+.|+.+|..++++|+++|+|
T Consensus       293 ~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k  372 (697)
T PLN03081        293 WNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSK  372 (697)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 006246          344 CGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYM  423 (654)
Q Consensus       344 ~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  423 (654)
                      +|++++|.++|++|.++|+++||+||.+|+++|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|
T Consensus       373 ~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m  452 (697)
T PLN03081        373 WGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM  452 (697)
T ss_pred             CCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC----
Q 006246          424 QQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR----  499 (654)
Q Consensus       424 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~----  499 (654)
                      .+.+|+.|+..+|++|+++|+++|++++|.+++++|+.+|+..+|++|+.+|+.+|+++.|+.+++++++++|++.    
T Consensus       453 ~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~  532 (697)
T PLN03081        453 SENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYV  532 (697)
T ss_pred             HHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchH
Confidence            9878999999999999999999999999999999999999999999999999999999999999999999999875    


Q ss_pred             ----------CchHHHHHHHHHHhcCCccCCceeEEEECCEEEEEeeCCCCCcchHHHHHHHHHHHHHHHHcCcccCCCc
Q 006246          500 ----------RCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQ  569 (654)
Q Consensus       500 ----------~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~g~~pd~~~  569 (654)
                                +|++|.++++.|+++|+++.|++||+++++.+|.|++||.+||+.++|+..++++..+|++.||+||+.+
T Consensus       533 ~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~  612 (697)
T PLN03081        533 VLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENE  612 (697)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcch
Confidence                      9999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchhhhhccchhhhhHHHHHHhcccCCCCCcEEEecccccCcchhhHHHhHhhhcCceEEEecCCccccccCcccc
Q 006246          570 VLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATIRVIKNLRVCEDCHSATKLISKVFKRDIIVRDRVRYHHFRNGKCS  649 (654)
Q Consensus       570 ~~~~~~~~~~~~~~~~~~e~la~~~~~~~~~~~~~~~~~~~l~~c~~~h~~~~~~s~~~~~~~~~~d~~~~h~f~~g~cs  649 (654)
                      ++|++++++|+..+.+||||||+||||+++|+|+||||+||||||+|||+|+|+||++++|+|||||.+|||||+||+||
T Consensus       613 ~~~~~~~~~~~~~~~~hsekla~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~cs  692 (697)
T PLN03081        613 LLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCS  692 (697)
T ss_pred             hhccccHHHHHHHHHhccHHHHHHhhCccCCCCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecCCccccCCCCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCC
Q 006246          650 CNDFW  654 (654)
Q Consensus       650 c~~~~  654 (654)
                      |+|||
T Consensus       693 c~d~w  697 (697)
T PLN03081        693 CGDYW  697 (697)
T ss_pred             ccccC
Confidence            99999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.1e-74  Score=657.19  Aligned_cols=607  Identities=25%  Similarity=0.404  Sum_probs=536.6

Q ss_pred             cccCCCCCCcchHHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCc
Q 006246           19 ISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNV   98 (654)
Q Consensus        19 ~~~~g~~~~~~t~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~   98 (654)
                      |...|++|+..+|..++  ++|...+.++.|.++|+.+++.|..+++.++|+|+++|++  +|+++.|+++|++|++||+
T Consensus        77 m~~~g~~~~~~~~~~ll--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~--~g~~~~A~~~f~~m~~~d~  152 (857)
T PLN03077         77 MQELRVPVDEDAYVALF--RLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVR--FGELVHAWYVFGKMPERDL  152 (857)
T ss_pred             HHhcCCCCChhHHHHHH--HHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHh--CCChHHHHHHHhcCCCCCe
Confidence            56688999999999997  4899999999999999999999999999999999999999  9999999999999999999


Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHH
Q 006246           99 FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMY  178 (654)
Q Consensus        99 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  178 (654)
                      ++||+||.+|++.|++++|+++|++|...|+.||.+||+.++++|+..++++.+.++|..+++.|+.||..++|+|+.+|
T Consensus       153 ~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y  232 (857)
T PLN03077        153 FSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMY  232 (857)
T ss_pred             eEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-------------------------------
Q 006246          179 ACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD-------------------------------  227 (654)
Q Consensus       179 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-------------------------------  227 (654)
                      +++|++++|.++|++|+.+|+++||++|.+|++.|++++|+++|++|.+                               
T Consensus       233 ~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~  312 (857)
T PLN03077        233 VKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHG  312 (857)
T ss_pred             hcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999953                               


Q ss_pred             --------CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchH
Q 006246          228 --------KNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVL  299 (654)
Q Consensus       228 --------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  299 (654)
                              ||..+||+|+.+|+++|++++|.++|++|..+|.++||+||.+|++.|++++|+++|++|.+.|+.||..||
T Consensus       313 ~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~  392 (857)
T PLN03077        313 YVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITI  392 (857)
T ss_pred             HHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeH
Confidence                    467788999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChh
Q 006246          300 SCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRAD  379 (654)
Q Consensus       300 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~  379 (654)
                      +.++.+|++.|+++.|.++|+.+.+.|+.++..++|+|+++|+++|++++|.++|++|.++|+++||+||.+|++.|+.+
T Consensus       393 ~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~  472 (857)
T PLN03077        393 ASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCF  472 (857)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          380 DAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       380 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      +|+++|++|.. +++||..||+.++.+|++.|.++.+.+++..+.+. |+.++..++++|+++|+++|++++|.++|+++
T Consensus       473 eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~  550 (857)
T PLN03077        473 EALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH  550 (857)
T ss_pred             HHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccceechHHHHHHHHcCCHHHHHHHHHhc
Confidence            99999999986 59999999999999999999999999999999985 99999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHh--cCCCCC-------------CchHHHHHHHHHH-hcCCccCCcee
Q 006246          460 PMEPNAAVWEALLGACRKHGEVEFGERLGKILLE--MEPQNR-------------RCDDVAKMRKLMK-ERGIKTNPGSS  523 (654)
Q Consensus       460 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--~~p~~~-------------~~~~a~~~~~~m~-~~g~~~~~~~s  523 (654)
                        .||.++|++|+.+|.++|+.++|.++|++|.+  +.|+..             .+++|.++++.|+ +.|+.|+...+
T Consensus       551 --~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y  628 (857)
T PLN03077        551 --EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHY  628 (857)
T ss_pred             --CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHH
Confidence              79999999999999999999999999999998  567765             8999999999998 67988875443


Q ss_pred             EEEECCEEEEEeeCCCCCcchHHHHHHHHHHHHHHHHcCcccCCCccccccchhhhhccchhhhhHHH-HHHhcccCCCC
Q 006246          524 MIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLA-IAFGFINTDPG  602 (654)
Q Consensus       524 ~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~g~~pd~~~~~~~~~~~~~~~~~~~~~e~la-~~~~~~~~~~~  602 (654)
                      ...+.        ....-+..++++.    ++++|   +..||...+-..+..+.....+ .-.|+.| ..+.+.|...+
T Consensus       629 ~~lv~--------~l~r~G~~~eA~~----~~~~m---~~~pd~~~~~aLl~ac~~~~~~-e~~e~~a~~l~~l~p~~~~  692 (857)
T PLN03077        629 ACVVD--------LLGRAGKLTEAYN----FINKM---PITPDPAVWGALLNACRIHRHV-ELGELAAQHIFELDPNSVG  692 (857)
T ss_pred             HHHHH--------HHHhCCCHHHHHH----HHHHC---CCCCCHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhhCCCCcc
Confidence            22111        1111234455544    44444   5788877655444443221111 1122222 23456666566


Q ss_pred             CcEEEecccccCcchhhHHHhHhhhcCceEEE-------ecCCccccccCcccc
Q 006246          603 ATIRVIKNLRVCEDCHSATKLISKVFKRDIIV-------RDRVRYHHFRNGKCS  649 (654)
Q Consensus       603 ~~~~~~~~l~~c~~~h~~~~~~s~~~~~~~~~-------~d~~~~h~f~~g~cs  649 (654)
                      ..+.+..-....|+..++.+....|..+.+--       --.+..|-|..|--|
T Consensus       693 ~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~  746 (857)
T PLN03077        693 YYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDES  746 (857)
T ss_pred             hHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCC
Confidence            65555555677899999999999888774321       113567888766544

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.8e-64  Score=564.40  Aligned_cols=492  Identities=18%  Similarity=0.258  Sum_probs=454.7

Q ss_pred             CCCcchHHHHHhhhhhcCCCChHHHHHHHHHHHHhCC-CCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHH
Q 006246           25 PTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGH-FQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNS  103 (654)
Q Consensus        25 ~~~~~t~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~  103 (654)
                      .++...|..++.  .+.+.|+++.|.++++.|.+.|+ .++..+++.++..|.+  .|.+++|..+|+.|+.||..+||.
T Consensus       367 ~~~~~~~~~~y~--~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~--~g~~~eAl~lf~~M~~pd~~Tyn~  442 (1060)
T PLN03218        367 KRKSPEYIDAYN--RLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKK--QRAVKEAFRFAKLIRNPTLSTFNM  442 (1060)
T ss_pred             CCCchHHHHHHH--HHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHH--CCCHHHHHHHHHHcCCCCHHHHHH
Confidence            345556777764  67788999999999999999986 5678888999999999  999999999999999999999999


Q ss_pred             HHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCC
Q 006246          104 VLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGC  183 (654)
Q Consensus       104 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  183 (654)
                      +|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+++.|.+++++|.+.|+.||..+|+.+|.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcC----CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC------CCCcchHHHHHHHHHhcCCHHHHHHHH
Q 006246          184 VNKARQILDDG----SKSDVICWNALIDGYLKCGDIEGAKELFKSTK------DKNTGSYNAMISGFARFGRFEEARKLF  253 (654)
Q Consensus       184 ~~~A~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~------~~~~~~~~~li~~~~~~g~~~~A~~~~  253 (654)
                      +++|.++|++|    ..||..+||.||.+|++.|++++|.++|++|.      .||..+|++||.+|++.|++++|.++|
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf  602 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY  602 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999987    57899999999999999999999999999995      489999999999999999999999999


Q ss_pred             HhcCC----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 006246          254 NEMND----KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICV  329 (654)
Q Consensus       254 ~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  329 (654)
                      +.|.+    ++..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|+.|
T Consensus       603 ~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~p  682 (1060)
T PLN03218        603 QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL  682 (1060)
T ss_pred             HHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99986    46799999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcC----CCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMK----MKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLS  405 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  405 (654)
                      |..+|++||.+|+++|++++|.++|++|.    .||+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            99999999999999999999999999995    58999999999999999999999999999999999999999999999


Q ss_pred             HHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHH----HcC-------------------CHHHHHHHHHhC---
Q 006246          406 ACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLG----RAG-------------------YLAEAEEVISSM---  459 (654)
Q Consensus       406 ~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~----~~g-------------------~~~~A~~~~~~m---  459 (654)
                      +|++.|++++|.++|..|.+. |+.||..+|++|+.++.    +++                   ..++|..+|++|   
T Consensus       763 a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~  841 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA  841 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC
Confidence            999999999999999999985 99999999999997643    222                   346899999999   


Q ss_pred             CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhc--CCCCC----------Cc-hHHHHHHHHHHhcCCccCCc
Q 006246          460 PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEM--EPQNR----------RC-DDVAKMRKLMKERGIKTNPG  521 (654)
Q Consensus       460 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~p~~~----------~~-~~a~~~~~~m~~~g~~~~~~  521 (654)
                      ++.||..+|+.++..+.+.+..+.+..+++.+...  .|+..          .+ ++|..+++.|.+.|+.|+..
T Consensus       842 Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        842 GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEYDPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccChHHHHHHHHHHHHcCCCCCcc
Confidence            68999999999998877888888888887765431  12221          34 48999999999999998764

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.6e-60  Score=532.82  Aligned_cols=453  Identities=19%  Similarity=0.299  Sum_probs=420.8

Q ss_pred             CCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcc-----hHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccH
Q 006246           62 FQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVF-----VWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTY  136 (654)
Q Consensus        62 ~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  136 (654)
                      .++...|..+++.+++  +|++++|+++|+.|++++..     .++.++.+|.+.|..++|+.+|+.|..    ||..||
T Consensus       367 ~~~~~~~~~~y~~l~r--~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Ty  440 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLR--DGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTF  440 (1060)
T ss_pred             CCCchHHHHHHHHHHH--CcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHH
Confidence            4577788999999999  99999999999999976655     455677789999999999999999974    999999


Q ss_pred             HHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhhHHHHHHHHHHc
Q 006246          137 PTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGS----KSDVICWNALIDGYLKC  212 (654)
Q Consensus       137 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~  212 (654)
                      +.++.+|++.|+++.|.++|+.|.+.|+.||..+|++||.+|+++|++++|.++|++|.    .||..+|++||.+|++.
T Consensus       441 n~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~  520 (1060)
T PLN03218        441 NMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARA  520 (1060)
T ss_pred             HHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence            99999999999999999999999999999999999999999999999999999999984    68999999999999999


Q ss_pred             CCHHHHHHHHHhcCC----CCcchHHHHHHHHHhcCCHHHHHHHHHhcC------CCCHhHHHHHHHHHHhcCChHHHHH
Q 006246          213 GDIEGAKELFKSTKD----KNTGSYNAMISGFARFGRFEEARKLFNEMN------DKDEITWSAIIDGYTKDGYYKEALE  282 (654)
Q Consensus       213 g~~~~A~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~------~~~~~~~~~li~~~~~~g~~~~A~~  282 (654)
                      |++++|.++|++|.+    ||..+|+.||.+|++.|++++|.++|++|.      .||.++|+++|.+|++.|++++|.+
T Consensus       521 G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~e  600 (1060)
T PLN03218        521 GQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE  600 (1060)
T ss_pred             cCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999999964    899999999999999999999999999995      4799999999999999999999999


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---
Q 006246          283 VFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---  359 (654)
Q Consensus       283 ~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---  359 (654)
                      +|++|.+.|+.|+..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|++|+++|++.|++++|.++|++|.+   
T Consensus       601 lf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~  680 (1060)
T PLN03218        601 VYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGI  680 (1060)
T ss_pred             HHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999985   


Q ss_pred             -CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHH
Q 006246          360 -KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGC  438 (654)
Q Consensus       360 -~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~  438 (654)
                       +|..+|++||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|++|.+. |+.||..+|+.
T Consensus       681 ~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~-Gi~Pd~~Ty~s  759 (1060)
T PLN03218        681 KLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL-GLCPNTITYSI  759 (1060)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHH
Confidence             6899999999999999999999999999999999999999999999999999999999999999985 99999999999


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC----Cc-hHHHHHHHH
Q 006246          439 IVDLLGRAGYLAEAEEVISSM---PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR----RC-DDVAKMRKL  510 (654)
Q Consensus       439 li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~----~~-~~a~~~~~~  510 (654)
                      ++.+|++.|++++|.+++++|   ++.||..+|++|+..|.+  +++++....+.+...++.+.    .| ++|..+++.
T Consensus       760 LL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~--~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~e  837 (1060)
T PLN03218        760 LLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRE  837 (1060)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhhhhccccccccchHHHHHHHHHH
Confidence            999999999999999999999   688999999999987763  57777777666666554432    34 679999999


Q ss_pred             HHhcCCccCCcee
Q 006246          511 MKERGIKTNPGSS  523 (654)
Q Consensus       511 m~~~g~~~~~~~s  523 (654)
                      |.+.|+.|+....
T Consensus       838 M~~~Gi~Pd~~T~  850 (1060)
T PLN03218        838 TISAGTLPTMEVL  850 (1060)
T ss_pred             HHHCCCCCCHHHH
Confidence            9999999886443

>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional

Probab=100.00  E-value=2.6e-53  Score=472.77  Aligned_cols=452  Identities=17%  Similarity=0.249  Sum_probs=403.7

Q ss_pred             CCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCC-CCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHH
Q 006246           95 KPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVD-SKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSS  173 (654)
Q Consensus        95 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  173 (654)
                      +++..+|+.+|.+|.+.|++++|+++|+.|...+ ..||..||+.++.+|++.++.+.|.++|..|.+.|+.||..+++.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            5678899999999999999999999999998764 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCcchHHHHHHHHHhcCCHHHH
Q 006246          174 GIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD----KNTGSYNAMISGFARFGRFEEA  249 (654)
Q Consensus       174 li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A  249 (654)
                      |+++|+++|++++|.++|++|+.||.++||++|.+|++.|++++|+++|++|.+    ||..+|+.++.++++.|..+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            999999999999999999999999999999999999999999999999999964    7899999999999999999999


Q ss_pred             HHHHHhcCC----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 006246          250 RKLFNEMND----KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRN  325 (654)
Q Consensus       250 ~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  325 (654)
                      .+++..+.+    +|..+||++|.+|++.|++++|.++|++|.    .+|..+|+.++.+|++.|+.++|.++|.+|.+.
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~  319 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRDS  319 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            999887763    689999999999999999999999999995    468999999999999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC----CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHH
Q 006246          326 SICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM----KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFA  401 (654)
Q Consensus       326 ~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~  401 (654)
                      |+.||..+|++++.+|++.|++++|.++++.|.+    +|..+||+||.+|++.|+.++|.++|++|.    +||..||+
T Consensus       320 g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n  395 (697)
T PLN03081        320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWN  395 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHH
Confidence            9999999999999999999999999999999975    688999999999999999999999999996    47999999


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM----PMEPNAAVWEALLGACRK  477 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~ll~~~~~  477 (654)
                      .+|.+|++.|+.++|.++|++|.+. |+.||..+|+.++.+|++.|.+++|.++|+.|    ++.|+..+|+.++.+|.+
T Consensus       396 ~lI~~y~~~G~~~~A~~lf~~M~~~-g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r  474 (697)
T PLN03081        396 ALIAGYGNHGRGTKAVEMFERMIAE-GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGR  474 (697)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh-CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHh
Confidence            9999999999999999999999985 99999999999999999999999999999999    578999999999999999


Q ss_pred             hCChHHHHHHHHHHHhcCCCCC-------------CchHHHHHHHHHHhcCCccCCceeEEEECCEEEEEeeCCCCCcch
Q 006246          478 HGEVEFGERLGKILLEMEPQNR-------------RCDDVAKMRKLMKERGIKTNPGSSMIDVNGVIHEFRTGDGSHPQV  544 (654)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~p~~~-------------~~~~a~~~~~~m~~~g~~~~~~~s~~~~~~~~~~f~~~~~~~~~~  544 (654)
                      .|++++|.++++++ ...|+..             +++.+..+.+.+.+  +.|+....++.+       +..+...++.
T Consensus       475 ~G~~~eA~~~~~~~-~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--~~p~~~~~y~~L-------~~~y~~~G~~  544 (697)
T PLN03081        475 EGLLDEAYAMIRRA-PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG--MGPEKLNNYVVL-------LNLYNSSGRQ  544 (697)
T ss_pred             cCCHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC--CCCCCCcchHHH-------HHHHHhCCCH
Confidence            99999999998875 2445442             67778887777753  333311111111       1112233444


Q ss_pred             HHHHHHHHHHHHHHHHcCcc--cCCCc
Q 006246          545 KEIYLMLKKIIEKLKMEGYS--PNSSQ  569 (654)
Q Consensus       545 ~~~~~~l~~l~~~~~~~g~~--pd~~~  569 (654)
                      +++.    ++++.|++.|..  |..++
T Consensus       545 ~~A~----~v~~~m~~~g~~k~~g~s~  567 (697)
T PLN03081        545 AEAA----KVVETLKRKGLSMHPACTW  567 (697)
T ss_pred             HHHH----HHHHHHHHcCCccCCCeeE
Confidence            4444    488889999976  44444

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=99.97  E-value=1.2e-32  Score=226.35  Aligned_cols=106  Identities=63%  Similarity=1.022  Sum_probs=97.1

Q ss_pred             ceeEEEECCEEEEEeeCCCCCcchHHHHHHHHHHHHHHHHcCcccCCCccccccchhhh--------hccchhhhhHHHH
Q 006246          521 GSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPNSSQVLFDIDEEEK--------ETAPKYHSEKLAI  592 (654)
Q Consensus       521 ~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~g~~pd~~~~~~~~~~~~~--------~~~~~~~~e~la~  592 (654)
                      ++||+++    |.|++||.+||+.        ++..++...||.|++..+.|+++++++        +..+..||||||+
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAi   69 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAI   69 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHH
Confidence            6789876    9999999999998        466777889999999999998888765        5578999999999


Q ss_pred             HHhcccCCCCCcEEEeccc-ccCcchhhHHHhHhhhcCceEEEecCCcccccc
Q 006246          593 AFGFINTDPGATIRVIKNL-RVCEDCHSATKLISKVFKRDIIVRDRVRYHHFR  644 (654)
Q Consensus       593 ~~~~~~~~~~~~~~~~~~l-~~c~~~h~~~~~~s~~~~~~~~~~d~~~~h~f~  644 (654)
                      ||||+++      +|+||+ |||+|||+|+|+||++++|+|+|||++|||||+
T Consensus        70 afgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   70 AFGLINT------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             Hhcccce------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            9999998      899999 999999999999999999999999999999997

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.97  E-value=3.8e-27  Score=274.10  Aligned_cols=406  Identities=12%  Similarity=0.052  Sum_probs=272.0

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh
Q 006246          101 WNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC  180 (654)
Q Consensus       101 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  180 (654)
                      +..++..+.+.|++++|+.+++++... .+++..++..+...+...|+.++|.+.+..+++.. +.+...+..+..++..
T Consensus       434 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~  511 (899)
T TIGR02917       434 DLLLILSYLRSGQFDKALAAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQ  511 (899)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHH
Confidence            333444444555555555555555442 23344555566666666666666666666666543 3344455566666666


Q ss_pred             cCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHH
Q 006246          181 FGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFN  254 (654)
Q Consensus       181 ~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~  254 (654)
                      .|++++|.+.|+++   .+.+..++..+...+.+.|+.++|..+|+++.+   .+...+..++..|.+.|++++|..+++
T Consensus       512 ~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  591 (899)
T TIGR02917       512 EGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILN  591 (899)
T ss_pred             CCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            66666666666654   334555666666666667777777777666643   234456666777777777777777777


Q ss_pred             hcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCch
Q 006246          255 EMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDA  331 (654)
Q Consensus       255 ~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~  331 (654)
                      .+.+   .+...|..+...|.+.|++++|+..|+++.+.. +.+...+..+..++...|++++|..++..+.+.. +.+.
T Consensus       592 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~  669 (899)
T TIGR02917       592 EAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNT  669 (899)
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCH
Confidence            6653   255667777777777777777777777776643 3344556666677777777777777777776654 3456


Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 006246          332 VLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACA  408 (654)
Q Consensus       332 ~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~  408 (654)
                      ..+..++..+.+.|++++|.++++.+..   .+...|..+...+...|++++|++.|+++...+  |+..++..+..++.
T Consensus       670 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~  747 (899)
T TIGR02917       670 EAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALL  747 (899)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHH
Confidence            6677777777777777777777777764   255667777777777888888888888777753  44466667777777


Q ss_pred             ccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHhCChHHHHH
Q 006246          409 HAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM--PMEPNAAVWEALLGACRKHGEVEFGER  486 (654)
Q Consensus       409 ~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~  486 (654)
                      +.|++++|.+.++.+.+.  .+.+...+..+...|.+.|++++|.+.|+++  ..++++.++..+...+...|+ ++|+.
T Consensus       748 ~~g~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~  824 (899)
T TIGR02917       748 ASGNTAEAVKTLEAWLKT--HPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALE  824 (899)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHH
Confidence            888888888888877763  3455667777778888888888888888776  233467778888888888888 77888


Q ss_pred             HHHHHHhcCCCCC--------------CchHHHHHHHHHHhcC
Q 006246          487 LGKILLEMEPQNR--------------RCDDVAKMRKLMKERG  515 (654)
Q Consensus       487 ~~~~~~~~~p~~~--------------~~~~a~~~~~~m~~~g  515 (654)
                      .+++++++.|+++              ++++|.+.++.+.+.+
T Consensus       825 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  867 (899)
T TIGR02917       825 YAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIA  867 (899)
T ss_pred             HHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            8888888888776              6777777777776544

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein

Probab=99.97  E-value=4e-27  Score=273.90  Aligned_cols=460  Identities=11%  Similarity=0.053  Sum_probs=382.2

Q ss_pred             CCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCchHHH
Q 006246           42 CHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEPWRVI  118 (654)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~  118 (654)
                      ..|+++.|...+..+.+.... +......++..|.+  .|++++|..+++.+.   .++...|+.+...+...|++++|.
T Consensus       409 ~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~--~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  485 (899)
T TIGR02917       409 SQGDPSEAIADLETAAQLDPE-LGRADLLLILSYLR--SGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAR  485 (899)
T ss_pred             hCCChHHHHHHHHHHHhhCCc-chhhHHHHHHHHHh--cCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHH
Confidence            344444444444444443321 22334445556666  677777777776665   246678999999999999999999


Q ss_pred             HHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC---C
Q 006246          119 SLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG---S  195 (654)
Q Consensus       119 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~  195 (654)
                      ..|+++.+.. +.+...+..+...+...|++++|.+.++.+++.+ +.+..++..+...|.+.|+.++|...|+++   .
T Consensus       486 ~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  563 (899)
T TIGR02917       486 EAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN  563 (899)
T ss_pred             HHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999998753 2345567777788889999999999999999875 457788999999999999999999999986   4


Q ss_pred             CCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHH
Q 006246          196 KSDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIID  269 (654)
Q Consensus       196 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~  269 (654)
                      +.+...+..++..|.+.|++++|..+++.+.+   .+...|..+...|.+.|++++|...|+.+.+   .+...|..+..
T Consensus       564 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  643 (899)
T TIGR02917       564 PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLAD  643 (899)
T ss_pred             ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHH
Confidence            45677888999999999999999999999875   4667899999999999999999999998864   36778999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHH
Q 006246          270 GYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDM  349 (654)
Q Consensus       270 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~  349 (654)
                      .|.+.|++++|...|+++.+.. +.+..++..+...+...|++++|..+++.+.+.. +.+...+..+...|.+.|++++
T Consensus       644 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~  721 (899)
T TIGR02917       644 AYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPA  721 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999998764 4456788889999999999999999999998876 4567788889999999999999


Q ss_pred             HHHHHhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHc
Q 006246          350 AWKVFEDMKM--KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMY  427 (654)
Q Consensus       350 A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~  427 (654)
                      |.+.|+.+..  ++..++..++..+.+.|++++|.+.++++.+.. +.+...+..+...|...|+.++|.++|+++.+. 
T Consensus       722 A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-  799 (899)
T TIGR02917       722 AIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK-  799 (899)
T ss_pred             HHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh-
Confidence            9999998865  455778889999999999999999999998864 457778888999999999999999999999874 


Q ss_pred             CCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC------
Q 006246          428 GIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR------  499 (654)
Q Consensus       428 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~------  499 (654)
                       .+++...+..+..++...|+ .+|++.++++ ...| +..++..+...+...|++++|...++++++.+|.++      
T Consensus       800 -~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l  877 (899)
T TIGR02917       800 -APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPEAAAIRYHL  877 (899)
T ss_pred             -CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCChHHHHHH
Confidence             35667889999999999999 8899999987 3333 577888999999999999999999999999999876      


Q ss_pred             --------CchHHHHHHHHHH
Q 006246          500 --------RCDDVAKMRKLMK  512 (654)
Q Consensus       500 --------~~~~a~~~~~~m~  512 (654)
                              ++++|.++++.|.
T Consensus       878 ~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       878 ALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHh
Confidence                    6777777776654

This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.90  E-value=3.8e-19  Score=208.53  Aligned_cols=461  Identities=12%  Similarity=0.070  Sum_probs=295.1

Q ss_pred             hhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC--CCc-chH------------
Q 006246           37 ILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK--PNV-FVW------------  101 (654)
Q Consensus        37 ~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~--~~~-~~~------------  101 (654)
                      .+.....++.+.|++.+.+++... +.++.++..+...+.+  .|+.++|.+.+++..+  |+- ..+            
T Consensus        35 ~~~~~~~~~~d~a~~~l~kl~~~~-p~~p~~~~~~~~~~l~--~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~  111 (1157)
T PRK11447         35 VRLGEATHREDLVRQSLYRLELID-PNNPDVIAARFRLLLR--QGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPE  111 (1157)
T ss_pred             HHHHHhhCChHHHHHHHHHHHccC-CCCHHHHHHHHHHHHh--CCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCc
Confidence            456778889999999999888764 3367888888888888  9999999999998863  332 222            


Q ss_pred             ----HHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcc-cHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHH
Q 006246          102 ----NSVLRACLEHNEPWRVISLYSEMVGVDSKPNKF-TYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQ  176 (654)
Q Consensus       102 ----~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  176 (654)
                          ..+...+.+.|++++|+..|+++.... +|+.. ............++.++|...++.+++.. +.+...+..+..
T Consensus       112 ~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~  189 (1157)
T PRK11447        112 GRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLAL  189 (1157)
T ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence                223346788999999999999998653 33322 11111222334688999999999999875 456778889999


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCC------hhh-----------------HH------------------------------
Q 006246          177 MYACFGCVNKARQILDDGSKSD------VIC-----------------WN------------------------------  203 (654)
Q Consensus       177 ~y~~~g~~~~A~~~~~~~~~~~------~~~-----------------~~------------------------------  203 (654)
                      .+...|+.++|.+.|+++....      ...                 +.                              
T Consensus       190 ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~  269 (1157)
T PRK11447        190 LLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPA  269 (1157)
T ss_pred             HHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcc
Confidence            9999999999999988752111      000                 00                              


Q ss_pred             ----HHHHHHHHcCCHHHHHHHHHhcCC--C-CcchHHHHHHHHHhcCCHHHHHHHHHhcCC--CC---HhHHHH-----
Q 006246          204 ----ALIDGYLKCGDIEGAKELFKSTKD--K-NTGSYNAMISGFARFGRFEEARKLFNEMND--KD---EITWSA-----  266 (654)
Q Consensus       204 ----~li~~~~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~---~~~~~~-----  266 (654)
                          .....+...|++++|+..|++..+  | +...+..+...|.+.|++++|...|++..+  |+   ...|..     
T Consensus       270 ~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~  349 (1157)
T PRK11447        270 FRARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVN  349 (1157)
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhh
Confidence                112345667888888888887765  3 566778888888888888888888887764  21   112222     


Q ss_pred             -------HHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          267 -------IIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       267 -------li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                             ....+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|++.|+.+.+.. +.+...+..+..
T Consensus       350 ~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~  427 (1157)
T PRK11447        350 RYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLAN  427 (1157)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence                   2345667888888888888888763 2344556667778888888888888888888754 223444444544


Q ss_pred             HHHHcCCHHHHHHHHhhcCCCC------------HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKMKE------------VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLSA  406 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~~~------------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~  406 (654)
                      .|. .++.++|..+++.+....            ...+..+...+...|++++|++.|++.++.  .| +...+..+...
T Consensus       428 l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~  504 (1157)
T PRK11447        428 LYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQD  504 (1157)
T ss_pred             HHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            443 234455555554443211            112333444455556666666666665553  23 23344455555


Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCC-cchH--------------------------------------------HHHHH
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPE-VEHY--------------------------------------------GCIVD  441 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~--------------------------------------------~~li~  441 (654)
                      +.+.|++++|...++++.+.   .|+ ...+                                            ..+.+
T Consensus       505 ~~~~G~~~~A~~~l~~al~~---~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~  581 (1157)
T PRK11447        505 LRQAGQRSQADALMRRLAQQ---KPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETAN  581 (1157)
T ss_pred             HHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHH
Confidence            56666666666666655442   121 1111                                            12234


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC--------------CchHHHHH
Q 006246          442 LLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR--------------RCDDVAKM  507 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~--------------~~~~a~~~  507 (654)
                      .+...|+.++|+++++.-|  ++...+..+...+...|++++|+..|+++++.+|++.              ++++|.+.
T Consensus       582 ~l~~~G~~~eA~~~l~~~p--~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~  659 (1157)
T PRK11447        582 RLRDSGKEAEAEALLRQQP--PSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQ  659 (1157)
T ss_pred             HHHHCCCHHHHHHHHHhCC--CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4555666666666666332  3455566677777778888888888888888888775              66666666


Q ss_pred             HHHHH
Q 006246          508 RKLMK  512 (654)
Q Consensus       508 ~~~m~  512 (654)
                      ++...
T Consensus       660 l~~ll  664 (1157)
T PRK11447        660 LAKLP  664 (1157)
T ss_pred             HHHHh
Confidence            66443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.89  E-value=3.4e-19  Score=208.93  Aligned_cols=465  Identities=11%  Similarity=0.040  Sum_probs=262.8

Q ss_pred             hhhcCCCChHHHHHHHHHHHHhCCCCchhH-HHHHHHhcccccCCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCC
Q 006246           38 LNTKCHTSWQHLKQAHAVILKSGHFQDHYV-SGTLVKCHANSRFSNFELALKVFNSVHK--P-NVFVWNSVLRACLEHNE  113 (654)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~-~~~Li~~y~~~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~  113 (654)
                      +.+...|++++|.+.+..+++... |+... ...+......  .|+.++|++.|+++..  | +...+..+...+...|+
T Consensus       120 ~ll~~~g~~~eA~~~~~~~l~~~p-~~~~la~~y~~~~~~~--~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~  196 (1157)
T PRK11447        120 RLLATTGRTEEALASYDKLFNGAP-PELDLAVEYWRLVAKL--PAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGR  196 (1157)
T ss_pred             HHHHhCCCHHHHHHHHHHHccCCC-CChHHHHHHHHHHhhC--CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCC
Confidence            356778999999999999987643 33221 1111222233  6899999999999873  3 45578888888999999


Q ss_pred             chHHHHHHHHhHhCCCC----------------CCcc---cHHHH----------------------------------H
Q 006246          114 PWRVISLYSEMVGVDSK----------------PNKF---TYPTV----------------------------------F  140 (654)
Q Consensus       114 ~~~A~~~~~~m~~~g~~----------------p~~~---t~~~l----------------------------------l  140 (654)
                      +++|+..|+++......                ++..   .+...                                  -
T Consensus       197 ~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G  276 (1157)
T PRK11447        197 RDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQG  276 (1157)
T ss_pred             HHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHH
Confidence            99999999988653210                0000   01000                                  1


Q ss_pred             HHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCC--CC---hhhHHHH----------
Q 006246          141 KACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSK--SD---VICWNAL----------  205 (654)
Q Consensus       141 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~---~~~~~~l----------  205 (654)
                      .++...|++++|...++++++.. +.+..++..+...|.+.|++++|+..|++...  |+   ...|..+          
T Consensus       277 ~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~  355 (1157)
T PRK11447        277 LAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLI  355 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHH
Confidence            12334455555555555555543 23445555555555555666666555555311  11   1112111          


Q ss_pred             --HHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC--C-CHhHHHHHHHHHHhcCCh
Q 006246          206 --IDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND--K-DEITWSAIIDGYTKDGYY  277 (654)
Q Consensus       206 --i~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~  277 (654)
                        ...+.+.|++++|+..|++..+   .+...+..+...|...|++++|++.|+++.+  | +...+..+...|. .++.
T Consensus       356 ~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~  434 (1157)
T PRK11447        356 QQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSP  434 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCH
Confidence              2234455556666665555543   2233444555555555666666666555543  1 2334444444442 2344


Q ss_pred             HHHHHHHHHHHhCCCC--------CCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHH
Q 006246          278 KEALEVFNEMQRDKIK--------PRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDM  349 (654)
Q Consensus       278 ~~A~~~~~~m~~~g~~--------p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~  349 (654)
                      ++|+.+++.+......        .....+..+...+...|++++|.+.++++++.. +.+..++..+...|.+.|++++
T Consensus       435 ~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~  513 (1157)
T PRK11447        435 EKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQ  513 (1157)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            5555444433211000        001122233444556677777777777777654 2345566667777777777777


Q ss_pred             HHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH---------HHHHHHHHHHccCCHHHHH
Q 006246          350 AWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI---------TFACVLSACAHAGMIDRGL  417 (654)
Q Consensus       350 A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~---------t~~~ll~~~~~~g~~~~a~  417 (654)
                      |...|+++..   .+...+..+...+...|+.++|+..++++......++..         .+..+...+...|+.++|.
T Consensus       514 A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~  593 (1157)
T PRK11447        514 ADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAE  593 (1157)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHH
Confidence            7777776643   244444444445556667777777666654322221111         1223344556666677766


Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          418 QALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       418 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      ++++   .   .+++...+..+.+.+.+.|++++|++.|++. ...| +...+..+...+...|++++|+..++++++..
T Consensus       594 ~~l~---~---~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~  667 (1157)
T PRK11447        594 ALLR---Q---QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATA  667 (1157)
T ss_pred             HHHH---h---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC
Confidence            6655   1   1334455666777777777777777777766 2334 46677777777777777777777777777777


Q ss_pred             CCCC--------------CchHHHHHHHHHHhc
Q 006246          496 PQNR--------------RCDDVAKMRKLMKER  514 (654)
Q Consensus       496 p~~~--------------~~~~a~~~~~~m~~~  514 (654)
                      |++.              ++++|.++++.+.+.
T Consensus       668 p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        668 NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            7665              566677666665543

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.88  E-value=1.7e-19  Score=179.64  Aligned_cols=419  Identities=12%  Similarity=0.079  Sum_probs=319.5

Q ss_pred             HHHHHhcccccCCChHHHHHHHhcCCCCC-cchHH--HHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhc
Q 006246           69 GTLVKCHANSRFSNFELALKVFNSVHKPN-VFVWN--SVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSI  145 (654)
Q Consensus        69 ~~Li~~y~~~~~g~~~~A~~~f~~~~~~~-~~~~~--~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  145 (654)
                      ..|..-..+  .|++.+|++.-...-+.| ..+=+  .+-..+.+..+.+....--....+. .+.-..+|+.+.+.+-.
T Consensus        52 l~lah~~yq--~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~-~~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   52 LELAHRLYQ--GGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHh--ccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHH
Confidence            344444455  688888887665443221 11111  1223344555555443332222221 12245678888888888


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCCh--hhH-HHHHHHHHHcCCHHHHHHHH
Q 006246          146 TEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDV--ICW-NALIDGYLKCGDIEGAKELF  222 (654)
Q Consensus       146 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~--~~~-~~li~~~~~~g~~~~A~~~~  222 (654)
                      .|+++.|..++..+++.. +..+..|..+..++...|+.+.|.+.|.+...-|+  ... +.+...+-..|++++|...|
T Consensus       129 rg~~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             hchHHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHHHhhcccchhHHHH
Confidence            888888888888888764 34566788888888888888888888877643333  322 23334445578888888888


Q ss_pred             HhcCCCC---cchHHHHHHHHHhcCCHHHHHHHHHhcCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-C
Q 006246          223 KSTKDKN---TGSYNAMISGFARFGRFEEARKLFNEMNDKD---EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP-R  295 (654)
Q Consensus       223 ~~m~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~  295 (654)
                      .+..+.+   .+.|+.|...+-..|++-.|+..|++...-|   ...|-.|...|...+.+++|+..|.+....  .| .
T Consensus       208 lkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~  285 (966)
T KOG4626|consen  208 LKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNH  285 (966)
T ss_pred             HHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcc
Confidence            7776533   4578889989999999999999999887643   457888889999999999999999888765  44 4


Q ss_pred             cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHH
Q 006246          296 KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGL  372 (654)
Q Consensus       296 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~  372 (654)
                      ...+..+...|-..|.++.|+..|++.++.. +.-...|+.|..++-..|++.+|.+.|.+...   ....+.+.|...|
T Consensus       286 A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~  364 (966)
T KOG4626|consen  286 AVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIY  364 (966)
T ss_pred             hhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            5567777777888999999999999998865 23467899999999999999999999998765   3567889999999


Q ss_pred             HHcCChhHHHHHHHHHhhcCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHH
Q 006246          373 AMHGRADDAIELFFKMQREKMRPDR-ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLA  450 (654)
Q Consensus       373 ~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~  450 (654)
                      ...|.+++|..+|....+  +.|.- ..++.|...|-+.|++++|+..+++..+   +.|+ ...|+.+...|...|+.+
T Consensus       365 ~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~NmGnt~ke~g~v~  439 (966)
T KOG4626|consen  365 REQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALSNMGNTYKEMGDVS  439 (966)
T ss_pred             HHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHHhcchHHHHhhhHH
Confidence            999999999999999887  45554 4788999999999999999999998874   6787 668999999999999999


Q ss_pred             HHHHHHHhC-CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          451 EAEEVISSM-PMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       451 ~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .|++.+.+. .+.|. ....+.|...|...|++++|+..|+.+++++|+.+
T Consensus       440 ~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfp  490 (966)
T KOG4626|consen  440 AAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFP  490 (966)
T ss_pred             HHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCc
Confidence            999999987 55665 77889999999999999999999999999999987

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.87  E-value=3.4e-17  Score=183.78  Aligned_cols=444  Identities=9%  Similarity=0.053  Sum_probs=291.7

Q ss_pred             hhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC--CCcchHHHHHHHHHhCCCchH
Q 006246           39 NTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK--PNVFVWNSVLRACLEHNEPWR  116 (654)
Q Consensus        39 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~  116 (654)
                      .....|+++.|...+.++++..+. ++.++..|...|.+  .|+.++|+..+++..+  |+-..|..++..+   +++++
T Consensus        53 ~~~~~Gd~~~A~~~l~~Al~~dP~-n~~~~~~LA~~yl~--~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~k  126 (987)
T PRK09782         53 KAQKNNDEATAIREFEYIHQQVPD-NIPLTLYLAEAYRH--FGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVK  126 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH--CCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChh
Confidence            344569999999999999998755 48899999999999  9999999999998874  3222233323222   77788


Q ss_pred             HHHHHHHhHhCCC------------------------------------CC--CcccHHHH-HHHHhccCCcHHHHHHHH
Q 006246          117 VISLYSEMVGVDS------------------------------------KP--NKFTYPTV-FKACSITEADKEGVQVHA  157 (654)
Q Consensus       117 A~~~~~~m~~~g~------------------------------------~p--~~~t~~~l-l~~~~~~~~~~~a~~~~~  157 (654)
                      |..+|+++.....                                    .|  +....... .+.+...++++++..++.
T Consensus       127 A~~~ye~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~  206 (987)
T PRK09782        127 SVTTVEELLAQQKACDAVPTLRCRSEVGQNALRLAQLPVARAQLNDATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYN  206 (987)
T ss_pred             HHHHHHHHHHhCCCChhHHHHHHHHhhccchhhhhhHHHHHHHHHHhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHH
Confidence            8888888876421                                    11  12212222 445566677777777777


Q ss_pred             HHHHhCCCCChhhHHHHHHHHHh-cCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-----CCcc
Q 006246          158 HVVKNGLCGDVHVKSSGIQMYAC-FGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD-----KNTG  231 (654)
Q Consensus       158 ~~~~~g~~~~~~~~~~li~~y~~-~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~  231 (654)
                      .+.+.+ +.+......|..+|.. .++ +.+..+++...+.++..+..+...|.+.|+.++|.++++++..     |+..
T Consensus       207 ~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~  284 (987)
T PRK09782        207 EARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEK  284 (987)
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccH
Confidence            777765 3344445556666666 355 7777776655556788888999999999999999999988762     1000


Q ss_pred             hH------------------------------------------------------------------------------
Q 006246          232 SY------------------------------------------------------------------------------  233 (654)
Q Consensus       232 ~~------------------------------------------------------------------------------  233 (654)
                      +|                                                                              
T Consensus       285 ~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~  364 (987)
T PRK09782        285 SWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRL  364 (987)
T ss_pred             HHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHH
Confidence            00                                                                              


Q ss_pred             ---------------HHHHHHHHhcCCHHHHHHHHHhcCC-C--------------------------------------
Q 006246          234 ---------------NAMISGFARFGRFEEARKLFNEMND-K--------------------------------------  259 (654)
Q Consensus       234 ---------------~~li~~~~~~g~~~~A~~~~~~~~~-~--------------------------------------  259 (654)
                                     -.+.-...+.|+.++|.++|+.... +                                      
T Consensus       365 ~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~  444 (987)
T PRK09782        365 ARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPL  444 (987)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcccccc
Confidence                           0000011345556666666555432 0                                      


Q ss_pred             -------------------------------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 006246          260 -------------------------------DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACAS  308 (654)
Q Consensus       260 -------------------------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  308 (654)
                                                     +...|..+..++.. +++++|+..|.+....  .|+......+..++..
T Consensus       445 ~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~  521 (987)
T PRK09782        445 AEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQ  521 (987)
T ss_pred             chhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHH
Confidence                                           11223333333333 4555666655555543  3444333333344456


Q ss_pred             cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHH---HHHHHHHHcCChhHHHHHH
Q 006246          309 LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWN---AMIGGLAMHGRADDAIELF  385 (654)
Q Consensus       309 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~---~li~~~~~~g~~~~A~~l~  385 (654)
                      .|++++|...++.+...  +|+...+..+...+.+.|+.++|.+.|++....+...++   .+.......|++++|+..|
T Consensus       522 ~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~  599 (987)
T PRK09782        522 VEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDL  599 (987)
T ss_pred             CCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            77777777777776543  233334455666777777888777777776653322222   2233334458888888888


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-
Q 006246          386 FKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-  463 (654)
Q Consensus       386 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-  463 (654)
                      ++..+.  .|+...+..+...+.+.|+.++|...+++..+.  -+.+...+..+..++...|++++|++.+++. ...| 
T Consensus       600 ~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~  675 (987)
T PRK09782        600 TRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPD  675 (987)
T ss_pred             HHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC
Confidence            888774  567777888888888888888888888888763  2333556777778888888999998888876 3444 


Q ss_pred             CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          464 NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       464 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ++..+..+..++...|++++|+..++++++++|++.
T Consensus       676 ~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a  711 (987)
T PRK09782        676 DPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQA  711 (987)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCc
Confidence            577888888899999999999999999999998886

>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=99.86  E-value=4.4e-19  Score=176.69  Aligned_cols=422  Identities=14%  Similarity=0.137  Sum_probs=334.3

Q ss_pred             CCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCCchHHH
Q 006246           42 CHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK---PNVFVWNSVLRACLEHNEPWRVI  118 (654)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~  118 (654)
                      ..|++.+|.+--..+-.... .+....-.+-..|..  ..+++....--....+   .-..+|..+...+-..|++++|+
T Consensus        60 q~gd~~~a~~h~nmv~~~d~-t~~~~llll~ai~~q--~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~~~~al  136 (966)
T KOG4626|consen   60 QGGDYKQAEKHCNMVGQEDP-TNTERLLLLSAIFFQ--GSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQLQDAL  136 (966)
T ss_pred             hccCHHHHHHHHhHhhccCC-Ccccceeeehhhhhc--ccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhchHHHHH
Confidence            45677777665444443321 111122222244444  4455544332222222   23457999999999999999999


Q ss_pred             HHHHHhHhCCCCC-CcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChh-hHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 006246          119 SLYSEMVGVDSKP-NKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVH-VKSSGIQMYACFGCVNKARQILDDGSK  196 (654)
Q Consensus       119 ~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~y~~~g~~~~A~~~~~~~~~  196 (654)
                      .+++.|.+.  +| ....|..+..++...|+.+.|.+.+.+.++..  |+.. +.+.+-...-..|++++|...+.+...
T Consensus       137 ~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~  212 (966)
T KOG4626|consen  137 ALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKACYLKAIE  212 (966)
T ss_pred             HHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHHHHHHHHh
Confidence            999999985  45 45688888899999999999999999999864  5544 444555666678999999998887533


Q ss_pred             ---CChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCC---cchHHHHHHHHHhcCCHHHHHHHHHhcCC--C-CHhHHHHH
Q 006246          197 ---SDVICWNALIDGYLKCGDIEGAKELFKSTKDKN---TGSYNAMISGFARFGRFEEARKLFNEMND--K-DEITWSAI  267 (654)
Q Consensus       197 ---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l  267 (654)
                         -=.+.|+.|...+-.+|+...|+..|++..+-|   ...|-.|.+.|...+.++.|...+.+...  | ..+.+..|
T Consensus       213 ~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNl  292 (966)
T KOG4626|consen  213 TQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNL  292 (966)
T ss_pred             hCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccce
Confidence               346789999999999999999999999998754   35789999999999999999999998764  3 56788889


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCC-cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCC
Q 006246          268 IDGYTKDGYYKEALEVFNEMQRDKIKPR-KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGR  346 (654)
Q Consensus       268 i~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~  346 (654)
                      ...|...|..+-|+..|++.++.  .|+ ...|+.+..++-..|+..+|.+.|...+... +......+.|...|...|.
T Consensus       293 a~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~  369 (966)
T KOG4626|consen  293 ACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGK  369 (966)
T ss_pred             EEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcc
Confidence            99999999999999999999875  454 4689999999999999999999999999875 3346677889999999999


Q ss_pred             HHHHHHHHhhcCCCC---HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHH
Q 006246          347 LDMAWKVFEDMKMKE---VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI-TFACVLSACAHAGMIDRGLQALTY  422 (654)
Q Consensus       347 ~~~A~~~~~~m~~~~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~  422 (654)
                      +++|..+|.....-.   ....|.|...|-++|+.++|+..|++.++  ++|+.. .|+.+...|-..|+++.|.+.+.+
T Consensus       370 ~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~r  447 (966)
T KOG4626|consen  370 IEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTR  447 (966)
T ss_pred             chHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHH
Confidence            999999999887632   35789999999999999999999999987  678764 899999999999999999999999


Q ss_pred             HHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHh
Q 006246          423 MQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AAVWEALLGACRKH  478 (654)
Q Consensus       423 ~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~  478 (654)
                      ...   +.|. .+..+.|...|...|++.+|++-++.. +++|| +..+-.++....--
T Consensus       448 AI~---~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~v  503 (966)
T KOG4626|consen  448 AIQ---INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIV  503 (966)
T ss_pred             HHh---cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHH
Confidence            885   4665 667899999999999999999999987 67787 55566666554433

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=2.5e-19  Score=187.30  Aligned_cols=287  Identities=15%  Similarity=0.128  Sum_probs=137.9

Q ss_pred             HHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCC---hhhHHHHHHHHHhcCCH
Q 006246          108 CLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGD---VHVKSSGIQMYACFGCV  184 (654)
Q Consensus       108 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~y~~~g~~  184 (654)
                      +...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+++.+..++   ..++..+...|.+.|++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            345556666666666666542 11233455555555566666666666665554321111   13445556666666666


Q ss_pred             HHHHHHHhcCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCc--------chHHHHHHHHHhcCCHHHHHHHH
Q 006246          185 NKARQILDDGSK---SDVICWNALIDGYLKCGDIEGAKELFKSTKDKNT--------GSYNAMISGFARFGRFEEARKLF  253 (654)
Q Consensus       185 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--------~~~~~li~~~~~~g~~~~A~~~~  253 (654)
                      ++|..+|+++..   .+..+++.++..|.+.|++++|.+.++.+.+.+.        ..+..+...+.+.|++++|...|
T Consensus       124 ~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~  203 (389)
T PRK11788        124 DRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALL  203 (389)
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            666666665522   3445566666666666666666666665543211        12233444445555555555555


Q ss_pred             HhcCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc
Q 006246          254 NEMND--K-DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD  330 (654)
Q Consensus       254 ~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  330 (654)
                      +++.+  | +...+..+...|.+.|++++|.++|+++...+......++..+..++...|++++|...+..+.+..  |+
T Consensus       204 ~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~  281 (389)
T PRK11788        204 KKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--PG  281 (389)
T ss_pred             HHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CC
Confidence            55432  1 2334445555555555555555555555543211112233444444444455555544444444432  22


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHH---cCChhHHHHHHHHHhhcCCCCCH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKM--KEVFTWNAMIGGLAM---HGRADDAIELFFKMQREKMRPDR  397 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~---~g~~~~A~~l~~~m~~~g~~p~~  397 (654)
                      ...+..++..|.+.|++++|..+|+++.+  |+..+++.++..+..   .|+.++++.++++|.+.+++|+.
T Consensus       282 ~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        282 ADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             chHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            23334444444444444444444444332  333444444443332   23444444444444444433333

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=2.4e-18  Score=179.85  Aligned_cols=257  Identities=15%  Similarity=0.104  Sum_probs=176.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhcCCCC-------HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 006246          232 SYNAMISGFARFGRFEEARKLFNEMNDKD-------EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLA  304 (654)
Q Consensus       232 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  304 (654)
                      ++..+...+...|++++|..+++.+....       ...+..+...|.+.|++++|+.+|+++.+.. +++..++..+..
T Consensus        71 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~  149 (389)
T PRK11788         71 LHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLE  149 (389)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHH
Confidence            34444444444444444444444443210       1234555555566666666666666655432 233445555555


Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCc----hhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCC
Q 006246          305 ACASLGALDQGIWIHDHVKRNSICVD----AVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGR  377 (654)
Q Consensus       305 ~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~  377 (654)
                      .+.+.|++++|.+.+..+.+.+..+.    ...+..+...+.+.|++++|.+.|+++.+   .+...+..+...|.+.|+
T Consensus       150 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~  229 (389)
T PRK11788        150 IYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGD  229 (389)
T ss_pred             HHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCC
Confidence            56666666666666665555432221    12345677788888999999999988764   245678888899999999


Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHH
Q 006246          378 ADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVIS  457 (654)
Q Consensus       378 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  457 (654)
                      +++|+++|+++.+.+......++..+..++...|++++|.+.++.+.+.   .|+...+..++..+.+.|++++|.++++
T Consensus       230 ~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~la~~~~~~g~~~~A~~~l~  306 (389)
T PRK11788        230 YAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE---YPGADLLLALAQLLEEQEGPEAAQALLR  306 (389)
T ss_pred             HHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhCCHHHHHHHHH
Confidence            9999999999987643323456788899999999999999999999874   5777778899999999999999999998


Q ss_pred             hC-CCCCCHHHHHHHHHHHHH---hCChHHHHHHHHHHH
Q 006246          458 SM-PMEPNAAVWEALLGACRK---HGEVEFGERLGKILL  492 (654)
Q Consensus       458 ~m-~~~p~~~~~~~ll~~~~~---~g~~~~a~~~~~~~~  492 (654)
                      ++ ...|+...+..++..+..   +|+.+++...+++++
T Consensus       307 ~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~  345 (389)
T PRK11788        307 EQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLV  345 (389)
T ss_pred             HHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHH
Confidence            76 567899999988887765   456766666665554

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.84  E-value=3.5e-17  Score=180.34  Aligned_cols=264  Identities=13%  Similarity=0.085  Sum_probs=211.2

Q ss_pred             cCCHHHHHHHHHhcCCC------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-cchHHHHHHHHHhcCChhHH
Q 006246          243 FGRFEEARKLFNEMNDK------DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPR-KFVLSCVLAACASLGALDQG  315 (654)
Q Consensus       243 ~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a  315 (654)
                      .+++++|.+.|+...+.      +...|+.+...+...|++++|+..|++....  .|+ ...|..+...+...|++++|
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA  384 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKA  384 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHH
Confidence            46899999999987642      3557888889999999999999999999876  444 45777888888999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC
Q 006246          316 IWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREK  392 (654)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  392 (654)
                      ...++.+++.. +.+..++..+...|...|++++|...|++...   .+...|..+...+.+.|++++|+..|++.++..
T Consensus       385 ~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  463 (615)
T TIGR00990       385 EEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF  463 (615)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            99999998875 45678888999999999999999999998875   356788889999999999999999999998752


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCc-ch-------HHHHHHHHHHcCCHHHHHHHHHhC-CCCC
Q 006246          393 MRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEV-EH-------YGCIVDLLGRAGYLAEAEEVISSM-PMEP  463 (654)
Q Consensus       393 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~-~~-------~~~li~~~~~~g~~~~A~~~~~~m-~~~p  463 (654)
                       +.+...+..+...+...|++++|+..|+...+.   .|+. ..       ++.....+...|++++|.+++++. ...|
T Consensus       464 -P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p  539 (615)
T TIGR00990       464 -PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL---EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDP  539 (615)
T ss_pred             -CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc---CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Confidence             335678888899999999999999999998763   3331 11       112222344579999999999986 4555


Q ss_pred             C-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC------CchHHHHHHHHHHh
Q 006246          464 N-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR------RCDDVAKMRKLMKE  513 (654)
Q Consensus       464 ~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~------~~~~a~~~~~~m~~  513 (654)
                      + ...+..+...+...|++++|...+++++++.+...      .|.++.++....++
T Consensus       540 ~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~e~~~a~~~~~a~~~~~~~~~  596 (615)
T TIGR00990       540 ECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEGELVQAISYAEATRTQIQVQE  596 (615)
T ss_pred             CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHH
Confidence            4 56789999999999999999999999999887643      45555555444443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.82  E-value=2.7e-16  Score=176.44  Aligned_cols=397  Identities=9%  Similarity=0.003  Sum_probs=243.1

Q ss_pred             HHHHhcccccCCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCC-cccHHHHHHHHhc
Q 006246           70 TLVKCHANSRFSNFELALKVFNSVHK---PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPN-KFTYPTVFKACSI  145 (654)
Q Consensus        70 ~Li~~y~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~  145 (654)
                      -.+.....  .|+.++|+++|+....   .+...+..+...+.+.|++++|+++|++..+.  .|+ ...+..+..++..
T Consensus        20 d~~~ia~~--~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~   95 (765)
T PRK10049         20 DWLQIALW--AGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLAD   95 (765)
T ss_pred             HHHHHHHH--cCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            33444444  5666666666666542   22233566666666666666666666666553  232 3334444445556


Q ss_pred             cCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHH
Q 006246          146 TEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELF  222 (654)
Q Consensus       146 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~  222 (654)
                      .|+.++|...++.+++.. +.+.. +..+..++...|+.++|...+++.   .+.+...+..+...+...|..++|+..+
T Consensus        96 ~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l  173 (765)
T PRK10049         96 AGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAI  173 (765)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHH
Confidence            666666666666666542 23333 555555555555555555555543   2223333444444444455555555544


Q ss_pred             HhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHH-----HhcCCh---HHHHHHHHHHHhC-CCC
Q 006246          223 KSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGY-----TKDGYY---KEALEVFNEMQRD-KIK  293 (654)
Q Consensus       223 ~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~-----~~~g~~---~~A~~~~~~m~~~-g~~  293 (654)
                      +.... ++.....+                       .......++...     ...+++   ++|++.++.+.+. ...
T Consensus       174 ~~~~~-~p~~~~~l-----------------------~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~  229 (765)
T PRK10049        174 DDANL-TPAEKRDL-----------------------EADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDN  229 (765)
T ss_pred             HhCCC-CHHHHHHH-----------------------HHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccC
Confidence            44433 11100000                       000111111111     112233   6777777777754 223


Q ss_pred             CCcc-hHHH----HHHHHHhcCChhHHHHHHHHHHHcCCC-CchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCC------
Q 006246          294 PRKF-VLSC----VLAACASLGALDQGIWIHDHVKRNSIC-VDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKE------  361 (654)
Q Consensus       294 p~~~-t~~~----ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~------  361 (654)
                      |+.. .+..    .+.++...|+.++|+..|+.+.+.+.+ |+ .....+...|...|++++|+..|+++...+      
T Consensus       230 p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~-~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~  308 (765)
T PRK10049        230 PDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPP-WAQRWVASAYLKLHQPEKAQSILTELFYHPETIADL  308 (765)
T ss_pred             CccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCC
Confidence            3221 1111    133445668888888888888776532 22 122235678888888888888888875422      


Q ss_pred             -HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC-----------CCCH---HHHHHHHHHHHccCCHHHHHHHHHHHHHH
Q 006246          362 -VFTWNAMIGGLAMHGRADDAIELFFKMQREKM-----------RPDR---ITFACVLSACAHAGMIDRGLQALTYMQQM  426 (654)
Q Consensus       362 -~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-----------~p~~---~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  426 (654)
                       ...+..+..++...|++++|+++++++.+...           .|+.   ..+..+...+...|+.++|++.++++...
T Consensus       309 ~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~  388 (765)
T PRK10049        309 SDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN  388 (765)
T ss_pred             ChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             23455666678888999999999988876521           2332   24456677888999999999999999874


Q ss_pred             cCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          427 YGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       427 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                        .+.+...+..+..++...|++++|++.+++. ...|+ ...+..+...+...|++++|+.+++++++..|+++
T Consensus       389 --~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~  461 (765)
T PRK10049        389 --APGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDP  461 (765)
T ss_pred             --CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCH
Confidence              3445678889999999999999999999987 45565 67777888899999999999999999999999997

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=9.7e-17  Score=176.25  Aligned_cols=339  Identities=9%  Similarity=-0.004  Sum_probs=170.6

Q ss_pred             cHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHH
Q 006246          135 TYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLK  211 (654)
Q Consensus       135 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~  211 (654)
                      -...++..+.+.|+.+.|..++...+.... .+......++......|+++.|.+.|++.   .+.+...|..+...+.+
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p-~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~  122 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAK-NGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLK  122 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCC-CchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            444555666777777777777777776542 23334444444555566666666666654   23344455555555555


Q ss_pred             cCCHHHHHHHHHhcCC--C-CcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006246          212 CGDIEGAKELFKSTKD--K-NTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQ  288 (654)
Q Consensus       212 ~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  288 (654)
                      .|++++|+..|++..+  | +...+..+...+...|++++|...+                               +.+.
T Consensus       123 ~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~-------------------------------~~~~  171 (656)
T PRK15174        123 SKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLA-------------------------------RTQA  171 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHH-------------------------------HHHH
Confidence            5555555555555443  1 2334444444455555555555544                               4443


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHH
Q 006246          289 RDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTW  365 (654)
Q Consensus       289 ~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~  365 (654)
                      ...  |+.......+..+...|++++|...+..+.+....++......+...+.+.|++++|.+.|++...   .+...+
T Consensus       172 ~~~--P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~  249 (656)
T PRK15174        172 QEV--PPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALR  249 (656)
T ss_pred             HhC--CCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHH
Confidence            321  111111111122344444444444444444332222222223334444455555555555554433   134445


Q ss_pred             HHHHHHHHHcCChhH----HHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHH
Q 006246          366 NAMIGGLAMHGRADD----AIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIV  440 (654)
Q Consensus       366 ~~li~~~~~~g~~~~----A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li  440 (654)
                      ..+...|...|++++    |+..|++..+.. +.+...+..+...+...|++++|...++...+.   .|+ ...+..+.
T Consensus       250 ~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l---~P~~~~a~~~La  325 (656)
T PRK15174        250 RSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT---HPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            555555555555553    566666655532 113345555555666666666666666665542   232 33444555


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCCCHHH-HHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC--CchHHHHHHHHH
Q 006246          441 DLLGRAGYLAEAEEVISSM-PMEPNAAV-WEALLGACRKHGEVEFGERLGKILLEMEPQNR--RCDDVAKMRKLM  511 (654)
Q Consensus       441 ~~~~~~g~~~~A~~~~~~m-~~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~--~~~~a~~~~~~m  511 (654)
                      .+|.+.|++++|++.++++ ...|+... +..+..++...|+.++|...++++++..|++.  .|+++...+...
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~~~~~~ea~~~~~~~  400 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHLPQSFEEGLLALDGQ  400 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhchhhHHHHHHHHHHH
Confidence            6666666666666666655 23344322 22334556666666666666666666666654  555554444433

>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)

Probab=99.81  E-value=2.7e-16  Score=173.28  Aligned_cols=403  Identities=13%  Similarity=0.033  Sum_probs=277.8

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh
Q 006246          101 WNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC  180 (654)
Q Consensus       101 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  180 (654)
                      +......+.+.|++++|+..|++....  .|+...|..+..++...|++++|...+..+++.. +.+...+..+...|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            445666788889999999999998764  5777788888888888999999999999988864 3456678888889999


Q ss_pred             cCCHHHHHHHHhcCC---CCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcC
Q 006246          181 FGCVNKARQILDDGS---KSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMN  257 (654)
Q Consensus       181 ~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  257 (654)
                      .|++++|...|....   ..+......++..+........+...++.- .++...+..+.. |......+.+..-++...
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  284 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAGLEDSN  284 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhhhhccc
Confidence            999999988776532   111111122222222211122233333221 122233333322 222211111211122211


Q ss_pred             CCCH---hHHHHHHHHH---HhcCChHHHHHHHHHHHhCC-CCC-CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 006246          258 DKDE---ITWSAIIDGY---TKDGYYKEALEVFNEMQRDK-IKP-RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICV  329 (654)
Q Consensus       258 ~~~~---~~~~~li~~~---~~~g~~~~A~~~~~~m~~~g-~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  329 (654)
                      +.+.   ..+..+...+   ...+++++|++.|++....+ ..| +...+..+...+...|++++|...++.+++.. +.
T Consensus       285 ~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~  363 (615)
T TIGR00990       285 ELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PR  363 (615)
T ss_pred             ccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CC
Confidence            1111   1111111111   23478999999999998865 234 33466777777889999999999999998864 33


Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA  406 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  406 (654)
                      +...+..+...|...|++++|...|+++..   .+...|..+...+...|++++|+..|++.++.. +.+...+..+...
T Consensus       364 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~  442 (615)
T TIGR00990       364 VTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVT  442 (615)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHH
Confidence            466788889999999999999999998765   367899999999999999999999999998863 2345677788889


Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-------H-HHHHHHHHHHHH
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-------A-AVWEALLGACRK  477 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-------~-~~~~~ll~~~~~  477 (654)
                      +.+.|++++|...|+...+.  .+.+...|..+..++...|++++|++.|++. ...|+       . ..++..+..+..
T Consensus       443 ~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~  520 (615)
T TIGR00990       443 QYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQW  520 (615)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHH
Confidence            99999999999999999873  3344678899999999999999999999986 33332       1 112222333445


Q ss_pred             hCChHHHHHHHHHHHhcCCCCC--------------CchHHHHHHHHHH
Q 006246          478 HGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMK  512 (654)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~p~~~--------------~~~~a~~~~~~m~  512 (654)
                      .|++++|..+++++++++|++.              ++++|.+.++...
T Consensus       521 ~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~  569 (615)
T TIGR00990       521 KQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAA  569 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            6999999999999999999885              5666666655543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.79  E-value=7.7e-16  Score=169.19  Aligned_cols=339  Identities=12%  Similarity=0.034  Sum_probs=217.4

Q ss_pred             CCChHHHHHHHhcCCC------CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHH
Q 006246           80 FSNFELALKVFNSVHK------PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGV  153 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  153 (654)
                      ..+|+.---.|...++      -+..-...++..+.+.|++++|+.+++........ +...+..+..+....|+.+.|.
T Consensus        18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A~   96 (656)
T PRK15174         18 QEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAVL   96 (656)
T ss_pred             hhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHHH
Confidence            6778877777777663      12333455677888999999999999999886433 3334555556677899999999


Q ss_pred             HHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--C
Q 006246          154 QVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKD--K  228 (654)
Q Consensus       154 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~  228 (654)
                      +.++.+++.. +.+...+..+...+...|++++|...+++.   .+.+...|..+...+...|++++|...++.+..  |
T Consensus        97 ~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P  175 (656)
T PRK15174         97 QVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP  175 (656)
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC
Confidence            9999999875 456678888999999999999999999985   455778899999999999999999999987643  3


Q ss_pred             Ccc-hHHHHHHHHHhcCCHHHHHHHHHhcCCC----CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHH
Q 006246          229 NTG-SYNAMISGFARFGRFEEARKLFNEMNDK----DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVL  303 (654)
Q Consensus       229 ~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  303 (654)
                      +.. .+..+ ..+...|++++|...++.+.+.    +...+..+...+.+.|++++|+..|+++.... +.+...+..+.
T Consensus       176 ~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg  253 (656)
T PRK15174        176 PRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLG  253 (656)
T ss_pred             CCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            322 23222 3366677777777777765442    22233444556666777777777777766543 22334444455


Q ss_pred             HHHHhcCChhH----HHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcC
Q 006246          304 AACASLGALDQ----GIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHG  376 (654)
Q Consensus       304 ~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g  376 (654)
                      ..+...|++++    |...++.+.+.. +.+..++..+...+.+.|++++|...+++...   .+...+..+...|.+.|
T Consensus       254 ~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G  332 (656)
T PRK15174        254 LAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVG  332 (656)
T ss_pred             HHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCC
Confidence            55556666553    555555555543 22445555555555555555555555555443   13344555555555555


Q ss_pred             ChhHHHHHHHHHhhcCCCCCHHH-HHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          377 RADDAIELFFKMQREKMRPDRIT-FACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       377 ~~~~A~~l~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ++++|+..|+++...  .|+... +..+..++...|+.++|...|+...+
T Consensus       333 ~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        333 QYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             CHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555555555543  233222 22233445555555555555555544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.79  E-value=9.7e-15  Score=160.85  Aligned_cols=413  Identities=11%  Similarity=0.028  Sum_probs=301.6

Q ss_pred             CCChHHHHHHHhcCCC--CCc-chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHH---HHHHhccCCcHHHH
Q 006246           80 FSNFELALKVFNSVHK--PNV-FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTV---FKACSITEADKEGV  153 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l---l~~~~~~~~~~~a~  153 (654)
                      .|+++.|+..|++..+  |+. .....++..+...|+.++|+..+++..    .|+...+..+   ...+...|++++|.
T Consensus        47 ~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdyd~Ai  122 (822)
T PRK14574         47 AGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRWDQAL  122 (822)
T ss_pred             CCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            7888888888888774  332 123377778888888889988888876    3433333333   33566778888999


Q ss_pred             HHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHH--cCCHHHHHHHHHhcCC--C-
Q 006246          154 QVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLK--CGDIEGAKELFKSTKD--K-  228 (654)
Q Consensus       154 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~--~-  228 (654)
                      ++++.+++.. +.+..++..++..|...++.++|++.+++..+.++.....+..+|..  .++..+|+..++++.+  | 
T Consensus       123 ely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~  201 (822)
T PRK14574        123 ALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPT  201 (822)
T ss_pred             HHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCC
Confidence            9999888875 34466677788888888999999999988765554433334445444  5556568999988876  3 


Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhcCCC-CHhHHHH----HHHHHH---------hcCC---hHHHHHHHHHHHhC-
Q 006246          229 NTGSYNAMISGFARFGRFEEARKLFNEMNDK-DEITWSA----IIDGYT---------KDGY---YKEALEVFNEMQRD-  290 (654)
Q Consensus       229 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~----li~~~~---------~~g~---~~~A~~~~~~m~~~-  290 (654)
                      +...+..+...+.+.|-...|.++..+-++- +...+..    .+.-.+         ...+   .+.|+.-++.+... 
T Consensus       202 n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~  281 (822)
T PRK14574        202 SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRW  281 (822)
T ss_pred             CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhc
Confidence            4566788888889999998998888776531 1111000    011111         1122   34566666665542 


Q ss_pred             CCCCCc-chH----HHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----
Q 006246          291 KIKPRK-FVL----SCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----  360 (654)
Q Consensus       291 g~~p~~-~t~----~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----  360 (654)
                      +-.|.. .-|    .-.+-++...++..++++.++.+...+.+....+-.++.++|...+.+++|..+|+++...     
T Consensus       282 ~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~  361 (822)
T PRK14574        282 GKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTF  361 (822)
T ss_pred             cCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcccccc
Confidence            222332 222    2345677889999999999999999887666778889999999999999999999987542     


Q ss_pred             ----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC-------------CCCHHH-HHHHHHHHHccCCHHHHHHHHHH
Q 006246          361 ----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKM-------------RPDRIT-FACVLSACAHAGMIDRGLQALTY  422 (654)
Q Consensus       361 ----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-------------~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~  422 (654)
                          +......|..+|...+++++|..+++++.+.-.             .||-.. +..++..+...|++.+|.+.++.
T Consensus       362 ~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~  441 (822)
T PRK14574        362 RNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLED  441 (822)
T ss_pred             CCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                233357789999999999999999999987311             223333 34456678899999999999999


Q ss_pred             HHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          423 MQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       423 ~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +...  -+-|......+.+++...|++.+|++.++.. ...| +..+....+.+....|++++|..+.+.+++..|++.
T Consensus       442 l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~  518 (822)
T PRK14574        442 LSST--APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDI  518 (822)
T ss_pred             HHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCch
Confidence            9873  4556788899999999999999999999876 3456 466777888899999999999999999999999998

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.79  E-value=1.3e-14  Score=163.02  Aligned_cols=451  Identities=8%  Similarity=-0.068  Sum_probs=323.2

Q ss_pred             hhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccC-CChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCch
Q 006246           37 ILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRF-SNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPW  115 (654)
Q Consensus        37 ~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~-g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~  115 (654)
                      .+.+...++++.+..++..+.+.+.. +......|-.+|..  . ++ +.|..+++...+.|...+..+...|.+.|+.+
T Consensus       189 ~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q--~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~  264 (987)
T PRK09782        189 LQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLA--GQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKA  264 (987)
T ss_pred             HHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHH--hhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHH
Confidence            35777899999999999999998744 34456666667776  3 55 88888887655678888999999999999999


Q ss_pred             HHHHHHHHhHhCCCC-CCcccHHHHHH------------------------------HHhccCCcHHHHHH---------
Q 006246          116 RVISLYSEMVGVDSK-PNKFTYPTVFK------------------------------ACSITEADKEGVQV---------  155 (654)
Q Consensus       116 ~A~~~~~~m~~~g~~-p~~~t~~~ll~------------------------------~~~~~~~~~~a~~~---------  155 (654)
                      +|.+.++++...-.. |+..++..++.                              .+.+.++++.+.++         
T Consensus       265 ~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  344 (987)
T PRK09782        265 RLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEM  344 (987)
T ss_pred             HHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchH
Confidence            999999998653222 33333332221                              12222333322222         


Q ss_pred             --------------------HHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCC--C----ChhhHHHHHHHH
Q 006246          156 --------------------HAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSK--S----DVICWNALIDGY  209 (654)
Q Consensus       156 --------------------~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~----~~~~~~~li~~~  209 (654)
                                          +..+.+.. +.+.....-+.-...+.|+.++|.++|+....  +    +...-+-++..|
T Consensus       345 ~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~  423 (987)
T PRK09782        345 LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLL  423 (987)
T ss_pred             HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHH
Confidence                                11222110 12333333334445667889999999987633  2    233444677777


Q ss_pred             HHcCC---HHHHHHHHH-------------------------hcCC---C--CcchHHHHHHHHHhcCCHHHHHHHHHhc
Q 006246          210 LKCGD---IEGAKELFK-------------------------STKD---K--NTGSYNAMISGFARFGRFEEARKLFNEM  256 (654)
Q Consensus       210 ~~~g~---~~~A~~~~~-------------------------~m~~---~--~~~~~~~li~~~~~~g~~~~A~~~~~~~  256 (654)
                      .+.+.   ..++..+-.                         ....   +  +...|..+..++.. ++.++|...|.+.
T Consensus       424 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~A  502 (987)
T PRK09782        424 ESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQA  502 (987)
T ss_pred             HhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHH
Confidence            77766   334433311                         1111   2  45567778877777 8898999987776


Q ss_pred             CCCCHhHHHHHH--HHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHH
Q 006246          257 NDKDEITWSAII--DGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLG  334 (654)
Q Consensus       257 ~~~~~~~~~~li--~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  334 (654)
                      ....+..++.+.  ..+.+.|++++|...|+++...  +|+...+..+..++.+.|++++|...+..+.+.. +.+...+
T Consensus       503 l~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~  579 (987)
T PRK09782        503 EQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALY  579 (987)
T ss_pred             HHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHH
Confidence            643333444444  4446899999999999998654  4555556677778899999999999999998875 3333444


Q ss_pred             HHHHHHHHHcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC
Q 006246          335 TALVDMYAKCGRLDMAWKVFEDMKM--KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM  412 (654)
Q Consensus       335 ~~li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  412 (654)
                      ..+.....+.|++++|...|++...  |+...|..+...+.+.|+.++|+..|++..+.. +.+...+..+..++...|+
T Consensus       580 ~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~  658 (987)
T PRK09782        580 WWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGD  658 (987)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCC
Confidence            4444455566999999999998875  677889999999999999999999999999863 2245577777789999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHH
Q 006246          413 IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AAVWEALLGACRKHGEVEFGERLGKI  490 (654)
Q Consensus       413 ~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~  490 (654)
                      .++|+..++...+.  -+-+...+..+..++...|++++|+..+++. ...|+ ..+.........+..+++.+.+.+++
T Consensus       659 ~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r  736 (987)
T PRK09782        659 IAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGR  736 (987)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            99999999999873  2334678889999999999999999999988 56665 46666777888888999999999999


Q ss_pred             HHhcCCCCC
Q 006246          491 LLEMEPQNR  499 (654)
Q Consensus       491 ~~~~~p~~~  499 (654)
                      ...++|+..
T Consensus       737 ~~~~~~~~~  745 (987)
T PRK09782        737 RWTFSFDSS  745 (987)
T ss_pred             HhhcCccch
Confidence            999988864

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.78  E-value=4.6e-15  Score=166.62  Aligned_cols=393  Identities=8%  Similarity=-0.039  Sum_probs=235.4

Q ss_pred             hhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCc
Q 006246           38 LNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEP  114 (654)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~  114 (654)
                      ......|+.+.|.+++....... +.+...+..+..++.+  .|++++|..+|+...   ..+...+..+...+...|++
T Consensus        23 ~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~--~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~   99 (765)
T PRK10049         23 QIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRN--LKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQY   99 (765)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHH--cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH
Confidence            45667899999999999887633 3345568888899999  999999999999954   34566788888899999999


Q ss_pred             hHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC
Q 006246          115 WRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG  194 (654)
Q Consensus       115 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~  194 (654)
                      ++|+..+++..+.  .|+...+..+..++...|+.++|...++++++.. +.+..++..+...+...|..+.|.+.++..
T Consensus       100 ~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~  176 (765)
T PRK10049        100 DEALVKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDA  176 (765)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhC
Confidence            9999999999886  3433337777778889999999999999999975 445666777888898999999999999887


Q ss_pred             CCCChhh--------HHHHHHHHH-----HcCCH---HHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHh
Q 006246          195 SKSDVIC--------WNALIDGYL-----KCGDI---EGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNE  255 (654)
Q Consensus       195 ~~~~~~~--------~~~li~~~~-----~~g~~---~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~  255 (654)
                      .. ++..        ...++..+.     ..+++   ++|+..++.+.+   .++......                   
T Consensus       177 ~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~-------------------  236 (765)
T PRK10049        177 NL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADY-------------------  236 (765)
T ss_pred             CC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHH-------------------
Confidence            65 3221        111111111     11112   344444444431   111000000                   


Q ss_pred             cCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC---ch
Q 006246          256 MNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIK-PRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICV---DA  331 (654)
Q Consensus       256 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~---~~  331 (654)
                           .......+..+...|++++|+..|+++.+.+.+ |+. ....+..++...|++++|+..++.+.+.....   ..
T Consensus       237 -----~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~  310 (765)
T PRK10049        237 -----QRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSD  310 (765)
T ss_pred             -----HHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCCh
Confidence                 000001122233445555555555555444311 111 11112334455555555555555544322110   01


Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHhhcCCCC------------------HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC
Q 006246          332 VLGTALVDMYAKCGRLDMAWKVFEDMKMKE------------------VFTWNAMIGGLAMHGRADDAIELFFKMQREKM  393 (654)
Q Consensus       332 ~~~~~li~~y~~~g~~~~A~~~~~~m~~~~------------------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  393 (654)
                      .....|..++.+.|++++|.++++.+...+                  ...+..+...+...|+.++|+++++++.... 
T Consensus       311 ~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-  389 (765)
T PRK10049        311 EELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-  389 (765)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            223334444555555555555555544311                  1233445556666777777777777776642 


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHH
Q 006246          394 RPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAA  466 (654)
Q Consensus       394 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~  466 (654)
                      +-+...+..+...+...|++++|++.+++..+.   .|+ ...+..++..+.+.|++++|+++++++ ...|+..
T Consensus       390 P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l---~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~  461 (765)
T PRK10049        390 PGNQGLRIDYASVLQARGWPRAAENELKKAEVL---EPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDP  461 (765)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh---CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCH
Confidence            224455666666666777777777777766652   344 445555556666777777777777766 3344433

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.77  E-value=6.2e-15  Score=155.21  Aligned_cols=461  Identities=13%  Similarity=0.087  Sum_probs=319.7

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCC------cchHHHHHHHHHhCCCchHH
Q 006246           44 TSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPN------VFVWNSVLRACLEHNEPWRV  117 (654)
Q Consensus        44 ~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~------~~~~~~li~~~~~~g~~~~A  117 (654)
                      .++..|.+++....+.. ..+|.+.+.|.+.|..  .|+++.+..+.+.+...+      ..+|--+.++|-..|++++|
T Consensus       250 ~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyf--K~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA  326 (1018)
T KOG2002|consen  250 DSYKKGVQLLQRAYKEN-NENPVALNHLANHFYF--KKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKA  326 (1018)
T ss_pred             HHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhh--cccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHH
Confidence            34556666666655544 3467778888887777  788888887777665322      23466677778888888888


Q ss_pred             HHHHHHhHhCCCCCCcccHH--HHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcC----CHHHHHHHH
Q 006246          118 ISLYSEMVGVDSKPNKFTYP--TVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFG----CVNKARQIL  191 (654)
Q Consensus       118 ~~~~~~m~~~g~~p~~~t~~--~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g----~~~~A~~~~  191 (654)
                      ...|-+..+.  .||.++++  -+...+...|+++.+...|+.+.+.. +.+..+...|...|+..+    ..+.|..++
T Consensus       327 ~~yY~~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l  403 (1018)
T KOG2002|consen  327 FKYYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVL  403 (1018)
T ss_pred             HHHHHHHHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHH
Confidence            8888766654  45554443  34556777888888888888877753 444556666666666654    556666666


Q ss_pred             hcCC---CCChhhHHHHHHHHHHcCCHHHHHHHHHhc--------CCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC-
Q 006246          192 DDGS---KSDVICWNALIDGYLKCGDIEGAKELFKST--------KDKNTGSYNAMISGFARFGRFEEARKLFNEMNDK-  259 (654)
Q Consensus       192 ~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-  259 (654)
                      .+..   +.|...|-.+...|-+..-+.. +..|...        ....+...|.+...+...|+++.|...|...... 
T Consensus       404 ~K~~~~~~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~  482 (1018)
T KOG2002|consen  404 GKVLEQTPVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKL  482 (1018)
T ss_pred             HHHHhcccccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhh
Confidence            6653   3355666666666555443322 4444332        2356667788888888888888888888876532 


Q ss_pred             ------CH------hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 006246          260 ------DE------ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKF-VLSCVLAACASLGALDQGIWIHDHVKRNS  326 (654)
Q Consensus       260 ------~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~  326 (654)
                            |.      .+-..+...+-..++.+.|.+.|....+.  .|.-. .|..++......+...+|...+..+....
T Consensus       483 ~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d  560 (1018)
T KOG2002|consen  483 LEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID  560 (1018)
T ss_pred             hhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc
Confidence                  22      12333555666777888888888888775  34332 23233322233466777888877777654


Q ss_pred             CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-----CCHHHHHHHHHHHHH------------cCChhHHHHHHHHHh
Q 006246          327 ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-----KEVFTWNAMIGGLAM------------HGRADDAIELFFKMQ  389 (654)
Q Consensus       327 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~~~~~~~li~~~~~------------~g~~~~A~~l~~~m~  389 (654)
                       ..++.+++-+.+.|.+..++..|.+-|+.+.+     +|..+.-+|...|.+            .+..++|+++|.+.+
T Consensus       561 -~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL  639 (1018)
T KOG2002|consen  561 -SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVL  639 (1018)
T ss_pred             -cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHH
Confidence             44666777777788888888888886665543     255555555554432            245788999999998


Q ss_pred             hcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCH
Q 006246          390 REKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM----PMEPNA  465 (654)
Q Consensus       390 ~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~  465 (654)
                      +.. +-|...-+.+.-.++..|++.+|..+|.++++.  ......+|-.+..+|..+|++..|+++|+..    .-..+.
T Consensus       640 ~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~  716 (1018)
T KOG2002|consen  640 RND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREA--TSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRS  716 (1018)
T ss_pred             hcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHH--HhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCH
Confidence            864 336777788888899999999999999999985  3345667889999999999999999999876    223478


Q ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC---------------------------------CchHHHHHHHHHH
Q 006246          466 AVWEALLGACRKHGEVEFGERLGKILLEMEPQNR---------------------------------RCDDVAKMRKLMK  512 (654)
Q Consensus       466 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---------------------------------~~~~a~~~~~~m~  512 (654)
                      .+...|..++...|.+.+|.+.+..+..+.|.++                                 ..+.+.++|..|.
T Consensus       717 ~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls  796 (1018)
T KOG2002|consen  717 EVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELS  796 (1018)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999999999999999997                                 5567777888877


Q ss_pred             hcCCc
Q 006246          513 ERGIK  517 (654)
Q Consensus       513 ~~g~~  517 (654)
                      +.+-+
T Consensus       797 ~~~d~  801 (1018)
T KOG2002|consen  797 KNGDK  801 (1018)
T ss_pred             hcCCC
Confidence            66543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.72  E-value=3.4e-13  Score=148.73  Aligned_cols=439  Identities=9%  Similarity=0.007  Sum_probs=319.0

Q ss_pred             HHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHH---HHH
Q 006246           31 QKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSV---LRA  107 (654)
Q Consensus        31 ~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~l---i~~  107 (654)
                      |...+   ...+.|++..|...+.++++..+...+.++ .++..+..  .|+.++|+..+++...|+...+..+   ...
T Consensus        38 y~~ai---i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~--~G~~~~A~~~~eka~~p~n~~~~~llalA~l  111 (822)
T PRK14574         38 YDSLI---IRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGW--AGRDQEVIDVYERYQSSMNISSRGLASAARA  111 (822)
T ss_pred             HHHHH---HHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHH--cCCcHHHHHHHHHhccCCCCCHHHHHHHHHH
Confidence            44444   466889999999999999987644334455 88888888  9999999999999987755444443   346


Q ss_pred             HHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHH
Q 006246          108 CLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKA  187 (654)
Q Consensus       108 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  187 (654)
                      |...|++++|+++|+++.+.. +-+...+..+...+...++.++|.+.+..+.+.  .|+...+..++..+...++..+|
T Consensus       112 y~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~A  188 (822)
T PRK14574        112 YRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDA  188 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHH
Confidence            778899999999999999863 224456666777788999999999999999876  45555555555556556777679


Q ss_pred             HHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC-Ccch--------HHHHHHHH-----HhcCC---HH
Q 006246          188 RQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKDK-NTGS--------YNAMISGF-----ARFGR---FE  247 (654)
Q Consensus       188 ~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~--------~~~li~~~-----~~~g~---~~  247 (654)
                      .+.++++   .+.+...+..+...+.+.|-...|+++..+-..- +...        ...+++.-     ....+   .+
T Consensus       189 L~~~ekll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d  268 (822)
T PRK14574        189 LQASSEAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIAD  268 (822)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHH
Confidence            9999987   4446777888999999999999999998875531 0000        11111110     01122   34


Q ss_pred             HHHHHHHhcCC-----CCH-h----HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHH
Q 006246          248 EARKLFNEMND-----KDE-I----TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIW  317 (654)
Q Consensus       248 ~A~~~~~~~~~-----~~~-~----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  317 (654)
                      .|+.-++.+..     |.. .    ..--.+-++...|++.++++.|+.|...|.+....+-..+..+|...+.+++|..
T Consensus       269 ~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~  348 (822)
T PRK14574        269 KALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAP  348 (822)
T ss_pred             HHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHH
Confidence            45554555443     211 1    2223456788899999999999999998876566788899999999999999999


Q ss_pred             HHHHHHHcC-----CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH------------------HHHHHHHHHHHH
Q 006246          318 IHDHVKRNS-----ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV------------------FTWNAMIGGLAM  374 (654)
Q Consensus       318 ~~~~~~~~~-----~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~------------------~~~~~li~~~~~  374 (654)
                      ++..+....     .+++......|.-+|...+++++|..+++++.+..+                  .....++..+..
T Consensus       349 l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~  428 (822)
T PRK14574        349 ILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVA  428 (822)
T ss_pred             HHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHH
Confidence            999997753     233444467899999999999999999998875111                  234456777889


Q ss_pred             cCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHH
Q 006246          375 HGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       375 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~  453 (654)
                      .|+..+|++.++++.... +-|.-....+...+...|.+.+|.+.++....   +.|+ .......+..+...|++++|.
T Consensus       429 ~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~---l~P~~~~~~~~~~~~al~l~e~~~A~  504 (822)
T PRK14574        429 LNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVES---LAPRSLILERAQAETAMALQEWHQME  504 (822)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh---hCCccHHHHHHHHHHHHhhhhHHHHH
Confidence            999999999999998864 44777888899999999999999999976654   3555 556677888888999999999


Q ss_pred             HHHHhC-CCCCCHHHHHHHHHHHHHhCChH
Q 006246          454 EVISSM-PMEPNAAVWEALLGACRKHGEVE  482 (654)
Q Consensus       454 ~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~  482 (654)
                      .+.+.. ...|+......|-.....|...+
T Consensus       505 ~~~~~l~~~~Pe~~~~~~l~r~~~~h~~~~  534 (822)
T PRK14574        505 LLTDDVISRSPEDIPSQELDRQRKVHNMYE  534 (822)
T ss_pred             HHHHHHHhhCCCchhHHHHHHHHHHhhhHH
Confidence            988766 23344333333333333444333

>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]

Probab=99.68  E-value=7.6e-13  Score=139.78  Aligned_cols=458  Identities=12%  Similarity=0.071  Sum_probs=332.2

Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC------CCCcchHHHHHHHHHhCCCchHHH
Q 006246           45 SWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH------KPNVFVWNSVLRACLEHNEPWRVI  118 (654)
Q Consensus        45 ~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~------~~~~~~~~~li~~~~~~g~~~~A~  118 (654)
                      +++.|.+.|..+++..+..-++.....--.|.+   +++..|+.+|....      .+|+..  .+..++.+.|+.+.|+
T Consensus       145 ~~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynk---kdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~  219 (1018)
T KOG2002|consen  145 SMDDADAQFHFVLKQSPDNILALLGKARIAYNK---KDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKAL  219 (1018)
T ss_pred             cHHHHHHHHHHHHhhCCcchHHHHHHHHHHhcc---ccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHH
Confidence            368899999999988654444555444445554   89999999998854      244421  2234567889999999


Q ss_pred             HHHHHhHhCCCCCCcc-cHHHHHHH---HhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC
Q 006246          119 SLYSEMVGVDSKPNKF-TYPTVFKA---CSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG  194 (654)
Q Consensus       119 ~~~~~m~~~g~~p~~~-t~~~ll~~---~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~  194 (654)
                      ..|.+..+.  .|+.+ ++..|--.   +-.......|.+++...-... ..++.+.+.|.+.|.-.|++..+..+...+
T Consensus       220 ~a~~ralqL--dp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~a  296 (1018)
T KOG2002|consen  220 LAFERALQL--DPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHA  296 (1018)
T ss_pred             HHHHHHHhc--ChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHH
Confidence            999999885  34322 22211111   122334566777777666654 567889999999999999999999988776


Q ss_pred             CCCC------hhhHHHHHHHHHHcCCHHHHHHHHHhcCCC--C--cchHHHHHHHHHhcCCHHHHHHHHHhcCC--C-CH
Q 006246          195 SKSD------VICWNALIDGYLKCGDIEGAKELFKSTKDK--N--TGSYNAMISGFARFGRFEEARKLFNEMND--K-DE  261 (654)
Q Consensus       195 ~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~  261 (654)
                      ...+      ..+|-.+.++|-..|++++|...|.+..+.  |  +..+--|..+|.+.|+++.|...|+.+..  | +.
T Consensus       297 i~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~  376 (1018)
T KOG2002|consen  297 IKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNY  376 (1018)
T ss_pred             HHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchH
Confidence            3332      346888999999999999999999888763  3  33456789999999999999999999875  3 45


Q ss_pred             hHHHHHHHHHHhcC----ChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHH----HcCCCCchhH
Q 006246          262 ITWSAIIDGYTKDG----YYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVK----RNSICVDAVL  333 (654)
Q Consensus       262 ~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~~  333 (654)
                      .+...+...|...+    ..++|..++.+..+.- +.|...|..+...+.. ++.......+..+.    ..+-.+.+.+
T Consensus       377 etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~  454 (1018)
T KOG2002|consen  377 ETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALDILESKGKQIPPEV  454 (1018)
T ss_pred             HHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHHHHcCCCCCHHH
Confidence            66777777777775    4466666666665542 3355566555555544 44444466666554    3555678889


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCCC-------CH------HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH-H
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKMK-------EV------FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI-T  399 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~~-------~~------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t  399 (654)
                      .|.+...+...|.+++|...|......       |.      .+--.+...+-..++.+.|.+.|..+.+.  .|..+ .
T Consensus       455 LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~  532 (1018)
T KOG2002|consen  455 LNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDA  532 (1018)
T ss_pred             HHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHH
Confidence            999999999999999999999876542       22      12333555666778999999999999986  45554 4


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHH
Q 006246          400 FACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM----PMEPNAAVWEALLGAC  475 (654)
Q Consensus       400 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~ll~~~  475 (654)
                      |.-++...-..+...+|...+.....  ....++..++.+.+.+.+...+.-|.+-|+..    ...+|+.+.-+|++.|
T Consensus       533 ylRl~~ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~  610 (1018)
T KOG2002|consen  533 YLRLGCMARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVY  610 (1018)
T ss_pred             HHHhhHHHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHH
Confidence            54444333345788899999999887  55666777888888998888888888844443    3457888888888876


Q ss_pred             HH------------hCChHHHHHHHHHHHhcCCCCC--------------CchHHHHHHHHHHhcCC
Q 006246          476 RK------------HGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKERGI  516 (654)
Q Consensus       476 ~~------------~g~~~~a~~~~~~~~~~~p~~~--------------~~~~a~~~~~~m~~~g~  516 (654)
                      ..            .+..++|+++|.+++..+|.|.              +|.+|..+|...++...
T Consensus       611 ~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  611 IQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             HHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh
Confidence            53            3467899999999999999986              99999999999998765

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.64  E-value=3.8e-12  Score=122.54  Aligned_cols=408  Identities=12%  Similarity=0.102  Sum_probs=283.7

Q ss_pred             hHHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCCh-------------------------H
Q 006246           30 SQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNF-------------------------E   84 (654)
Q Consensus        30 t~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~-------------------------~   84 (654)
                      |=+.|+   ...+.|.+..+--++..|...|.+.++.+--.|+..-+-....++                         +
T Consensus       118 ~E~nL~---kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  118 TENNLL---KMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             chhHHH---HHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            344554   345678899999999999999988777776665543221001111                         2


Q ss_pred             HHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCC
Q 006246           85 LALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGL  164 (654)
Q Consensus        85 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~  164 (654)
                      -|.-+|+ ...++..+|..||.++++-...+.|.+++++-.....+.+..+||.+|.+.+-.    .++++..+|+...+
T Consensus       195 vAdL~~E-~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm  269 (625)
T KOG4422|consen  195 VADLLFE-TLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKM  269 (625)
T ss_pred             HHHHHHh-hcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhc
Confidence            2333333 334566789999999999999999999999999887889999999999886543    34899999999999


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHhc--------CCCCChhhHHHHHHHHHHcCCHHH-HHHHHHhcCC--------
Q 006246          165 CGDVHVKSSGIQMYACFGCVNKARQILDD--------GSKSDVICWNALIDGYLKCGDIEG-AKELFKSTKD--------  227 (654)
Q Consensus       165 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~--------~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~--------  227 (654)
                      .||..++|+++.+..+.|+++.|++.+-+        +.+|...+|.-+|..+.+.++..+ |..++.++..        
T Consensus       270 ~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fk  349 (625)
T KOG4422|consen  270 TPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFK  349 (625)
T ss_pred             CCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCccc
Confidence            99999999999999999999988765543        388999999999999999888754 4455554432        


Q ss_pred             ----CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC-----------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006246          228 ----KNTGSYNAMISGFARFGRFEEARKLFNEMNDK-----------DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKI  292 (654)
Q Consensus       228 ----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  292 (654)
                          .|..-|..-+..|....+.+-|.++-.-....           ...-|..+....++....+.-+..|+.|.-.-+
T Consensus       350 p~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y  429 (625)
T KOG4422|consen  350 PITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAY  429 (625)
T ss_pred             CCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccee
Confidence                24455677778888999999888876655432           233567778888999999999999999998888


Q ss_pred             CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 006246          293 KPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGL  372 (654)
Q Consensus       293 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~  372 (654)
                      -|+..+...++.+....+.++...+++..++..|...+.....-++..+++..            ..++...-..+-...
T Consensus       430 ~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k------------~hp~tp~r~Ql~~~~  497 (625)
T KOG4422|consen  430 FPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK------------LHPLTPEREQLQVAF  497 (625)
T ss_pred             cCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC------------CCCCChHHHHHHHHH
Confidence            89999999999999999999999999999988774433333322222222221            011111111111111


Q ss_pred             HHc-CChhHH-HHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHH---HHHHHHcC
Q 006246          373 AMH-GRADDA-IELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCI---VDLLGRAG  447 (654)
Q Consensus       373 ~~~-g~~~~A-~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~l---i~~~~~~g  447 (654)
                      ++. -++.++ ..--.+|.+....  ....+.++-.+.+.|..++|.++|..+.+.+.-.|.....++|   ++.-.+..
T Consensus       498 ak~aad~~e~~e~~~~R~r~~~~~--~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~  575 (625)
T KOG4422|consen  498 AKCAADIKEAYESQPIRQRAQDWP--ATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSN  575 (625)
T ss_pred             HHHHHHHHHHHHhhHHHHHhccCC--hhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcC
Confidence            110 011111 2223344444333  3445556666778888888888888886655555666666644   44555677


Q ss_pred             CHHHHHHHHHhC
Q 006246          448 YLAEAEEVISSM  459 (654)
Q Consensus       448 ~~~~A~~~~~~m  459 (654)
                      ....|..+++-|
T Consensus       576 spsqA~~~lQ~a  587 (625)
T KOG4422|consen  576 SPSQAIEVLQLA  587 (625)
T ss_pred             CHHHHHHHHHHH
Confidence            888888888776

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.62  E-value=8.6e-13  Score=127.55  Aligned_cols=425  Identities=14%  Similarity=0.106  Sum_probs=289.1

Q ss_pred             hHHHHHHHhcccccCCChHHHHHHHhcCCC----CCcchH-HHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHH
Q 006246           66 YVSGTLVKCHANSRFSNFELALKVFNSVHK----PNVFVW-NSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVF  140 (654)
Q Consensus        66 ~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~----~~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  140 (654)
                      .+...|..-|..  .....+|+..|+-+.+    ||.-.. -.+...+.+...+.+|+++|+-.+..-...+..+-..++
T Consensus       202 svl~nlaqqy~~--ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil  279 (840)
T KOG2003|consen  202 SVLFNLAQQYEA--NDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKIL  279 (840)
T ss_pred             HHHHHHHHHhhh--hHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHH
Confidence            344556666766  6778889988887664    332111 113345677788999999998776542112222332333


Q ss_pred             H----HHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCC----------------CCChh
Q 006246          141 K----ACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGS----------------KSDVI  200 (654)
Q Consensus       141 ~----~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----------------~~~~~  200 (654)
                      +    .+.+.|.++.|..-|++..+.  .|+..+...|+-++..-|+.++.++.|.++.                .|+..
T Consensus       280 ~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~  357 (840)
T KOG2003|consen  280 NNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDN  357 (840)
T ss_pred             hhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchH
Confidence            3    367889999999999998875  5888887788888889999999999998751                12222


Q ss_pred             hHHHHH-----HHHHHcC--CHHHHHHHHHhcCC----CCcch-------------H--------HHHHHHHHhcCCHHH
Q 006246          201 CWNALI-----DGYLKCG--DIEGAKELFKSTKD----KNTGS-------------Y--------NAMISGFARFGRFEE  248 (654)
Q Consensus       201 ~~~~li-----~~~~~~g--~~~~A~~~~~~m~~----~~~~~-------------~--------~~li~~~~~~g~~~~  248 (654)
                      ..|.-|     .-.-+..  +.++++-.--.+..    |+-..             +        -.-..-|.+.|+++.
T Consensus       358 ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~  437 (840)
T KOG2003|consen  358 LLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEG  437 (840)
T ss_pred             HHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHH
Confidence            222222     2222221  22222222222222    22110             1        111234688999999


Q ss_pred             HHHHHHhcCCCCHhHH----HHHHHH-HHh-cCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHH
Q 006246          249 ARKLFNEMNDKDEITW----SAIIDG-YTK-DGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV  322 (654)
Q Consensus       249 A~~~~~~~~~~~~~~~----~~li~~-~~~-~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  322 (654)
                      |.+++.-..++|..+-    |.|-.. |.+ -.++..|-++-+..+... +-+....+.-.+.....|++++|.+.|.++
T Consensus       438 aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykea  516 (840)
T KOG2003|consen  438 AIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEA  516 (840)
T ss_pred             HHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHH
Confidence            9999888877654332    222222 223 335667776666655432 222222222223344678999999999999


Q ss_pred             HHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHH
Q 006246          323 KRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT  399 (654)
Q Consensus       323 ~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t  399 (654)
                      +...-......|| +.-.+-+.|++++|++.|-++..   .++...-.+...|-...+..+|++++-+.... ++.|...
T Consensus       517 l~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~i  594 (840)
T KOG2003|consen  517 LNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAI  594 (840)
T ss_pred             HcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHH
Confidence            8765444444444 34457789999999999987754   57777778888999999999999999777654 4557778


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHH-HH
Q 006246          400 FACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALLGAC-RK  477 (654)
Q Consensus       400 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~-~~  477 (654)
                      ...|...|-+.|+-.+|.+.+-.--.  -++-+.++..-|..-|....-+++|+..|++. -++|+.+-|..++..| ++
T Consensus       595 lskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  595 LSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHh
Confidence            88899999999999999988765543  34556788888888889999999999999998 4789999999998877 57


Q ss_pred             hCChHHHHHHHHHHHhcCCCCC
Q 006246          478 HGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .|++.+|..+|+..-...|++.
T Consensus       673 sgnyqka~d~yk~~hrkfpedl  694 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDIHRKFPEDL  694 (840)
T ss_pred             cccHHHHHHHHHHHHHhCccch
Confidence            8999999999999999999986

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.58  E-value=1.3e-10  Score=117.80  Aligned_cols=417  Identities=11%  Similarity=0.063  Sum_probs=329.2

Q ss_pred             HhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCchHHHHHHHH----hHhCCCCCCcccHHHHHHHHhc
Q 006246           73 KCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEPWRVISLYSE----MVGVDSKPNKFTYPTVFKACSI  145 (654)
Q Consensus        73 ~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~----m~~~g~~p~~~t~~~ll~~~~~  145 (654)
                      -+|++  ...++.|.+++++..   ..+...|-+-...=-.+|+.+...++..+    +...|+..+...|..=..+|-.
T Consensus       414 lAlar--LetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~  491 (913)
T KOG0495|consen  414 LALAR--LETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACED  491 (913)
T ss_pred             HHHHH--HHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhh
Confidence            34445  566777777776654   34666676655555677887777777654    3446777788788777777888


Q ss_pred             cCCcHHHHHHHHHHHHhCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHH
Q 006246          146 TEADKEGVQVHAHVVKNGLCG--DVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKE  220 (654)
Q Consensus       146 ~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~  220 (654)
                      .|..-.+..+....+..|++.  ...+|+.-.+.+.+.+.++-|+.+|...   .+.+...|...+..--..|..+.-..
T Consensus       492 agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~A  571 (913)
T KOG0495|consen  492 AGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEA  571 (913)
T ss_pred             cCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHH
Confidence            888888888888888877653  3457888888888999999999888764   45567778887777777888898888


Q ss_pred             HHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 006246          221 LFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMNDK---DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP  294 (654)
Q Consensus       221 ~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  294 (654)
                      +|++...   .....|......+-..|++..|..++...-+.   +...|-+-+..-..+..++.|..+|.+....  .|
T Consensus       572 llqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sg  649 (913)
T KOG0495|consen  572 LLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SG  649 (913)
T ss_pred             HHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CC
Confidence            8888875   34556777777888889999999998887642   5667888899999999999999999988764  57


Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C-CHHHHHHHHHH
Q 006246          295 RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K-EVFTWNAMIGG  371 (654)
Q Consensus       295 ~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~  371 (654)
                      +...|.--+..---+++.++|++++++.++. ++.-...|-.+...+-..++++.|.+.|..-.+  | .+..|-.|...
T Consensus       650 TeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakl  728 (913)
T KOG0495|consen  650 TERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKL  728 (913)
T ss_pred             cchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHH
Confidence            7777777677777788999999999888876 344567788888899999999999999987665  3 45678888888


Q ss_pred             HHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHH
Q 006246          372 LAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAE  451 (654)
Q Consensus       372 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  451 (654)
                      =-+.|+.-.|..+|++..-.+.+ |...|...+..-.+.|+.++|..+..+..+  .++.+...|..-|.+..+-++-..
T Consensus       729 eEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkTk  805 (913)
T KOG0495|consen  729 EEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKTK  805 (913)
T ss_pred             HHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccchH
Confidence            88889999999999999877533 777899999999999999999999999887  456667788888888888888777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          452 AEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       452 A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +.+.+++..  .|+.+.-++...+.....++.|...|+++++++|++.
T Consensus       806 s~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~G  851 (913)
T KOG0495|consen  806 SIDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNG  851 (913)
T ss_pred             HHHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccc
Confidence            777777654  4666777778888888889999999999999999887

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.58  E-value=3.7e-11  Score=115.83  Aligned_cols=311  Identities=15%  Similarity=0.167  Sum_probs=182.0

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHH--HhccCCcHHHH-HHHHHHHHhCCCCChhhHHHH
Q 006246           98 VFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKA--CSITEADKEGV-QVHAHVVKNGLCGDVHVKSSG  174 (654)
Q Consensus        98 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~--~~~~~~~~~a~-~~~~~~~~~g~~~~~~~~~~l  174 (654)
                      +++=|.|+.. ..+|....+.-+|+.|.+.|+..+...-..|++.  |-...++.-++ +.|-.|.+.|- .+..+|   
T Consensus       116 V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E-~S~~sW---  190 (625)
T KOG4422|consen  116 VETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGE-DSTSSW---  190 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccc-cccccc---
Confidence            4566777654 4567888899999999998877776655555544  22333333222 22333433332 111222   


Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC----CcchHHHHHHHHHhcCCHHHHH
Q 006246          175 IQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDK----NTGSYNAMISGFARFGRFEEAR  250 (654)
Q Consensus       175 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~~~~li~~~~~~g~~~~A~  250 (654)
                           +.|++.+   ++-+..++...++..||.++++--..+.|.++|++....    +..+||.+|.+-+-..+    .
T Consensus       191 -----K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K  258 (625)
T KOG4422|consen  191 -----KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----K  258 (625)
T ss_pred             -----ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----H
Confidence                 2333322   444555666677777777777777777777777766542    45566666655433333    3


Q ss_pred             HHHHhcC----CCCHhHHHHHHHHHHhcCChHH----HHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhH-HHHHHHH
Q 006246          251 KLFNEMN----DKDEITWSAIIDGYTKDGYYKE----ALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQ-GIWIHDH  321 (654)
Q Consensus       251 ~~~~~~~----~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~-a~~~~~~  321 (654)
                      ++..+|.    .||..++|+++++..+.|+++.    |++++.+|++-|+.|...+|..++..+++.++..+ +..+...
T Consensus       259 ~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~d  338 (625)
T KOG4422|consen  259 KLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIND  338 (625)
T ss_pred             HHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHH
Confidence            3333333    4677777777777777776653    45566677777777777777777777666665533 2333333


Q ss_pred             HHH----cCCC----CchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----------CHHHHHHHHHHHHHcCChhHHH
Q 006246          322 VKR----NSIC----VDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----------EVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       322 ~~~----~~~~----~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----------~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      +..    ..+.    .|...+..-++.+....+.+-|.++-.-....           ..+-|..+....++....+.-+
T Consensus       339 I~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~  418 (625)
T KOG4422|consen  339 IQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTL  418 (625)
T ss_pred             HHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            322    1222    23445555566666666666666665443321           1123445556666666677777


Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          383 ELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       383 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .+|+.|.-.-+-|+..+...++.+..-.|.++-..+++..++.
T Consensus       419 ~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~  461 (625)
T KOG4422|consen  419 KWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKE  461 (625)
T ss_pred             HHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHH
Confidence            7777776666667777777777777767766666666666555

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.57  E-value=1.6e-10  Score=117.22  Aligned_cols=453  Identities=15%  Similarity=0.137  Sum_probs=361.2

Q ss_pred             hhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC--------CCCcchHHHHHHHHHh
Q 006246           39 NTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH--------KPNVFVWNSVLRACLE  110 (654)
Q Consensus        39 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~--------~~~~~~~~~li~~~~~  110 (654)
                      +++++..++.|+.++....+. ++.++.+|.+-...=-.  .|+.+...++.++..        .-|...|-.=...+-.
T Consensus       415 AlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~--ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~  491 (913)
T KOG0495|consen  415 ALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEA--NGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACED  491 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhh
Confidence            566667788888888776654 45577777665555555  899998888887653        2355567777777888


Q ss_pred             CCCchHHHHHHHHhHhCCCCCC--cccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHH
Q 006246          111 HNEPWRVISLYSEMVGVDSKPN--KFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKAR  188 (654)
Q Consensus       111 ~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  188 (654)
                      .|..--+..+......-|+.-.  ..||..-...|.+.+.++-++.+|...++. ++.+..+|...+.+--..|..+.-.
T Consensus       492 agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~  570 (913)
T KOG0495|consen  492 AGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLE  570 (913)
T ss_pred             cCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHH
Confidence            8888888888888877776542  348888888999999999999999999986 3567778888888777889999999


Q ss_pred             HHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC--CC
Q 006246          189 QILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND--KD  260 (654)
Q Consensus       189 ~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~  260 (654)
                      .+|++.   .+...+.|-.....+-..|+...|..++.+..+   .+...|-+-+..-....+++.|..+|.+...  +.
T Consensus       571 Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~sgT  650 (913)
T KOG0495|consen  571 ALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSISGT  650 (913)
T ss_pred             HHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCc
Confidence            999886   456777888888889999999999999998876   3456788889999999999999999998775  45


Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRK-FVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      ...|.--+..---.++.++|++++++.++.  -|+- ..|..+.+.+.+.++++.|.+.|..=.+. ++..+-.|-.|..
T Consensus       651 eRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLak  727 (913)
T KOG0495|consen  651 ERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAK  727 (913)
T ss_pred             chhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHH
Confidence            667777777777789999999999998875  4554 35666677788889999998888765543 3445678888888


Q ss_pred             HHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRG  416 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  416 (654)
                      .=-+.|.+-.|+.+|++..-+   |...|-..|..-.+.|+.+.|..+..+.++. ++.+...|.--|....+.++-...
T Consensus       728 leEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks  806 (913)
T KOG0495|consen  728 LEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKS  806 (913)
T ss_pred             HHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHH
Confidence            889999999999999987753   7789999999999999999999999998886 455667777777777777765554


Q ss_pred             HHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          417 LQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       417 ~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      ...+.+      ..-|....-.+..++....+++.|.+.|++. +..| +..+|..+...+.+||.-+.-.+++.+....
T Consensus       807 ~DALkk------ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  807 IDALKK------CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             HHHHHh------ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            444433      4556777778888999999999999999987 4555 4789999999999999999999999999999


Q ss_pred             CCCCC-CchHHH
Q 006246          495 EPQNR-RCDDVA  505 (654)
Q Consensus       495 ~p~~~-~~~~a~  505 (654)
                      +|.+. .|..+.
T Consensus       881 EP~hG~~W~avS  892 (913)
T KOG0495|consen  881 EPTHGELWQAVS  892 (913)
T ss_pred             CCCCCcHHHHHh
Confidence            99886 554443

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.56  E-value=3.9e-12  Score=123.12  Aligned_cols=453  Identities=12%  Similarity=0.118  Sum_probs=306.3

Q ss_pred             chHHHHHhhh-hhcCCCChHHHHHHHHHHHHhCCCCchh-HHHHHHHhcccccCCChHHHHHHHhcC----CCCC----c
Q 006246           29 FSQKTILDIL-NTKCHTSWQHLKQAHAVILKSGHFQDHY-VSGTLVKCHANSRFSNFELALKVFNSV----HKPN----V   98 (654)
Q Consensus        29 ~t~~~ll~~~-~~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~Li~~y~~~~~g~~~~A~~~f~~~----~~~~----~   98 (654)
                      .||+.|.++. .+.......+|..-+.-+.+...-|+.- .--.+-+.|.+  ..++..|++.|+-.    |.-+    +
T Consensus       199 ltfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~k--kr~fskaikfyrmaldqvpsink~~ri  276 (840)
T KOG2003|consen  199 LTFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFK--KREFSKAIKFYRMALDQVPSINKDMRI  276 (840)
T ss_pred             chHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeee--hhhHHHHHHHHHHHHhhccccchhhHH
Confidence            4677776522 2333445677888888888776666543 23344567778  88999999988543    3222    2


Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCC-----------
Q 006246           99 FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGD-----------  167 (654)
Q Consensus        99 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-----------  167 (654)
                      ...|.+.-.+.+.|.++.|+..|+...+.  .|+..+-..|+-++...|+.++.++.|..|+.....+|           
T Consensus       277 kil~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp  354 (840)
T KOG2003|consen  277 KILNNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDP  354 (840)
T ss_pred             HHHhhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCc
Confidence            23444445678999999999999998875  57876655555556677999999999999987533322           


Q ss_pred             -hhhHHHH-----HHHHHhcC--CHHHHHH----HHhcCCCCChh---hHH----------H--------HHHHHHHcCC
Q 006246          168 -VHVKSSG-----IQMYACFG--CVNKARQ----ILDDGSKSDVI---CWN----------A--------LIDGYLKCGD  214 (654)
Q Consensus       168 -~~~~~~l-----i~~y~~~g--~~~~A~~----~~~~~~~~~~~---~~~----------~--------li~~~~~~g~  214 (654)
                       ....+.-     +.-.-+.+  +.++++-    +..-...||-.   -|-          .        -..-|.++|+
T Consensus       355 ~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d  434 (840)
T KOG2003|consen  355 DDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGD  434 (840)
T ss_pred             chHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccC
Confidence             2222221     11121211  1222221    11112222211   011          0        1124789999


Q ss_pred             HHHHHHHHHhcCCCCcchHHHHHHH----HHh--cCCHHHHHHHHHhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHH
Q 006246          215 IEGAKELFKSTKDKNTGSYNAMISG----FAR--FGRFEEARKLFNEMNDK---DEITWSAIIDGYTKDGYYKEALEVFN  285 (654)
Q Consensus       215 ~~~A~~~~~~m~~~~~~~~~~li~~----~~~--~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~  285 (654)
                      ++.|+++++-..+.|..+-.+-.+-    +.-  -.++.+|...-+.....   |....+.-...-..+|++++|.+.|+
T Consensus       435 ~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~yk  514 (840)
T KOG2003|consen  435 IEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYK  514 (840)
T ss_pred             HHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHH
Confidence            9999999999988776654433322    222  34577777766655543   23222222333456899999999999


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCH
Q 006246          286 EMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEV  362 (654)
Q Consensus       286 ~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~  362 (654)
                      +.+...-.-....|+ +.-.+..+|++++|++.|-.+...- ..++.+.-.+.+.|....+...|.+++-+...   .|+
T Consensus       515 eal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~~~q~~slip~dp  592 (840)
T KOG2003|consen  515 EALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIELLMQANSLIPNDP  592 (840)
T ss_pred             HHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcccCCCCH
Confidence            998654222222222 2234577899999999887765431 23567777888999999999999999987765   488


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDL  442 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~  442 (654)
                      ....-|...|-+.|+-.+|.+.+-+--.- ++-|..|...|..-|....-+++++++|++..   -+.|+..-|..||..
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa---liqp~~~kwqlmias  668 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA---LIQPNQSKWQLMIAS  668 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH---hcCccHHHHHHHHHH
Confidence            89999999999999999999887665443 45677888888888899999999999999885   479999999998865


Q ss_pred             H-HHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHH
Q 006246          443 L-GRAGYLAEAEEVISSM--PMEPNAAVWEALLGACRKHGEVEFGERLGKILL  492 (654)
Q Consensus       443 ~-~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  492 (654)
                      | .|.|++.+|.++++..  +++-|......|+..|...|. ..+.++.+++-
T Consensus       669 c~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl-~d~key~~kle  720 (840)
T KOG2003|consen  669 CFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL-KDAKEYADKLE  720 (840)
T ss_pred             HHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc-hhHHHHHHHHH
Confidence            4 5789999999999987  566688889999999888884 45666666553

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.49  E-value=1.8e-09  Score=105.69  Aligned_cols=297  Identities=12%  Similarity=0.118  Sum_probs=216.2

Q ss_pred             HHHHHcCCHHHHHHHHHhcCC---CCc-chHHHHHHHHHhcCCHHHHHHHHHhcCCC------CHhHHHHHHHHHHhcCC
Q 006246          207 DGYLKCGDIEGAKELFKSTKD---KNT-GSYNAMISGFARFGRFEEARKLFNEMNDK------DEITWSAIIDGYTKDGY  276 (654)
Q Consensus       207 ~~~~~~g~~~~A~~~~~~m~~---~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~  276 (654)
                      .+|....+.++++.-......   |+. ..-+....+.-...++++|+.+|+++.+.      |..+|+.++  |+++.+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~~~  312 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHhhh
Confidence            344455556666555544433   222 22233334455678899999999998764      556777665  344332


Q ss_pred             hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhh
Q 006246          277 YKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFED  356 (654)
Q Consensus       277 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  356 (654)
                      ..  +.++-+-.-.=-+-.+.|...+.+.|+-.+..++|...|+.+++.+ +....+|+.+.+-|....+...|.+.++.
T Consensus       313 sk--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  313 SK--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             HH--HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence            22  2222221111113334677888888899999999999999999987 44677889999999999999999999998


Q ss_pred             cCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCc
Q 006246          357 MKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEV  433 (654)
Q Consensus       357 m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~  433 (654)
                      ..+   +|-..|-.|..+|.-.+...=|+-.|++..+.. +-|...|..|..+|.+.++.++|+..|.....- | ..+.
T Consensus       390 Avdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~-~-dte~  466 (559)
T KOG1155|consen  390 AVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILL-G-DTEG  466 (559)
T ss_pred             HHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhc-c-ccch
Confidence            775   477899999999999999999999999998852 336779999999999999999999999999872 3 3355


Q ss_pred             chHHHHHHHHHHcCCHHHHHHHHHhC-------C-CCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHH
Q 006246          434 EHYGCIVDLLGRAGYLAEAEEVISSM-------P-MEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDV  504 (654)
Q Consensus       434 ~~~~~li~~~~~~g~~~~A~~~~~~m-------~-~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a  504 (654)
                      ..|..|.++|-+.++.++|...|++-       + ..|. ..+.--|..-+.+.+++++|...+.+.+.-++   ..++|
T Consensus       467 ~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~~~---e~eea  543 (559)
T KOG1155|consen  467 SALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKGET---ECEEA  543 (559)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcCCc---hHHHH
Confidence            78899999999999999999988764       1 2232 22223366677899999999999888887644   45788


Q ss_pred             HHHHHHHHhc
Q 006246          505 AKMRKLMKER  514 (654)
Q Consensus       505 ~~~~~~m~~~  514 (654)
                      ..++..+++.
T Consensus       544 k~LlReir~~  553 (559)
T KOG1155|consen  544 KALLREIRKI  553 (559)
T ss_pred             HHHHHHHHHh
Confidence            8887777654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.47  E-value=3.4e-11  Score=124.98  Aligned_cols=220  Identities=13%  Similarity=0.015  Sum_probs=144.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCch-------hHHHHHHHHH
Q 006246          269 DGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDA-------VLGTALVDMY  341 (654)
Q Consensus       269 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~y  341 (654)
                      ..+...|++++|.+.++++.+.. +-+...+..+...+.+.|+++.+.+++..+.+.+..++.       .++..++...
T Consensus       161 ~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~  239 (398)
T PRK10747        161 RIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQA  239 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            34444455555555555444432 112333444444444555555555555555444322111       1223334444


Q ss_pred             HHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 006246          342 AKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQ  418 (654)
Q Consensus       342 ~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  418 (654)
                      .+..+.+...++++.++.   .++.....+...+...|+.++|.+++++..+.  .||....  ++.+....++.+++.+
T Consensus       240 ~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~  315 (398)
T PRK10747        240 MADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEK  315 (398)
T ss_pred             HHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHH
Confidence            444556667777777654   36777888888899999999999999888874  4454221  3334445688899999


Q ss_pred             HHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          419 ALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       419 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      ..+...+.  .+-|...+.++..++.+.|++++|.+.|+.. ...|+...+..+...+...|+.++|.+++++.+.+-
T Consensus       316 ~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        316 VLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            99888874  3344556788889999999999999999887 567898888899999999999999999999988753

>TIGR00540 hemY_coli hemY protein

Probab=99.47  E-value=1.2e-10  Score=121.53  Aligned_cols=281  Identities=15%  Similarity=0.081  Sum_probs=184.9

Q ss_pred             HHcCCHHHHHHHHHhcCC--CCc-chHHHHHHHHHhcCCHHHHHHHHHhcCC--CCH--hHHHHHHHHHHhcCChHHHHH
Q 006246          210 LKCGDIEGAKELFKSTKD--KNT-GSYNAMISGFARFGRFEEARKLFNEMND--KDE--ITWSAIIDGYTKDGYYKEALE  282 (654)
Q Consensus       210 ~~~g~~~~A~~~~~~m~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~--~~~~~li~~~~~~g~~~~A~~  282 (654)
                      ...|+++.|.+.+.+..+  |+. ..+-....++.+.|+.+.|.+.+.+..+  |+.  ...-.....+.+.|+++.|.+
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            455666666666655544  222 2233334555666777777777766532  222  223334666677777777777


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHH-------HHHHHHHHcCCHHHHHHHHh
Q 006246          283 VFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGT-------ALVDMYAKCGRLDMAWKVFE  355 (654)
Q Consensus       283 ~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-------~li~~y~~~g~~~~A~~~~~  355 (654)
                      .++.+.+.. +-+...+..+...+...|+++.+.+.+..+.+.+..+......       .++..-......+...+.++
T Consensus       175 ~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~  253 (409)
T TIGR00540       175 GVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWK  253 (409)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            777777664 2244456666777777777777777777777765433222211       11111122223445555666


Q ss_pred             hcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHH--H-HHHHHHHHccCCHHHHHHHHHHHHHHcCC
Q 006246          356 DMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT--F-ACVLSACAHAGMIDRGLQALTYMQQMYGI  429 (654)
Q Consensus       356 ~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t--~-~~ll~~~~~~g~~~~a~~~~~~~~~~~g~  429 (654)
                      ..+.   .+...+..+...+...|+.++|.+++++..+.  .||...  + ..........++.+.+.+.++...+...-
T Consensus       254 ~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~  331 (409)
T TIGR00540       254 NQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDD  331 (409)
T ss_pred             HCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCC
Confidence            6654   37888889999999999999999999999886  344432  1 11222233457888899999888875333


Q ss_pred             CCCcchHHHHHHHHHHcCCHHHHHHHHHh--C-CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          430 DPEVEHYGCIVDLLGRAGYLAEAEEVISS--M-PMEPNAAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       430 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~--m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      .|+.....++...+.+.|++++|.+.|+.  . ...|+...+..+...+.+.|+.++|.+++++.+.
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33224566889999999999999999994  3 5679999899999999999999999999998866

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.47  E-value=5.5e-09  Score=110.43  Aligned_cols=447  Identities=14%  Similarity=0.085  Sum_probs=302.4

Q ss_pred             CCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCchHHHH
Q 006246           43 HTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEPWRVIS  119 (654)
Q Consensus        43 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~  119 (654)
                      .|+++.|..++..+++..+ .++..|-.|...|-.  .|+.+++...+-...   +.|..-|-.+.....+.|++.+|.-
T Consensus       152 rg~~eeA~~i~~EvIkqdp-~~~~ay~tL~~IyEq--rGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDP-RNPIAYYTLGEIYEQ--RGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCc-cchhhHHHHHHHHHH--cccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHH
Confidence            4999999999999999863 467789999999999  999999998775433   4566789999998999999999999


Q ss_pred             HHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHH----HHHHHHHhcCCHHHHHHHHhcCC
Q 006246          120 LYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKS----SGIQMYACFGCVNKARQILDDGS  195 (654)
Q Consensus       120 ~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~----~li~~y~~~g~~~~A~~~~~~~~  195 (654)
                      .|.+..+.. +++...+---...|-+.|+...|..-+.++.+...+.|..-..    ..+..|...++-+.|.+.++...
T Consensus       229 cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  229 CYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            999999863 3343333334455788999999999999999875433332222    34555677787788988888753


Q ss_pred             C-----CChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----C----------------------CcchHH----HHHHHH
Q 006246          196 K-----SDVICWNALIDGYLKCGDIEGAKELFKSTKD----K----------------------NTGSYN----AMISGF  240 (654)
Q Consensus       196 ~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~----------------------~~~~~~----~li~~~  240 (654)
                      .     .+...++.++..|.+...++.|......+..    +                      +..+|.    -+.-++
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL  387 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICL  387 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhh
Confidence            3     3566788999999999999999888776653    1                      111111    112223


Q ss_pred             Hh--cCCHHHHHHHHHhcCC----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhH
Q 006246          241 AR--FGRFEEARKLFNEMND----KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQ  314 (654)
Q Consensus       241 ~~--~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  314 (654)
                      ..  .+...+++.-|-....    .++..|.-+..+|.+.|++.+|+.+|..+......-+...|..+..++-..|..++
T Consensus       388 ~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~  467 (895)
T KOG2076|consen  388 VHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEE  467 (895)
T ss_pred             hcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHH
Confidence            33  3444444444433322    24557888999999999999999999999887555567788888999999999999


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH------------HHHHHHHHHHHHcCChhHHH
Q 006246          315 GIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV------------FTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       315 a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~------------~~~~~li~~~~~~g~~~~A~  382 (654)
                      |.+.|..++... +.+..+--.|...|.+.|+.++|.++++.+..+|.            ...-.....+.+.|+.++=+
T Consensus       468 A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi  546 (895)
T KOG2076|consen  468 AIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFI  546 (895)
T ss_pred             HHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHH
Confidence            999999998865 34556666788899999999999999999876551            11222345566777776655


Q ss_pred             HHHHHHhhcC----------------------CCCCHHHHHHHHHHHHccCCHHHHHHHHH-----HHHHHcCCCCCc--
Q 006246          383 ELFFKMQREK----------------------MRPDRITFACVLSACAHAGMIDRGLQALT-----YMQQMYGIDPEV--  433 (654)
Q Consensus       383 ~l~~~m~~~g----------------------~~p~~~t~~~ll~~~~~~g~~~~a~~~~~-----~~~~~~g~~p~~--  433 (654)
                      ..-..|+...                      .+-...+...++.+-.+.++.....+...     ......++.-+.  
T Consensus       547 ~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwf  626 (895)
T KOG2076|consen  547 NTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWF  626 (895)
T ss_pred             HHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHH
Confidence            5544444321                      11112222333333333333211111110     111112444332  


Q ss_pred             chHHHHHHHHHHcCCHHHHHHHHHhCC-----CCCCH---HHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          434 EHYGCIVDLLGRAGYLAEAEEVISSMP-----MEPNA---AVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       434 ~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~p~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      ..+.-++..+.+.|++++|+.++..+-     ..++.   ..=...+.++...+++..|....+-++..
T Consensus       627 el~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~  695 (895)
T KOG2076|consen  627 ELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQ  695 (895)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            345667778888999999998887761     22222   12244556677888888888888888775

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.47  E-value=1.1e-10  Score=121.02  Aligned_cols=275  Identities=10%  Similarity=0.093  Sum_probs=210.4

Q ss_pred             hcCCHHHHHHHHhcCCCC--C-hhhHHHHHHHHHHcCCHHHHHHHHHhcCCC--CcchHH--HHHHHHHhcCCHHHHHHH
Q 006246          180 CFGCVNKARQILDDGSKS--D-VICWNALIDGYLKCGDIEGAKELFKSTKDK--NTGSYN--AMISGFARFGRFEEARKL  252 (654)
Q Consensus       180 ~~g~~~~A~~~~~~~~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~~~~--~li~~~~~~g~~~~A~~~  252 (654)
                      ..|+++.|++.+......  + ...|-.......+.|+++.|...|.++.+.  +.....  .....+...|+++.|...
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            379999999999886443  2 333333344558999999999999999873  333232  336788999999999999


Q ss_pred             HHhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCc-------chHHHHHHHHHhcCChhHHHHHHHHH
Q 006246          253 FNEMNDK---DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRK-------FVLSCVLAACASLGALDQGIWIHDHV  322 (654)
Q Consensus       253 ~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~ll~~~~~~g~~~~a~~~~~~~  322 (654)
                      ++++.+.   +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...++++.+
T Consensus       176 l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~l  255 (398)
T PRK10747        176 VDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQ  255 (398)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhC
Confidence            9998753   6778889999999999999999999999998755332       12333343334444556666666665


Q ss_pred             HHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHH
Q 006246          323 KRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFAC  402 (654)
Q Consensus       323 ~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~  402 (654)
                      .+. .+.++.....+...+...|+.++|.+++++..+.....--.++.+....++.+++++..++..+.. +-|...+..
T Consensus       256 p~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~  333 (398)
T PRK10747        256 SRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLVLLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWST  333 (398)
T ss_pred             CHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHH
Confidence            433 345778888999999999999999999988876433222234455556699999999999998863 234556788


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          403 VLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       403 ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      +...|.+.+++++|.+.|+...+   ..|+...|..|..++.+.|+.++|.+.+++.
T Consensus       334 lgrl~~~~~~~~~A~~~le~al~---~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~  387 (398)
T PRK10747        334 LGQLLMKHGEWQEASLAFRAALK---QRPDAYDYAWLADALDRLHKPEEAAAMRRDG  387 (398)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88999999999999999999986   4799999999999999999999999999865

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.46  E-value=1.2e-09  Score=107.00  Aligned_cols=407  Identities=13%  Similarity=0.079  Sum_probs=204.3

Q ss_pred             CCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHH
Q 006246           80 FSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVH  156 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  156 (654)
                      ++++..|+.+|++..   .+++..|-..+..=.++..+..|..++++....=...|..-| -.+-.=-..|++..|+++|
T Consensus        86 q~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWy-KY~ymEE~LgNi~gaRqif  164 (677)
T KOG1915|consen   86 QKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWY-KYIYMEEMLGNIAGARQIF  164 (677)
T ss_pred             HHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHH-HHHHHHHHhcccHHHHHHH
Confidence            566677777777665   355556666666666666777777777766653212222222 1222223456677777777


Q ss_pred             HHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhc--CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CC---
Q 006246          157 AHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDD--GSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD--KN---  229 (654)
Q Consensus       157 ~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~---  229 (654)
                      +.-..  ..|+...|++.|++-.+...++.|+.++++  +..|++.+|--...-=.++|+...|..+|....+  .|   
T Consensus       165 erW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~  242 (677)
T KOG1915|consen  165 ERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEE  242 (677)
T ss_pred             HHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHH
Confidence            76654  457777777777777777777777777776  3566777776666666667777777776666554  12   


Q ss_pred             -cchHHHHHHHHHhcCCHHHHHHHHHhcCC----C-CHhHHHHHHHHHHhcCChHHHHHH--------HHHHHhCCCCCC
Q 006246          230 -TGSYNAMISGFARFGRFEEARKLFNEMND----K-DEITWSAIIDGYTKDGYYKEALEV--------FNEMQRDKIKPR  295 (654)
Q Consensus       230 -~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~-~~~~~~~li~~~~~~g~~~~A~~~--------~~~m~~~g~~p~  295 (654)
                       ...+++....=.++..++.|.-+|.-..+    . ....|......=-+-|+.......        |+.+...+ +-|
T Consensus       243 ~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~n  321 (677)
T KOG1915|consen  243 AEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYN  321 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCC
Confidence             22333333333445555556555544332    1 112222222222223332221111        22222222 234


Q ss_pred             cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCch------hHHHHHHHH---HHHcCCHHHHHHHHhhcCC---CCHH
Q 006246          296 KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDA------VLGTALVDM---YAKCGRLDMAWKVFEDMKM---KEVF  363 (654)
Q Consensus       296 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~li~~---y~~~g~~~~A~~~~~~m~~---~~~~  363 (654)
                      -.++-..+..-...|+.+...++|+.++..-.+...      .+|--+=-+   =....+.+.+.++|+...+   ...+
T Consensus       322 YDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkF  401 (677)
T KOG1915|consen  322 YDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKF  401 (677)
T ss_pred             chHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccc
Confidence            444444455555555666666666655543322110      111111000   1123455555555554433   1222


Q ss_pred             HHHHHH----HHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHH
Q 006246          364 TWNAMI----GGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCI  439 (654)
Q Consensus       364 ~~~~li----~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~l  439 (654)
                      |+.-+-    .--.++.+...|.+++...+  |.-|-..+|...|..-.+.+.+|....++++..+ ++ +.+..+|...
T Consensus       402 tFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle-~~-Pe~c~~W~ky  477 (677)
T KOG1915|consen  402 TFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE-FS-PENCYAWSKY  477 (677)
T ss_pred             hHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh-cC-hHhhHHHHHH
Confidence            332222    22233455555555555544  3345555555555555556666666666665554 11 2234445555


Q ss_pred             HHHHHHcCCHHHHHHHHHhCCCCC----CHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          440 VDLLGRAGYLAEAEEVISSMPMEP----NAAVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       440 i~~~~~~g~~~~A~~~~~~m~~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      ...=...|+.+.|..+|+-.-.+|    -...|.+.++--...|.++.|..+|+++++.
T Consensus       478 aElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  478 AELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR  536 (677)
T ss_pred             HHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh
Confidence            555555566666666665542222    1344555555555556666666666666553

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.45  E-value=1.8e-09  Score=105.68  Aligned_cols=420  Identities=12%  Similarity=0.077  Sum_probs=233.0

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC--CCc-chHHHHHHHHHhCCCchHHHHH
Q 006246           44 TSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK--PNV-FVWNSVLRACLEHNEPWRVISL  120 (654)
Q Consensus        44 ~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~--~~~-~~~~~li~~~~~~g~~~~A~~~  120 (654)
                      +++..|+.+|.+++.-. ..+..+|-.-+.+=.+  +..+..|+.+|++...  |-+ ..|...+-.=-..|+...|.++
T Consensus        87 ~e~~RARSv~ERALdvd-~r~itLWlkYae~Emk--nk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   87 KEIQRARSVFERALDVD-YRNITLWLKYAEFEMK--NKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             HHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHh--hhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            44556666666666544 3455566666666666  6667777777776542  222 2355545444456677777777


Q ss_pred             HHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCC--C-
Q 006246          121 YSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSK--S-  197 (654)
Q Consensus       121 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-  197 (654)
                      |++-.+.  .|+...|.+.++.=.+-..++.|+.+++..+-.  .|++..|-..+..-.++|.+..|+.+|+....  . 
T Consensus       164 ferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~  239 (677)
T KOG1915|consen  164 FERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGD  239 (677)
T ss_pred             HHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhh
Confidence            7766653  577777777777666666777777777766643  46666666666666677777777777765421  1 


Q ss_pred             ---ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--C---CcchHHHHHHHHHhcCCH---HHHHHHH-----HhcCCC--
Q 006246          198 ---DVICWNALIDGYLKCGDIEGAKELFKSTKD--K---NTGSYNAMISGFARFGRF---EEARKLF-----NEMNDK--  259 (654)
Q Consensus       198 ---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~---~~~~~~~li~~~~~~g~~---~~A~~~~-----~~~~~~--  259 (654)
                         +...+++...-=.++..++.|.-+|+-...  |   ....|......=-+.|+.   +++.--=     +.+...  
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np  319 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNP  319 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCC
Confidence               122233333333345556666666654433  1   122333333333334443   3332211     112222  


Q ss_pred             -CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCc-------chHHHHHHHH---HhcCChhHHHHHHHHHHHcCCC
Q 006246          260 -DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRK-------FVLSCVLAAC---ASLGALDQGIWIHDHVKRNSIC  328 (654)
Q Consensus       260 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-------~t~~~ll~~~---~~~g~~~~a~~~~~~~~~~~~~  328 (654)
                       |-.+|--.+..-...|+.+...++|++.... ++|-.       ..|..+=-+|   ....+.+.+.++++..++. ++
T Consensus       320 ~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IP  397 (677)
T KOG1915|consen  320 YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IP  397 (677)
T ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cC
Confidence             4445656666666667777777777776654 34421       1121111111   2345666777777666662 33


Q ss_pred             CchhHHHHHHHHHH----HcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHH
Q 006246          329 VDAVLGTALVDMYA----KCGRLDMAWKVFEDMKM--KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFAC  402 (654)
Q Consensus       329 ~~~~~~~~li~~y~----~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~  402 (654)
                      ....++.-+--+|+    ++.++..|.+++-....  |-.-++..-|..=.+.++++....+|++.++-+ +-|..+|..
T Consensus       398 HkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~k  476 (677)
T KOG1915|consen  398 HKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSK  476 (677)
T ss_pred             cccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHH
Confidence            34444444444443    45667777777665543  444556666666666677777777777776654 225556666


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHH
Q 006246          403 VLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALLG  473 (654)
Q Consensus       403 ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~  473 (654)
                      ....-...|+.+.|..+|+.+.....+..-...|.+.|+.=...|.++.|..+++++ ...+...+|-++..
T Consensus       477 yaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWisFA~  548 (677)
T KOG1915|consen  477 YAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWISFAK  548 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHHhHHH
Confidence            666666667777777777766653222222334555556556677777777777665 22334445655443

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.45  E-value=1.5e-11  Score=125.57  Aligned_cols=277  Identities=13%  Similarity=0.082  Sum_probs=215.0

Q ss_pred             CCHHHHHHHHHhcCC--C-CcchHHHHHHHHHhcCCHHHHHHHHHhcCCC------CHhHHHHHHHHHHhcCChHHHHHH
Q 006246          213 GDIEGAKELFKSTKD--K-NTGSYNAMISGFARFGRFEEARKLFNEMNDK------DEITWSAIIDGYTKDGYYKEALEV  283 (654)
Q Consensus       213 g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~  283 (654)
                      -+..+|+..|.....  + ...+...+..+|...+++++|+++|+.+.+.      +...|.+.+--+-+    +-++..
T Consensus       333 y~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            356788888887543  2 3345677788899999999999999988753      56677776654432    223333


Q ss_pred             H-HHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH
Q 006246          284 F-NEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV  362 (654)
Q Consensus       284 ~-~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~  362 (654)
                      + +.+.... +-.+.||..+.++|+-+++.+.|++.|+++++.. +....+|+.+..-+....++|.|...|+.....|+
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            3 3333332 4456789999999999999999999999988765 33678888888889999999999999999887665


Q ss_pred             H---HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHH
Q 006246          363 F---TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGC  438 (654)
Q Consensus       363 ~---~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~  438 (654)
                      .   +|.-|...|.+.++++.|+-.|+++.+-+. -+.+....+...+-+.|+.|+|+++++++..   +.|. +-.--.
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP-~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~---ld~kn~l~~~~  562 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINP-SNSVILCHIGRIQHQLKRKDKALQLYEKAIH---LDPKNPLCKYH  562 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhcCCc-cchhHHhhhhHHHHHhhhhhHHHHHHHHHHh---cCCCCchhHHH
Confidence            4   556678889999999999999999988542 2566777777888899999999999999976   3333 333334


Q ss_pred             HHHHHHHcCCHHHHHHHHHhCC-CCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          439 IVDLLGRAGYLAEAEEVISSMP-MEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       439 li~~~~~~g~~~~A~~~~~~m~-~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+..+...+++++|+..+++++ +.| +..++..++..|.+.|+.+.|+.-|.-+.+++|...
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGA  625 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccc
Confidence            5677888999999999999994 445 578888999999999999999999999999999864

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.42  E-value=1.1e-09  Score=107.08  Aligned_cols=370  Identities=11%  Similarity=0.025  Sum_probs=222.0

Q ss_pred             CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCC-hhhHH-H
Q 006246           96 PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGD-VHVKS-S  173 (654)
Q Consensus        96 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~-~  173 (654)
                      .|...+-...-.+.+.|....|.+.|......- +-.-..|.-|-..+   .+.    ++....+. |.+.| ..... -
T Consensus       162 ~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~-P~~W~AWleL~~li---t~~----e~~~~l~~-~l~~~~h~M~~~F  232 (559)
T KOG1155|consen  162 KDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRY-PWFWSAWLELSELI---TDI----EILSILVV-GLPSDMHWMKKFF  232 (559)
T ss_pred             chhHHHHHHHHHHHhhchHHHHHHHHHHHHhcC-CcchHHHHHHHHhh---chH----HHHHHHHh-cCcccchHHHHHH
Confidence            444443334444566778888888887776431 11222333222222   112    22222222 22221 11111 1


Q ss_pred             HHHHHHhcCCHHHHHHHHhc----CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC------CcchHHHHHHHHHhc
Q 006246          174 GIQMYACFGCVNKARQILDD----GSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDK------NTGSYNAMISGFARF  243 (654)
Q Consensus       174 li~~y~~~g~~~~A~~~~~~----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~~~~~~li~~~~~~  243 (654)
                      +..+|-.....+++.+-.+.    +.+.+...-+....+.-...++++|+.+|+++.+.      |..+|+.++-.--.+
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            22333333344444433322    23333333334444455667788888888887764      344666655433332


Q ss_pred             CCHH-HHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHH
Q 006246          244 GRFE-EARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV  322 (654)
Q Consensus       244 g~~~-~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  322 (654)
                      .++. -|..++ .+.+--+.|...+.+-|.-.++.++|...|++.++.+ +-....|+.+..-|....+...|.+-+..+
T Consensus       313 skLs~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  313 SKLSYLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             HHHHHHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            2222 122222 2222234456666777777888888888888888764 234456777777788888888888888888


Q ss_pred             HHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHH
Q 006246          323 KRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT  399 (654)
Q Consensus       323 ~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t  399 (654)
                      ++.+ +.|-..|-.|..+|.-.+...-|+-.|++...   .|...|.+|..+|.+.++.++|++.|++....| ..+...
T Consensus       391 vdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~  468 (559)
T KOG1155|consen  391 VDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSA  468 (559)
T ss_pred             HhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHH
Confidence            8765 55777888888888888888888888887764   388889999999999999999999999888876 336678


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHHc---CCCCC--cchHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 006246          400 FACVLSACAHAGMIDRGLQALTYMQQMY---GIDPE--VEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGA  474 (654)
Q Consensus       400 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~---g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~  474 (654)
                      +..|...+-+.++.++|.+.|++..+..   |...+  .....-|..-+.+.+++++|........             .
T Consensus       469 l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~-------------~  535 (559)
T KOG1155|consen  469 LVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL-------------K  535 (559)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh-------------c
Confidence            8888999999999999998888877642   22222  1122224445667777777766544431             1


Q ss_pred             HHHhCChHHHHHHHHHHHh
Q 006246          475 CRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~  493 (654)
                      .  .-..++|..+++++..
T Consensus       536 ~--~~e~eeak~LlReir~  552 (559)
T KOG1155|consen  536 G--ETECEEAKALLREIRK  552 (559)
T ss_pred             C--CchHHHHHHHHHHHHH
Confidence            1  2235666666666554

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.40  E-value=1.3e-12  Score=129.44  Aligned_cols=249  Identities=16%  Similarity=0.180  Sum_probs=102.6

Q ss_pred             HHHHHhcCCHHHHHHHHHhc-CC----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC
Q 006246          237 ISGFARFGRFEEARKLFNEM-ND----KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGA  311 (654)
Q Consensus       237 i~~~~~~g~~~~A~~~~~~~-~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  311 (654)
                      ...+.+.|++++|+++++.. ..    .|...|..+.......+++++|++.++++...+.. +...+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccc
Confidence            44555666666666666432 11    24455555666666677777777777777665422 34445555544 56777


Q ss_pred             hhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-----CCHHHHHHHHHHHHHcCChhHHHHHHH
Q 006246          312 LDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-----KEVFTWNAMIGGLAMHGRADDAIELFF  386 (654)
Q Consensus       312 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~A~~l~~  386 (654)
                      +++|.++.....+..  ++...+..++..|.+.|+++++.++++.+..     .+...|..+...+.+.|+.++|++.|+
T Consensus        93 ~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   93 PEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            777777766654432  3455566677778888888888888777542     366778888888889999999999999


Q ss_pred             HHhhcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-C-CCC
Q 006246          387 KMQREKMRP-DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-P-MEP  463 (654)
Q Consensus       387 ~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p  463 (654)
                      +..+.  .| |......++..+...|+.+++.+++....+.  .+.+...+..+..+|...|+.++|+..+++. . .+.
T Consensus       171 ~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~--~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~  246 (280)
T PF13429_consen  171 KALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKA--APDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD  246 (280)
T ss_dssp             HHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CcCHHHHHHHHHHHhcccccccccccccccccccccc
Confidence            98886  45 4567778888888899999988888888874  3556677888899999999999999999887 2 234


Q ss_pred             CHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          464 NAAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       464 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      |+.+...+..++...|+.++|.++.+++++
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             -HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccc
Confidence            788888889999999999999988888765

>TIGR00540 hemY_coli hemY protein

Probab=99.40  E-value=1.8e-10  Score=120.22  Aligned_cols=277  Identities=14%  Similarity=0.077  Sum_probs=194.8

Q ss_pred             hcCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCcc--hHHHHHHHHHhcCCHHHHHHH
Q 006246          180 CFGCVNKARQILDDGSKS---DVICWNALIDGYLKCGDIEGAKELFKSTKD--KNTG--SYNAMISGFARFGRFEEARKL  252 (654)
Q Consensus       180 ~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~~--~~~~li~~~~~~g~~~~A~~~  252 (654)
                      ..|+++.|.+.+.+....   ....+-.....+.+.|+.+.|...|.+..+  |+..  ........+...|+++.|...
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~  175 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHG  175 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            456777777766654221   222333444566778888888888887644  4432  334457778889999999999


Q ss_pred             HHhcCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHH---HhcCChhHHHHHHHHHHHcC
Q 006246          253 FNEMND--K-DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAAC---ASLGALDQGIWIHDHVKRNS  326 (654)
Q Consensus       253 ~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~---~~~g~~~~a~~~~~~~~~~~  326 (654)
                      ++.+.+  | +...+..+...+.+.|++++|.+++..+.+.++.+.......-..++   ...+..+.+.+.+..+.+..
T Consensus       176 l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~  255 (409)
T TIGR00540       176 VDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQ  255 (409)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHC
Confidence            998875  3 66778889999999999999999999999887543322211111222   22233333344555554433


Q ss_pred             C---CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC--CHHH---HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCH-
Q 006246          327 I---CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK--EVFT---WNAMIGGLAMHGRADDAIELFFKMQREKMRPDR-  397 (654)
Q Consensus       327 ~---~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~--~~~~---~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-  397 (654)
                      .   +.+...+..++..+...|+.++|.+++++..+.  |...   +..........++.+.+++.+++..+.  .|+. 
T Consensus       256 p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~  333 (409)
T TIGR00540       256 PRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKP  333 (409)
T ss_pred             CHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCCh
Confidence            2   247888889999999999999999999988763  3221   122222334457788899999888775  4544 


Q ss_pred             --HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          398 --ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       398 --~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                        ....++...|.+.|++++|.++|+.... +...|+...+..+...+.+.|+.++|.+++++.
T Consensus       334 ~~~ll~sLg~l~~~~~~~~~A~~~le~a~a-~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       334 KCCINRALGQLLMKHGEFIEAADAFKNVAA-CKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHhHH-hhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence              4456788899999999999999996444 356899999999999999999999999999874

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.40  E-value=1.1e-09  Score=115.57  Aligned_cols=357  Identities=13%  Similarity=0.138  Sum_probs=192.5

Q ss_pred             CCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHH
Q 006246           80 FSNFELALKVFNSVHK---PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVH  156 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  156 (654)
                      .|++++|.+++.++.+   .+..+|.+|...|-+.|+.++++..+-..-... +-|...|..+-.-..+.|+++.|.-.+
T Consensus       152 rg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            4889999999988773   456788899999999999888887765554432 235567777777777888899999999


Q ss_pred             HHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCC----ChhhHHH----HHHHHHHcCCHHHHHHHHHhcCC-
Q 006246          157 AHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKS----DVICWNA----LIDGYLKCGDIEGAKELFKSTKD-  227 (654)
Q Consensus       157 ~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~----~~~~~~~----li~~~~~~g~~~~A~~~~~~m~~-  227 (654)
                      .++++.. +++....-.-..+|-+.|+...|..-|.++...    |..-...    ++..|...++-+.|.+.++.... 
T Consensus       231 ~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  231 SRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            8888876 444445555667777778877777766665222    2122222    23344455555666666555443 


Q ss_pred             ----CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC----CCHhHHHHHHHHHHhcCChHHHHHHHHHHH--hCCCCCCcc
Q 006246          228 ----KNTGSYNAMISGFARFGRFEEARKLFNEMND----KDEITWSAIIDGYTKDGYYKEALEVFNEMQ--RDKIKPRKF  297 (654)
Q Consensus       228 ----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~g~~p~~~  297 (654)
                          -+...++.++..|.+...++.|......+..    +|..-|.+-    - .++     .-+.-..  ..++.++..
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~----~-~~~-----~~~~~~~~~~~~~s~~l~  379 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTD----E-RRR-----EEPNALCEVGKELSYDLR  379 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhh----h-hcc-----ccccccccCCCCCCccch
Confidence                1233455555555555555555555444332    111000000    0 000     0000000  001111111


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcC--CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC----CHHHHHHHHHH
Q 006246          298 VLSCVLAACASLGALDQGIWIHDHVKRNS--ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK----EVFTWNAMIGG  371 (654)
Q Consensus       298 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~----~~~~~~~li~~  371 (654)
                      . --+.-++......+....+.....+..  +..++..|.-+.++|...|++.+|..+|..+...    +...|--+..+
T Consensus       380 v-~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c  458 (895)
T KOG2076|consen  380 V-IRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARC  458 (895)
T ss_pred             h-HhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHH
Confidence            1 011222333444444444444444444  2334555556666666666666666666666542    44566666666


Q ss_pred             HHHcCChhHHHHHHHHHhhcCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHH-------HcCCCCCcchHHHHHHHH
Q 006246          372 LAMHGRADDAIELFFKMQREKMRPDR-ITFACVLSACAHAGMIDRGLQALTYMQQ-------MYGIDPEVEHYGCIVDLL  443 (654)
Q Consensus       372 ~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~-------~~g~~p~~~~~~~li~~~  443 (654)
                      |...|.+++|++.|++.+..  .|+. ..-..|...+.+.|+.++|.+.++.+..       ..+..|+........+.|
T Consensus       459 ~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l  536 (895)
T KOG2076|consen  459 YMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDIL  536 (895)
T ss_pred             HHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHH
Confidence            66666666666666666553  3332 2334444555566666666666665321       012333344444445555


Q ss_pred             HHcCCHHH
Q 006246          444 GRAGYLAE  451 (654)
Q Consensus       444 ~~~g~~~~  451 (654)
                      ...|+.++
T Consensus       537 ~~~gk~E~  544 (895)
T KOG2076|consen  537 FQVGKREE  544 (895)
T ss_pred             HHhhhHHH
Confidence            55555554

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.39  E-value=2.2e-09  Score=105.67  Aligned_cols=374  Identities=11%  Similarity=0.055  Sum_probs=220.9

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHhHhCCCCCC-cccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCC-hhhHHHHHHHH
Q 006246          101 WNSVLRACLEHNEPWRVISLYSEMVGVDSKPN-KFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGD-VHVKSSGIQMY  178 (654)
Q Consensus       101 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~y  178 (654)
                      +-....-|.++|.+++|++.|.+..+.  .|| +..|...-.+|...|+++++.+--...++..  |+ +-.+..-..++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHH
Confidence            444555677899999999999999875  688 7778888888899999999988888777654  43 44566667778


Q ss_pred             HhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCH------------HHHHHHHHhcCCC---Ccc------------
Q 006246          179 ACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDI------------EGAKELFKSTKDK---NTG------------  231 (654)
Q Consensus       179 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~------------~~A~~~~~~m~~~---~~~------------  231 (654)
                      -..|++++|..-.         |-..+..++....-.            ..+.+.+.+-..|   ...            
T Consensus       194 E~lg~~~eal~D~---------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~  264 (606)
T KOG0547|consen  194 EQLGKFDEALFDV---------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD  264 (606)
T ss_pred             HhhccHHHHHHhh---------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc
Confidence            7888888875421         111222222211111            1222222211111   111            


Q ss_pred             -----------hHHHHHHHHHh--cC---CHHHHHHHHHhcC-------CCC---------HhHHHHHHHHHHhcCChHH
Q 006246          232 -----------SYNAMISGFAR--FG---RFEEARKLFNEMN-------DKD---------EITWSAIIDGYTKDGYYKE  279 (654)
Q Consensus       232 -----------~~~~li~~~~~--~g---~~~~A~~~~~~~~-------~~~---------~~~~~~li~~~~~~g~~~~  279 (654)
                                 ....+..++..  .+   .+..|...+.+-.       ..+         ..+...-..-+.-.|+.-.
T Consensus       265 ~~~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~  344 (606)
T KOG0547|consen  265 PKPLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLG  344 (606)
T ss_pred             ccccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchh
Confidence                       11111111110  01   2223332222211       111         1111222222344577777


Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC
Q 006246          280 ALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM  359 (654)
Q Consensus       280 A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~  359 (654)
                      |.+.|+..+.....++. .|--+...|.+..+.++..+.|..+.+.+ +.++.+|..-..++.-.+++++|..=|++...
T Consensus       345 a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~  422 (606)
T KOG0547|consen  345 AQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAIS  422 (606)
T ss_pred             hhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhh
Confidence            77777777765433322 25556666777777777777777777765 34556666667777777777777777777665


Q ss_pred             C---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----
Q 006246          360 K---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----  432 (654)
Q Consensus       360 ~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----  432 (654)
                      -   ++..|-.+..+.-+.+++++++..|++.++. ++--...|+.....+...++++.|.+.|+...+   +.|+    
T Consensus       423 L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~---LE~~~~~~  498 (606)
T KOG0547|consen  423 LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE---LEPREHLI  498 (606)
T ss_pred             cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh---hccccccc
Confidence            2   4556666666666677777788888777665 344455677777777777778888777777765   2333    


Q ss_pred             -----cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          433 -----VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       433 -----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                           +.+.-.++..- -.+++..|++++++. .++| ....+.+|...-.+.|+.++|+++|++...+
T Consensus       499 ~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  499 IVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             cccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence                 11111222222 237777777777776 4555 3566777777777778888888777776554

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.38  E-value=1.4e-12  Score=129.15  Aligned_cols=254  Identities=15%  Similarity=0.155  Sum_probs=56.4

Q ss_pred             HHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHH-HHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCC
Q 006246          105 LRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVF-KACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGC  183 (654)
Q Consensus       105 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll-~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  183 (654)
                      ...+.+.|++++|++++++......+|+...|-.++ ..+...++.+.|.+.++.+++.+. .++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccc-ccccc
Confidence            334445555555555554333222123333332222 223344555555555555554432 233344444444 34455


Q ss_pred             HHHHHHHHhcC--CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCH
Q 006246          184 VNKARQILDDG--SKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDE  261 (654)
Q Consensus       184 ~~~A~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  261 (654)
                      +++|.+++++.  ..++...+..++..+.+.++++++..+++......                          -...+.
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~--------------------------~~~~~~  146 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELP--------------------------AAPDSA  146 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T-----------------------------T-H
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhcc--------------------------CCCCCH
Confidence            55555444443  11233334444444444455544444444321100                          001233


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      ..|..+...+.+.|+.++|++.|++..+.. +-|......++..+...|+.+++.+++....+.. +.|+..+..+..+|
T Consensus       147 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~  224 (280)
T PF13429_consen  147 RFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAY  224 (280)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHh
Confidence            344444444444444444444444444431 1123333444444444444444444444444332 33334444455555


Q ss_pred             HHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 006246          342 AKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKM  388 (654)
Q Consensus       342 ~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m  388 (654)
                      ...|+.++|...|++...   .|......+..++.+.|+.++|.++.++.
T Consensus       225 ~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  225 LQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT---------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            555555555555544432   24444444455555555555555554443

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.34  E-value=1.6e-10  Score=118.24  Aligned_cols=276  Identities=13%  Similarity=0.095  Sum_probs=201.8

Q ss_pred             CHHHHHHHHhcCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHhcCC------CCcchHHHHHHHHHhcCCHH-HHHHH
Q 006246          183 CVNKARQILDDGSK---SDVICWNALIDGYLKCGDIEGAKELFKSTKD------KNTGSYNAMISGFARFGRFE-EARKL  252 (654)
Q Consensus       183 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~------~~~~~~~~li~~~~~~g~~~-~A~~~  252 (654)
                      +..+|...|.+.+.   ........+..+|...+++++|.++|+.+.+      .+..+|.+.+.-+-+.=... -|..+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~L  413 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDL  413 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHH
Confidence            45677777777522   1234445677888888999999999988875      36667877776654432222 12333


Q ss_pred             HHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchh
Q 006246          253 FNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAV  332 (654)
Q Consensus       253 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  332 (654)
                      .+.. ...+.+|.++..+|.-+++.+.|++.|++..+.+ +-..++|+.+..-+.....+|.|...|..++... +.+-.
T Consensus       414 i~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYn  490 (638)
T KOG1126|consen  414 IDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYN  490 (638)
T ss_pred             HhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhH
Confidence            3322 2357889999999999999999999999988753 2266788877777888888999998888877543 12233


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAH  409 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  409 (654)
                      .|--|.-.|.|.++++.|+-.|++..+-   +.+....+...+-+.|+.++|+++|+++.....+ |..+-..-...+..
T Consensus       491 AwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~  569 (638)
T KOG1126|consen  491 AWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFS  569 (638)
T ss_pred             HHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHh
Confidence            4444777899999999999999988763   6677777788888999999999999999876533 55555556666777


Q ss_pred             cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC
Q 006246          410 AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN  464 (654)
Q Consensus       410 ~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~  464 (654)
                      .++.++|.+.++++++  -++.+...|..++..|.+.|+.+.|+.-|.-+ ..+|.
T Consensus       570 ~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  570 LGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             hcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            8899999999999987  23344667888889999999999999888765 44454

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.33  E-value=2.2e-09  Score=100.47  Aligned_cols=290  Identities=13%  Similarity=0.140  Sum_probs=169.0

Q ss_pred             CCHHHHHHHHHhcCCCCcchH---HHHHHHHHhcCCHHHHHHHHHhcCC-CCH------hHHHHHHHHHHhcCChHHHHH
Q 006246          213 GDIEGAKELFKSTKDKNTGSY---NAMISGFARFGRFEEARKLFNEMND-KDE------ITWSAIIDGYTKDGYYKEALE  282 (654)
Q Consensus       213 g~~~~A~~~~~~m~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~~~~-~~~------~~~~~li~~~~~~g~~~~A~~  282 (654)
                      .+.++|.++|-+|.+.|+.|+   -+|.+.|-+.|.+|.|+++-+.+.+ ||.      ...-.|..-|...|-+|.|..
T Consensus        49 ~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~  128 (389)
T COG2956          49 NQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAED  128 (389)
T ss_pred             cCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence            445555555555555444333   3455555555555555555555443 221      122334444555666666666


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc----hhHHHHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          283 VFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD----AVLGTALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       283 ~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                      +|..+.+.+ ..-......++..|....++++|+++-..+.+.+-.+.    ...|.-|...+....+.+.|..++.+..
T Consensus       129 ~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAl  207 (389)
T COG2956         129 IFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKAL  207 (389)
T ss_pred             HHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            666665543 22233455556666666666666666666555543332    2344455566666677788888887766


Q ss_pred             CC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcch
Q 006246          359 MK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEH  435 (654)
Q Consensus       359 ~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~  435 (654)
                      +.   .+..--.+...+...|+++.|++.++...+.+..--..+...|..+|.+.|+.+++...+..+.+.   .+....
T Consensus       208 qa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~  284 (389)
T COG2956         208 QADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET---NTGADA  284 (389)
T ss_pred             hhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc---cCCccH
Confidence            53   333344456677888888888888888888743333346677788888899999888888888764   444444


Q ss_pred             HHHHHHHHHHcCCHHHHHHHH-HhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHhc
Q 006246          436 YGCIVDLLGRAGYLAEAEEVI-SSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKER  514 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~~-~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~~~  514 (654)
                      -..+.+......-.+.|...+ +.+.-+|+...+.-|+..-...+.                 +.+|.+...+...|...
T Consensus       285 ~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~dae-----------------eg~~k~sL~~lr~mvge  347 (389)
T COG2956         285 ELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAE-----------------EGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhcccc-----------------ccchhhhHHHHHHHHHH
Confidence            555555554444455555544 455667888888777765443321                 11344444555556555


Q ss_pred             CCccCCcee
Q 006246          515 GIKTNPGSS  523 (654)
Q Consensus       515 g~~~~~~~s  523 (654)
                      .++..|.+.
T Consensus       348 ~l~~~~~YR  356 (389)
T COG2956         348 QLRRKPRYR  356 (389)
T ss_pred             HHhhcCCce
Confidence            565555543

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.30  E-value=1.4e-08  Score=102.16  Aligned_cols=450  Identities=11%  Similarity=0.013  Sum_probs=284.2

Q ss_pred             CCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhc--CCCCCcchHHHHHHHHHhCCCchHHHH
Q 006246           42 CHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNS--VHKPNVFVWNSVLRACLEHNEPWRVIS  119 (654)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~--~~~~~~~~~~~li~~~~~~g~~~~A~~  119 (654)
                      ....+..|.-+-+.+...+  .||...--+..+|.-  .|.++.|..+...  +.+.|..........+.+...+++|+.
T Consensus        28 ~q~~y~~a~f~adkV~~l~--~dp~d~~~~aq~l~~--~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~lk~~~~al~  103 (611)
T KOG1173|consen   28 MQHRYKTALFWADKVAGLT--NDPADIYWLAQVLYL--GRQYERAAHLITTYKLEKRDIACRYLAAKCLVKLKEWDQALL  103 (611)
T ss_pred             HHHhhhHHHHHHHHHHhcc--CChHHHHHHHHHHHh--hhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344555555555555554  344444445666666  6778888777654  447888888888888889999999998


Q ss_pred             HHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCCh
Q 006246          120 LYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDV  199 (654)
Q Consensus       120 ~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~  199 (654)
                      ++..-.   +.-+.+.|-..=.  +..-..+.+.+.+..-.+.++      .-.-...|......++|+..|.+....|+
T Consensus       104 vl~~~~---~~~~~f~yy~~~~--~~~l~~n~~~~~~~~~~essi------c~lRgk~y~al~n~~~ar~~Y~~Al~~D~  172 (611)
T KOG1173|consen  104 VLGRGH---VETNPFSYYEKDA--ANTLELNSAGEDLMINLESSI------CYLRGKVYVALDNREEARDKYKEALLADA  172 (611)
T ss_pred             Hhcccc---hhhcchhhcchhh--hceeccCcccccccccchhce------eeeeeehhhhhccHHHHHHHHHHHHhcch
Confidence            887321   1111111110000  000000000000000000000      00011123333444445544444433333


Q ss_pred             hhHHHHHHHHH--------------------HcC-CHHHHHHHHHhc----C----------------CCCcchHHHHHH
Q 006246          200 ICWNALIDGYL--------------------KCG-DIEGAKELFKST----K----------------DKNTGSYNAMIS  238 (654)
Q Consensus       200 ~~~~~li~~~~--------------------~~g-~~~~A~~~~~~m----~----------------~~~~~~~~~li~  238 (654)
                      ..+.++...-.                    -.+ +.+.-..+|+-.    .                +.+........+
T Consensus       173 ~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad  252 (611)
T KOG1173|consen  173 KCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKAD  252 (611)
T ss_pred             hhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHH
Confidence            33332211100                    001 111111222211    0                124445555666


Q ss_pred             HHHhcCCHHHHHHHHHhcCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHH
Q 006246          239 GFARFGRFEEARKLFNEMNDKD---EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQG  315 (654)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  315 (654)
                      -+...+++.+..++++.+.+.|   ...+..-|.++...|+..+-+.+=.+|.+. .+-...+|-++.-.|...|+..+|
T Consensus       253 ~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seA  331 (611)
T KOG1173|consen  253 RLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEA  331 (611)
T ss_pred             HHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHH
Confidence            6778899999999999988754   445666778899999998888888888876 355678898998888889999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC
Q 006246          316 IWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREK  392 (654)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  392 (654)
                      +..+.+..... +.-...|-.+...|+-.|+-|.|...+....+   ..-..+--+..-|.+.++.+-|.++|.+.... 
T Consensus       332 Rry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai-  409 (611)
T KOG1173|consen  332 RRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI-  409 (611)
T ss_pred             HHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc-
Confidence            99999887654 22345778889999999999999888866543   11122333455688899999999999988764 


Q ss_pred             CCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHc-CCCC----CcchHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCC
Q 006246          393 MRP-DRITFACVLSACAHAGMIDRGLQALTYMQQMY-GIDP----EVEHYGCIVDLLGRAGYLAEAEEVISSM-P-MEPN  464 (654)
Q Consensus       393 ~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~-g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p~  464 (654)
                       -| |+..++-+.-...+.+.+.+|..+|+.....- .+.+    -..+++.|..+|.+.+++++|+..+++. . .+.|
T Consensus       410 -~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~  488 (611)
T KOG1173|consen  410 -APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKD  488 (611)
T ss_pred             -CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCc
Confidence             44 55566666555667889999999999887421 1111    2345888999999999999999999987 2 3458


Q ss_pred             HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHh
Q 006246          465 AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKE  513 (654)
Q Consensus       465 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~~  513 (654)
                      ..++.++.-.|...|+++.|...|.+++.+.|++.   -+.++.+.+.+
T Consensus       489 ~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~---~~~~lL~~aie  534 (611)
T KOG1173|consen  489 ASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNI---FISELLKLAIE  534 (611)
T ss_pred             hhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccH---HHHHHHHHHHH
Confidence            99999999999999999999999999999999984   34444444443

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.28  E-value=1.1e-08  Score=98.82  Aligned_cols=275  Identities=17%  Similarity=0.133  Sum_probs=189.4

Q ss_pred             cCCHHHHHHHHHhcCCC---CcchHHHHHHHHHhcCCHHHHHHHHHhcCCC----CHhHHHHHHHHHHhcCChHHHHHHH
Q 006246          212 CGDIEGAKELFKSTKDK---NTGSYNAMISGFARFGRFEEARKLFNEMNDK----DEITWSAIIDGYTKDGYYKEALEVF  284 (654)
Q Consensus       212 ~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~  284 (654)
                      .|++..|.++..+-.+.   ....|..-..+--+.|+.+.|-+.+.+..++    +....-+........|++..|..-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            45555555555543331   1222333344445556666666666655443    2334555555666666666666666


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCch-------hHHHHHHHHHHHcCCHHHHHHHHhhc
Q 006246          285 NEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDA-------VLGTALVDMYAKCGRLDMAWKVFEDM  357 (654)
Q Consensus       285 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~y~~~g~~~~A~~~~~~m  357 (654)
                      .++.+.+ +-+.........+|.+.|++.....+...+.+.+.-.+.       .+++.+++-....+..+.-...++..
T Consensus       177 ~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            6666554 223445555666666666666666666666666554432       34555665555555555556677777


Q ss_pred             CC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcc
Q 006246          358 KM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVE  434 (654)
Q Consensus       358 ~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~  434 (654)
                      +.   .++..-.+++.-+.+.|+.++|.++.++..+.+..|+-    ..+-.+.+-++...-.+..+...+.++..|  .
T Consensus       256 pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~  329 (400)
T COG3071         256 PRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--L  329 (400)
T ss_pred             cHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHhCCCCh--h
Confidence            64   35667777888899999999999999999988777762    233467788888888888888887666666  6


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          435 HYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       435 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      .+.+|...|.+.+.+.+|.+.|+.. +..|+..+|+-+..++.+.|+.++|.++.++.+.
T Consensus       330 L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         330 LLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            7889999999999999999999976 7889999999999999999999999999988775

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.28  E-value=6.4e-09  Score=102.49  Aligned_cols=341  Identities=15%  Similarity=0.117  Sum_probs=228.3

Q ss_pred             HHhccCCcHHHHHHHHHHHHhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhhHHHHHHHHHHcCCHHH
Q 006246          142 ACSITEADKEGVQVHAHVVKNGLCGD-VHVKSSGIQMYACFGCVNKARQILDDGSKSD---VICWNALIDGYLKCGDIEG  217 (654)
Q Consensus       142 ~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~  217 (654)
                      -|.+.|.+++|.+.+.+++..  .|| +..|.....+|...|++++..+.-.+..+-+   +..+.--.+++-+.|++++
T Consensus       124 ~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E~lg~~~e  201 (606)
T KOG0547|consen  124 KFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHEQLGKFDE  201 (606)
T ss_pred             hhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHhhccHHH
Confidence            367889999999999999985  677 7889999999999999999988877754433   4455666677888888888


Q ss_pred             HHHHHHhcCCCCcchHHHHHHHHHhcCC------------HHHHHHHHHhcCC---CCHhHHH-----------------
Q 006246          218 AKELFKSTKDKNTGSYNAMISGFARFGR------------FEEARKLFNEMND---KDEITWS-----------------  265 (654)
Q Consensus       218 A~~~~~~m~~~~~~~~~~li~~~~~~g~------------~~~A~~~~~~~~~---~~~~~~~-----------------  265 (654)
                      |+.-.         |...+..++....-            ...+.+-+..=..   |.....+                 
T Consensus       202 al~D~---------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~  272 (606)
T KOG0547|consen  202 ALFDV---------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNK  272 (606)
T ss_pred             HHHhh---------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCC
Confidence            86532         12222222221111            1222222321111   1111111                 


Q ss_pred             ------HHHHHHHh--cC---ChHHHHHHHHHHHhC-CCCCCcc---------hHHHHHHH--HHhcCChhHHHHHHHHH
Q 006246          266 ------AIIDGYTK--DG---YYKEALEVFNEMQRD-KIKPRKF---------VLSCVLAA--CASLGALDQGIWIHDHV  322 (654)
Q Consensus       266 ------~li~~~~~--~g---~~~~A~~~~~~m~~~-g~~p~~~---------t~~~ll~~--~~~~g~~~~a~~~~~~~  322 (654)
                            .+..++..  .+   .+.+|...+.+-... -..++..         .-..++.+  ..-.|+.-.+.+-++.+
T Consensus       273 ~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~  352 (606)
T KOG0547|consen  273 SDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAA  352 (606)
T ss_pred             CccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHH
Confidence                  11111111  11   223333333221110 0111111         11111111  23357788888888888


Q ss_pred             HHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC-CHH
Q 006246          323 KRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP-DRI  398 (654)
Q Consensus       323 ~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~  398 (654)
                      ++....+ ...|--+..+|....+.++-.+.|++...   .|..+|..-...+.-.+++++|..=|++.+..  .| +..
T Consensus       353 I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L--~pe~~~  429 (606)
T KOG0547|consen  353 IKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISL--DPENAY  429 (606)
T ss_pred             HhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhc--ChhhhH
Confidence            8876433 33366677889999999999999998775   36678888888888889999999999999885  44 455


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC---------HHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN---------AAVW  468 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~---------~~~~  468 (654)
                      .|..+--+..+.+.++++...|+..++  .++..++.|+.....+..+++++.|.+.|+.. .++|+         +.+-
T Consensus       430 ~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~  507 (606)
T KOG0547|consen  430 AYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVH  507 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhh
Confidence            777777778899999999999999998  46667889999999999999999999999976 33333         3444


Q ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          469 EALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       469 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+++-.-.+ +++..|+.+++++++++|...
T Consensus       508 Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce  537 (606)
T KOG0547|consen  508 KALLVLQWK-EDINQAENLLRKAIELDPKCE  537 (606)
T ss_pred             hhHhhhchh-hhHHHHHHHHHHHHccCchHH
Confidence            444444444 899999999999999999875

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.27  E-value=1e-08  Score=99.09  Aligned_cols=282  Identities=12%  Similarity=0.102  Sum_probs=197.4

Q ss_pred             HHHHHHHh--CCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh
Q 006246          103 SVLRACLE--HNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC  180 (654)
Q Consensus       103 ~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  180 (654)
                      .+..+..+  .|++.+|.++..+-.+.+-.| ...|.....+.-..|+.+.+-..+.++.+.--.++..+.-+.......
T Consensus        87 ~~~egl~~l~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~  165 (400)
T COG3071          87 ALNEGLLKLFEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLN  165 (400)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHh
Confidence            34444443  588888888888876665222 234444555567778888888888888776446667777788888888


Q ss_pred             cCCHHHHHHHHhc---CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCC-----------cchHHHHHHHHHhcCCH
Q 006246          181 FGCVNKARQILDD---GSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKN-----------TGSYNAMISGFARFGRF  246 (654)
Q Consensus       181 ~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----------~~~~~~li~~~~~~g~~  246 (654)
                      .|+++.|+.-+++   |.+.++.......++|.+.|++.....++..+.+..           ..+|+.+++-....+..
T Consensus       166 ~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~  245 (400)
T COG3071         166 RRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGS  245 (400)
T ss_pred             CCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccc
Confidence            8888888876665   567778888888888899999999999988887642           23577777766666666


Q ss_pred             HHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHH
Q 006246          247 EEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVK  323 (654)
Q Consensus       247 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~  323 (654)
                      +.-...++..+.   .++..-.+++.-+.+.|+.++|.++.++..+.+..|+    -..+-.+.+.++.+.-++..+.-.
T Consensus       246 ~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l  321 (400)
T COG3071         246 EGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWL  321 (400)
T ss_pred             hHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHH
Confidence            666667777764   2566667788888888888888888888888766655    222234456666666665555544


Q ss_pred             HcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHhh
Q 006246          324 RNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--KEVFTWNAMIGGLAMHGRADDAIELFFKMQR  390 (654)
Q Consensus       324 ~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  390 (654)
                      +.- +.++..+.+|...|.+.+.+.+|.+.|+...+  ++..+|+.+..+|.+.|+.++|.+.+++...
T Consensus       322 ~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         322 KQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            432 23446667777777777777777777776554  5667777777777777777777777766554

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.26  E-value=1.8e-08  Score=106.12  Aligned_cols=461  Identities=10%  Similarity=0.045  Sum_probs=245.4

Q ss_pred             cccCCCCCCcchHHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCc
Q 006246           19 ISATNIPTSEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNV   98 (654)
Q Consensus        19 ~~~~g~~~~~~t~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~   98 (654)
                      +..+|+.||..||..++.  .++.-|+.+.|. +|..|.-........+++.++.....  .++.+.|.       .|..
T Consensus        16 ~e~~gi~PnRvtyqsLia--rYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~--And~Enpk-------ep~a   83 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIA--RYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKE--ANDAENPK-------EPLA   83 (1088)
T ss_pred             HHHhcCCCchhhHHHHHH--HHcccCCCcccc-chhhhhcccccccchhHHHHHhcccc--cccccCCC-------CCch
Confidence            345566666666666652  344455555555 56555555555555566666655555  55544433       4555


Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHH
Q 006246           99 FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMY  178 (654)
Q Consensus        99 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  178 (654)
                      .+|+.|..+|.+.|+... ++..++           -...+...++..|....-..++..+.  +.+.......+.+...
T Consensus        84 Dtyt~Ll~ayr~hGDli~-fe~veq-----------dLe~i~~sfs~~Gvgs~e~~fl~k~~--c~p~~lpda~n~illl  149 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLIL-FEVVEQ-----------DLESINQSFSDHGVGSPERWFLMKIH--CCPHSLPDAENAILLL  149 (1088)
T ss_pred             hHHHHHHHHHHhccchHH-HHHHHH-----------HHHHHHhhhhhhccCcHHHHHHhhcc--cCcccchhHHHHHHHH
Confidence            566666666666665543 222222           01111122222222222222222111  1111111222333444


Q ss_pred             HhcCCHHHHHHHHhcCCCCChhh-HHHHHHHHHH-cCCHHHHHHHHHhcCC-CCcchHHHHHHHHHhcCCHHHHHHHHHh
Q 006246          179 ACFGCVNKARQILDDGSKSDVIC-WNALIDGYLK-CGDIEGAKELFKSTKD-KNTGSYNAMISGFARFGRFEEARKLFNE  255 (654)
Q Consensus       179 ~~~g~~~~A~~~~~~~~~~~~~~-~~~li~~~~~-~g~~~~A~~~~~~m~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~  255 (654)
                      .-.|-++.+.+++..++...... ....++-+.. +..+++-....+...+ +++.+|.+++..-...|+++.|..++.+
T Consensus       150 v~eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~e  229 (1088)
T KOG4318|consen  150 VLEGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYE  229 (1088)
T ss_pred             HHHHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHH
Confidence            45566666777766654321111 1111222222 2334555555555555 8999999999999999999999999999


Q ss_pred             cCCCC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHH-----------HHH
Q 006246          256 MNDKD----EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIW-----------IHD  320 (654)
Q Consensus       256 ~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~-----------~~~  320 (654)
                      |.++.    ..-|-.++-+   .++..-+..+++-|...|+.|+..|+...+-.+.++|....+.+           ++.
T Consensus       230 mke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrs  306 (1088)
T KOG4318|consen  230 MKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRS  306 (1088)
T ss_pred             HHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHH
Confidence            99763    3333344444   78888889999999999999999999888777766443322111           111


Q ss_pred             HHHH-------------------------cCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-------CHHHHHHH
Q 006246          321 HVKR-------------------------NSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-------EVFTWNAM  368 (654)
Q Consensus       321 ~~~~-------------------------~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-------~~~~~~~l  368 (654)
                      .+.+                         .|+.....+|...+. ...+|+-++..++-..+..+       ++..|..+
T Consensus       307 aa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~  385 (1088)
T KOG4318|consen  307 AACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGAL  385 (1088)
T ss_pred             HHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHH
Confidence            1110                         122222333332222 22256666666666555532       34445444


Q ss_pred             HHHHHHcC----------------------ChhHHHHHHHHHhhcCCCCCH----------------------------H
Q 006246          369 IGGLAMHG----------------------RADDAIELFFKMQREKMRPDR----------------------------I  398 (654)
Q Consensus       369 i~~~~~~g----------------------~~~~A~~l~~~m~~~g~~p~~----------------------------~  398 (654)
                      +.-|.+.-                      ...+..++....     .||.                            .
T Consensus       386 lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~l-----rkns~lr~lv~Lss~Eler~he~~~~~~h~ird  460 (1088)
T KOG4318|consen  386 LRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENL-----RKNSFLRQLVGLSSTELERSHEPWPLIAHLIRD  460 (1088)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHh-----CcchHHHHHhhhhHHHHhcccccchhhhhHHHH
Confidence            44333221                      111111111111     2221                            1


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCC-----CCCCHHHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMP-----MEPNAAVWEALLG  473 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~p~~~~~~~ll~  473 (654)
                      .-+.++..|...-+..++...-+..... -+   ...|..||+.+..-.+.++|..+.++..     ..-|..-+..+.+
T Consensus       461 i~~ql~l~l~se~n~lK~l~~~ekye~~-lf---~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~d  536 (1088)
T KOG4318|consen  461 IANQLHLTLNSEYNKLKILCDEEKYEDL-LF---AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQD  536 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hh---hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHH
Confidence            2234444555555555555444444331 22   2568889999999999999999988873     2234455677778


Q ss_pred             HHHHhCChHHHHHHHHHHHhcCCCCC-----------------CchHHHHHHHHHHhcCCcc
Q 006246          474 ACRKHGEVEFGERLGKILLEMEPQNR-----------------RCDDVAKMRKLMKERGIKT  518 (654)
Q Consensus       474 ~~~~~g~~~~a~~~~~~~~~~~p~~~-----------------~~~~a~~~~~~m~~~g~~~  518 (654)
                      ...+++....+..+.+.+.+.--+.+                 .-+...++++.+...|+.-
T Consensus       537 LL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  537 LLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            88888888888877777766211111                 3344555666666666644

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.25  E-value=1.4e-08  Score=95.23  Aligned_cols=264  Identities=12%  Similarity=0.136  Sum_probs=136.0

Q ss_pred             CCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 006246          111 HNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQI  190 (654)
Q Consensus       111 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  190 (654)
                      +.+.++|.++|-+|.+.. +-+..+-.+|-+.+.+.|..+.|..+|..+.++   ||...-..+...             
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl-------------  110 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLAL-------------  110 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHH-------------
Confidence            457788888888887642 112223344555577778888888888877753   333222111111             


Q ss_pred             HhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCc---chHHHHHHHHHhcCCHHHHHHHHHhcCCCCH------
Q 006246          191 LDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNT---GSYNAMISGFARFGRFEEARKLFNEMNDKDE------  261 (654)
Q Consensus       191 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~------  261 (654)
                                  -.|..-|...|-++.|..+|..+.+.+.   .....|+..|-+..+|++|+++-+++..-+.      
T Consensus       111 ------------~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~e  178 (389)
T COG2956         111 ------------QQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVE  178 (389)
T ss_pred             ------------HHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhH
Confidence                        1233334555555555555555544221   2334455555555555555555554433211      


Q ss_pred             --hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          262 --ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       262 --~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                        ..|.-+...+....+.+.|..++.+..+.+. -....-..+.......|+++.|.+.++.+.+.+...-..+...|..
T Consensus       179 IAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~-~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~  257 (389)
T COG2956         179 IAQFYCELAQQALASSDVDRARELLKKALQADK-KCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYE  257 (389)
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCc-cceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHH
Confidence              2344455555556667777777777666531 1222222334455566666666666666666655545555666666


Q ss_pred             HHHHcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKM--KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA  406 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  406 (654)
                      +|...|+.++....+.++.+  ++...-..+-..-....-.+.|..++.+-+..  +|+...|..++..
T Consensus       258 ~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~  324 (389)
T COG2956         258 CYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDY  324 (389)
T ss_pred             HHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHh
Confidence            66666666666666655543  22222233332222233334444443333332  4566555555553

>PF13041 PPR_2: PPR repeat family

Probab=99.24  E-value=1.9e-11  Score=85.12  Aligned_cols=50  Identities=26%  Similarity=0.618  Sum_probs=47.0

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc
Q 006246          360 KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAH  409 (654)
Q Consensus       360 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  409 (654)
                      ||+++||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            68899999999999999999999999999999999999999999999875

>PF13041 PPR_2: PPR repeat family

Probab=99.24  E-value=1.1e-11  Score=86.31  Aligned_cols=50  Identities=20%  Similarity=0.409  Sum_probs=48.2

Q ss_pred             CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhc
Q 006246           96 PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSI  145 (654)
Q Consensus        96 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  145 (654)
                      ||+++||++|.+|++.|++++|+++|++|.+.|++||..||++++++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            79999999999999999999999999999999999999999999999874

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.23  E-value=1.5e-08  Score=106.75  Aligned_cols=264  Identities=14%  Similarity=0.039  Sum_probs=190.0

Q ss_pred             HHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCC----CcchHHHHHHHHHhCCCchHHHHHHHHhHhC
Q 006246           52 AHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKP----NVFVWNSVLRACLEHNEPWRVISLYSEMVGV  127 (654)
Q Consensus        52 ~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  127 (654)
                      .+..+...|+.|+..+|.+||.-|+.  .|+.+.|- +|.-|.-+    +...++.++.+..+.++.+.+.         
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~--~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCT--KGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcc--cCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            44556678999999999999999999  99999998 88888733    4567899999888888876654         


Q ss_pred             CCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC--CCCChhhHHHH
Q 006246          128 DSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG--SKSDVICWNAL  205 (654)
Q Consensus       128 g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~--~~~~~~~~~~l  205 (654)
                        .|-..||..|+.+|...||+..-..+-+.+.            .+...+...|.-..-..++..+  .+.....-...
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe------------~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~  145 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEVVEQDLE------------SINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENA  145 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHHHHHHHH------------HHHhhhhhhccCcHHHHHHhhcccCcccchhHHHH
Confidence              6888999999999999999766222222122            2223334444444444444432  22222222334


Q ss_pred             HHHHHHcCCHHHHHHHHHhcCCC---CcchHHHHHHHHHh-cCCHHHHHHHHHhcCC-CCHhHHHHHHHHHHhcCChHHH
Q 006246          206 IDGYLKCGDIEGAKELFKSTKDK---NTGSYNAMISGFAR-FGRFEEARKLFNEMND-KDEITWSAIIDGYTKDGYYKEA  280 (654)
Q Consensus       206 i~~~~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A  280 (654)
                      +......|.++.+++++..+...   ++...  .++-... ...+++-........+ ++..+|.+++..-.-+|+.+.|
T Consensus       146 illlv~eglwaqllkll~~~Pvsa~~~p~~v--fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~A  223 (1088)
T KOG4318|consen  146 ILLLVLEGLWAQLLKLLAKVPVSAWNAPFQV--FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGA  223 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHhhCCcccccchHHH--HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhH
Confidence            45557778888888888777642   11111  2332222 2345555555555555 7999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCC
Q 006246          281 LEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGR  346 (654)
Q Consensus       281 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~  346 (654)
                      ..++.+|.+.|++.+..-|-.++-+   .++...+..+..-|.+.|+.|+..++.-.+....+.|.
T Consensus       224 k~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  224 KNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            9999999999999998888877755   78888899999999999999999999887777776555

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.20  E-value=1.6e-08  Score=101.69  Aligned_cols=272  Identities=14%  Similarity=0.097  Sum_probs=190.9

Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHH
Q 006246          164 LCGDVHVKSSGIQMYACFGCVNKARQILDDGS---KSDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMI  237 (654)
Q Consensus       164 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li  237 (654)
                      ...+..+.....+-+...+++.+..++++...   +.....+..-|.++...|+..+-..+=.++.+   ....+|-++.
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg  319 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVG  319 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHH
Confidence            34455666666777778888999888888764   34455566667788888887776666666665   3567888888


Q ss_pred             HHHHhcCCHHHHHHHHHhcCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhH
Q 006246          238 SGFARFGRFEEARKLFNEMNDKD---EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQ  314 (654)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  314 (654)
                      --|.-.|+.++|.+.|.+...-|   ...|-.....|+-.|..++|+..+...-+. ++-...-+--+.--|.+.++++.
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHH
Confidence            88888899999999998876543   447888889999999999999888776553 11112223334445777888888


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC----------CHHHHHHHHHHHHHcCChhHHHHH
Q 006246          315 GIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK----------EVFTWNAMIGGLAMHGRADDAIEL  384 (654)
Q Consensus       315 a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~----------~~~~~~~li~~~~~~g~~~~A~~l  384 (654)
                      |.+.|.++.... +.|+.+.+-+.-+..+.+.+.+|...|+....+          -..+|+.|..+|.+.+.+++|+..
T Consensus       399 Ae~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  399 AEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHH
Confidence            998888887764 557778888777777778888888888765521          223466677777777777777777


Q ss_pred             HHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 006246          385 FFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD  441 (654)
Q Consensus       385 ~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~  441 (654)
                      |++.+... +-|..|+.++.-.+...|+++.|...|.+..   .+.|+-.+-..++.
T Consensus       478 ~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL---~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  478 YQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL---ALKPDNIFISELLK  530 (611)
T ss_pred             HHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH---hcCCccHHHHHHHH
Confidence            77776653 3366677777777777777777777777664   45666554444443

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.16  E-value=3.4e-07  Score=88.71  Aligned_cols=278  Identities=10%  Similarity=0.022  Sum_probs=185.3

Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHH---HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 006246          228 KNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITW---SAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLA  304 (654)
Q Consensus       228 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  304 (654)
                      .|+.....+...+...|+.++|+..|++...-|+.+.   ....-.+.+.|+++....+...+.... +-....|-.-+.
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~  308 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQ  308 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhh
Confidence            4566677777777777777777777777654433322   222233456677777766666665432 112222222223


Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHH
Q 006246          305 ACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDA  381 (654)
Q Consensus       305 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A  381 (654)
                      ......+++.|..+-++.++.. +.+...+-.-...+...|+.++|.-.|+....   -+..+|.-|+.+|...|++.+|
T Consensus       309 ~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA  387 (564)
T KOG1174|consen  309 LLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEA  387 (564)
T ss_pred             hhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHH
Confidence            3345566777777766666544 22333333334556677888888888876654   2778888899999999998888


Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHH-HHHH-ccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHh
Q 006246          382 IELFFKMQREKMRPDRITFACVL-SACA-HAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISS  458 (654)
Q Consensus       382 ~~l~~~m~~~g~~p~~~t~~~ll-~~~~-~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~  458 (654)
                      .-+-+...+. ++.+..+...+. ..|. ....-++|..++++..+   +.|+ ....+.+...+.+.|+.++++.++++
T Consensus       388 ~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  388 NALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            8777665543 233555555442 2222 22345778888887654   5676 34566778889999999999999998


Q ss_pred             C-CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHhc
Q 006246          459 M-PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKER  514 (654)
Q Consensus       459 m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~~~  514 (654)
                      . ...||....+.|.+.+...+.+.+|...|..++.++|++.   .+.+=.+.|.+.
T Consensus       464 ~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~---~sl~Gl~~lEK~  517 (564)
T KOG1174|consen  464 HLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSK---RTLRGLRLLEKS  517 (564)
T ss_pred             HHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccch---HHHHHHHHHHhc
Confidence            6 6779999999999999999999999999999999999985   333333445443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.16  E-value=1.2e-08  Score=97.87  Aligned_cols=200  Identities=16%  Similarity=0.113  Sum_probs=107.5

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+....+.. +            
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~------------   96 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-P------------   96 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-C------------
Confidence            3456666666666777777777766665542 1223333444444445555555555555444432 1            


Q ss_pred             HHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHccCCHHHHHHH
Q 006246          341 YAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLSACAHAGMIDRGLQA  419 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~  419 (654)
                                         .+...+..+...+...|++++|.+.|++..+....| +...+..+...+...|++++|.+.
T Consensus        97 -------------------~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (234)
T TIGR02521        97 -------------------NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKY  157 (234)
T ss_pred             -------------------CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHH
Confidence                               123344444555555555555555555555432111 223444455556666666666666


Q ss_pred             HHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          420 LTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       420 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      +.+..+.  .+.+...+..+...+...|++++|.+.+++. .. +.+...+..+...+...|+.+.|....+.+.+..
T Consensus       158 ~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       158 LTRALQI--DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            6666542  1223445556666666666666666666654 11 2245555566666667777777776666655443

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.14  E-value=9.3e-07  Score=90.38  Aligned_cols=150  Identities=12%  Similarity=0.110  Sum_probs=81.1

Q ss_pred             CCCChHHHHHHHHHHHHh-CCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHH
Q 006246           42 CHTSWQHLKQAHAVILKS-GHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISL  120 (654)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  120 (654)
                      ..+.+...+..|+..+.. .+.....+|...+.....  .|-++-+..++++..+-++.+-+-.|..++..+++++|-+.
T Consensus       114 ~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~--~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~  191 (835)
T KOG2047|consen  114 KQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVES--HGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQR  191 (835)
T ss_pred             hcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHh--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHH
Confidence            345555556666665543 223344556555665555  66666777777666655555566666666777777777666


Q ss_pred             HHHhHhCC------CCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCC--CC--hhhHHHHHHHHHhcCCHHHHHHH
Q 006246          121 YSEMVGVD------SKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLC--GD--VHVKSSGIQMYACFGCVNKARQI  190 (654)
Q Consensus       121 ~~~m~~~g------~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~--~~--~~~~~~li~~y~~~g~~~~A~~~  190 (654)
                      +...+...      -+.+...|.-+-...++..+.-.... .+.+++.|+.  +|  ...|++|.+-|.+.|.+++|+.+
T Consensus       192 la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~sln-vdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDv  270 (835)
T KOG2047|consen  192 LATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLN-VDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDV  270 (835)
T ss_pred             HHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccC-HHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            66654321      11222233333333333322221111 1122222221  22  34678888888888888888888


Q ss_pred             HhcC
Q 006246          191 LDDG  194 (654)
Q Consensus       191 ~~~~  194 (654)
                      |++.
T Consensus       271 yeea  274 (835)
T KOG2047|consen  271 YEEA  274 (835)
T ss_pred             HHHH
Confidence            8774

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.12  E-value=2.2e-08  Score=96.00  Aligned_cols=194  Identities=13%  Similarity=0.067  Sum_probs=126.4

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 006246          229 NTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA  305 (654)
Q Consensus       229 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  305 (654)
                      ....+..+...|...|++++|...|++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            356788889999999999999999998764   256788889999999999999999999998764 3344566666777


Q ss_pred             HHhcCChhHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHH
Q 006246          306 CASLGALDQGIWIHDHVKRNSI-CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDA  381 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A  381 (654)
                      +...|++++|.+.+..+.+... ......+..+...|.+.|++++|.+.|++...   .+...|..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            7888888888888888776421 12233444455556666666666666555443   1334455555555555555555


Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 006246          382 IELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQ  424 (654)
Q Consensus       382 ~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~  424 (654)
                      ...+++..+. .+.+...+..+...+...|+.++|..+.+.+.
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            5555555544 12233344444444445555555555554443

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.10  E-value=4.7e-09  Score=98.18  Aligned_cols=228  Identities=10%  Similarity=0.072  Sum_probs=188.4

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHc
Q 006246          265 SAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKC  344 (654)
Q Consensus       265 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~  344 (654)
                      +.|..+|.+.|.+.+|.+.|+.-+..  .|-..||..+-.+|.+..+.+.|..++.+-++. ++.|+....-....+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            56778888999999999888888776  556678888888899999999998888887765 355666666677788888


Q ss_pred             CCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 006246          345 GRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALT  421 (654)
Q Consensus       345 g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  421 (654)
                      ++.++|.++|+...+   .++.+...+..+|.-.++++-|+.+|+++++.|+. +...|+.+.-+|.-.+++|-++--|+
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            999999999998776   36667777778888999999999999999999977 77889999999999999999999999


Q ss_pred             HHHHHcCCCCC--cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          422 YMQQMYGIDPE--VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       422 ~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                      +.... --.|+  ..+|-.+.......|++.-|.+.|+-. ...| +...++.|.-.-.+.|+++.|..+++-+....|+
T Consensus       383 RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~  461 (478)
T KOG1129|consen  383 RALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPD  461 (478)
T ss_pred             HHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCcc
Confidence            88873 33344  457888888888999999999999876 3333 5788999988889999999999999998888876

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.09  E-value=2.9e-06  Score=86.89  Aligned_cols=373  Identities=12%  Similarity=0.145  Sum_probs=228.9

Q ss_pred             hhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC----------CCcchHHHHHHHH
Q 006246           39 NTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK----------PNVFVWNSVLRAC  108 (654)
Q Consensus        39 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~----------~~~~~~~~li~~~  108 (654)
                      ...+.+-++.+..++.+-++..    |...+--|..+++  .+++++|-+.+..+..          .+-..|+-+-...
T Consensus       147 Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie~L~~--~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdli  220 (835)
T KOG2047|consen  147 FVESHGLPETSIRVYRRYLKVA----PEAREEYIEYLAK--SDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLI  220 (835)
T ss_pred             HHHhCCChHHHHHHHHHHHhcC----HHHHHHHHHHHHh--ccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHH
Confidence            4455666677888888777653    3345666777777  8889998888877652          2334566666666


Q ss_pred             HhCCCchH---HHHHHHHhHhCCCCCCc--ccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCC
Q 006246          109 LEHNEPWR---VISLYSEMVGVDSKPNK--FTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGC  183 (654)
Q Consensus       109 ~~~g~~~~---A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  183 (654)
                      +++-+.-.   .-.+++.+...  -||.  ..|.+|..-|.+.|.++.|+.++++.++.  ...+.-++.+.+.|+....
T Consensus       221 s~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE  296 (835)
T KOG2047|consen  221 SQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEE  296 (835)
T ss_pred             HhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHH
Confidence            65543332   22334444332  3444  35677777788888888888888777664  2333344444444443322


Q ss_pred             H----------------------HHHHHHHhcC---------------CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 006246          184 V----------------------NKARQILDDG---------------SKSDVICWNALIDGYLKCGDIEGAKELFKSTK  226 (654)
Q Consensus       184 ~----------------------~~A~~~~~~~---------------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  226 (654)
                      -                      +-...-|+.+               .+.++..|..-+.  ...|+..+-...|.+..
T Consensus       297 ~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv  374 (835)
T KOG2047|consen  297 SCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAV  374 (835)
T ss_pred             HHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHH
Confidence            1                      1122222221               1223444444333  34566666666666654


Q ss_pred             C---C------CcchHHHHHHHHHhcCCHHHHHHHHHhcCCCC-------HhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006246          227 D---K------NTGSYNAMISGFARFGRFEEARKLFNEMNDKD-------EITWSAIIDGYTKDGYYKEALEVFNEMQRD  290 (654)
Q Consensus       227 ~---~------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  290 (654)
                      +   |      -...|..+...|-..|+++.|..+|++..+-+       ..+|......=.+..+++.|+++.+.....
T Consensus       375 ~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~v  454 (835)
T KOG2047|consen  375 KTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHV  454 (835)
T ss_pred             HccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcC
Confidence            3   1      23468888999999999999999999987642       235666666667788899999988877542


Q ss_pred             CCCC-----------C------cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHH
Q 006246          291 KIKP-----------R------KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKV  353 (654)
Q Consensus       291 g~~p-----------~------~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~  353 (654)
                      --.|           .      ...|+..+..-...|-++..+.+|+.+++..+.....+.| ....+-...-++++.++
T Consensus       455 P~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~N-yAmfLEeh~yfeesFk~  533 (835)
T KOG2047|consen  455 PTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIIN-YAMFLEEHKYFEESFKA  533 (835)
T ss_pred             CCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhhHHHHHHHHH
Confidence            1111           1      1223333444456678888889999998877643333332 33334445568899999


Q ss_pred             HhhcCC----CCH-HHHHHHHHHHHHc---CChhHHHHHHHHHhhcCCCCCHHHHHHHHHH--HHccCCHHHHHHHHHHH
Q 006246          354 FEDMKM----KEV-FTWNAMIGGLAMH---GRADDAIELFFKMQREKMRPDRITFACVLSA--CAHAGMIDRGLQALTYM  423 (654)
Q Consensus       354 ~~~m~~----~~~-~~~~~li~~~~~~---g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~--~~~~g~~~~a~~~~~~~  423 (654)
                      +++-..    |++ ..||+-+.-+.+.   -+.+.|..+|++.++ |++|...-+.-|+.+  --..|....|+.+++++
T Consensus       534 YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyera  612 (835)
T KOG2047|consen  534 YERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERA  612 (835)
T ss_pred             HHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            988664    454 4688776665542   368899999999998 777766544333332  22457777777777765


Q ss_pred             HH
Q 006246          424 QQ  425 (654)
Q Consensus       424 ~~  425 (654)
                      ..
T Consensus       613 t~  614 (835)
T KOG2047|consen  613 TS  614 (835)
T ss_pred             Hh
Confidence            54

>PRK12370 invasion protein regulator; Provisional

Probab=99.08  E-value=2e-08  Score=109.04  Aligned_cols=176  Identities=12%  Similarity=-0.030  Sum_probs=98.7

Q ss_pred             ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHH
Q 006246          311 ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K-EVFTWNAMIGGLAMHGRADDAIELFFK  387 (654)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~  387 (654)
                      ++++|...++++.+.. +.+...+..+...+...|++++|...|++..+  | +...|..+...+...|++++|+..+++
T Consensus       319 ~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        319 AMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             HHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            3566666666666554 33455556666666666667777666666553  2 345566666666667777777777776


Q ss_pred             HhhcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC
Q 006246          388 MQREKMRPDRI-TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN  464 (654)
Q Consensus       388 m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~  464 (654)
                      ..+.  .|+.. .+..++..+...|++++|...++++.+.  ..|+ ...+..+..+|...|++++|.+.++++ +..|+
T Consensus       398 Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~  473 (553)
T PRK12370        398 CLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEIT  473 (553)
T ss_pred             HHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccch
Confidence            6664  23321 2223333444566666677666666542  1232 333555666666677777777766665 23333


Q ss_pred             -HHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          465 -AAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       465 -~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                       ...++.+...+...|  +.|...++++++
T Consensus       474 ~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        474 GLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             hHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence             333444444555555  355555555554

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.07  E-value=2.1e-08  Score=103.89  Aligned_cols=227  Identities=18%  Similarity=0.155  Sum_probs=156.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC-----C-CCCCcch-HHHHHHHHHhcCChhHHHHHHHHHHHc-----CC--CCchh
Q 006246          267 IIDGYTKDGYYKEALEVFNEMQRD-----K-IKPRKFV-LSCVLAACASLGALDQGIWIHDHVKRN-----SI--CVDAV  332 (654)
Q Consensus       267 li~~~~~~g~~~~A~~~~~~m~~~-----g-~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~~--~~~~~  332 (654)
                      +...|...|++++|..++++.++.     | ..|...+ ...+...|...+++++|..+|+.+...     |-  +.-..
T Consensus       205 La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~  284 (508)
T KOG1840|consen  205 LAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAA  284 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            556666666666666666655442     2 1122221 223445566777777777777776542     21  11244


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCC----------CCH-HHHHHHHHHHHHcCChhHHHHHHHHHhhc---CCCCCH-
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKM----------KEV-FTWNAMIGGLAMHGRADDAIELFFKMQRE---KMRPDR-  397 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~----------~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~p~~-  397 (654)
                      +++.|..+|.+.|++++|...++...+          +.+ ..++.++..+...+++++|..++++..+.   -+.++. 
T Consensus       285 ~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~  364 (508)
T KOG1840|consen  285 TLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNV  364 (508)
T ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccch
Confidence            556667778888888888777765542          122 24666777888899999999999876542   123333 


Q ss_pred             ---HHHHHHHHHHHccCCHHHHHHHHHHHHHHc----C-CCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC--------C
Q 006246          398 ---ITFACVLSACAHAGMIDRGLQALTYMQQMY----G-IDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM--------P  460 (654)
Q Consensus       398 ---~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~----g-~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m--------~  460 (654)
                         .+++.|...|.+.|++++|.++|+++....    | ..+. ...++.|...|.+.+++.+|.++|.+.        +
T Consensus       365 ~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~  444 (508)
T KOG1840|consen  365 NLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGP  444 (508)
T ss_pred             HHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCC
Confidence               478999999999999999999999987753    1 1122 345778888999999999999999875        2


Q ss_pred             CCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          461 MEPN-AAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       461 ~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      ..|+ ..+|..|...|...|++|.|+++.++++.
T Consensus       445 ~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  445 DHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             CCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            3454 57899999999999999999999988874

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.05  E-value=7.2e-06  Score=83.44  Aligned_cols=417  Identities=14%  Similarity=0.090  Sum_probs=224.9

Q ss_pred             hhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHH--HHHHHH--hCCC
Q 006246           38 LNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNS--VLRACL--EHNE  113 (654)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~--li~~~~--~~g~  113 (654)
                      ......+++++|.+.-..++..++. |...+-+=+-+..+  .+.+++|+.+.+.-..-.  +++.  +=.+|+  +.+.
T Consensus        20 n~~~~~~e~e~a~k~~~Kil~~~pd-d~~a~~cKvValIq--~~ky~~ALk~ikk~~~~~--~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   20 NRHGKNGEYEEAVKTANKILSIVPD-DEDAIRCKVVALIQ--LDKYEDALKLIKKNGALL--VINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHhccchHHHHHHHHHHHHHhcCCC-cHhhHhhhHhhhhh--hhHHHHHHHHHHhcchhh--hcchhhHHHHHHHHHccc
Confidence            4566788999999999999988744 34444444445566  789999997776544211  2222  234444  6889


Q ss_pred             chHHHHHHHHhHhCCCCCCc-ccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHH
Q 006246          114 PWRVISLYSEMVGVDSKPNK-FTYPTVFKACSITEADKEGVQVHAHVVKNGLCG-DVHVKSSGIQMYACFGCVNKARQIL  191 (654)
Q Consensus       114 ~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~li~~y~~~g~~~~A~~~~  191 (654)
                      .++|+..++     |..++. .+...-...|.+.+++++|..++..+.+.+.+. +......++..-.    .-.+. +.
T Consensus        95 ~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a----~l~~~-~~  164 (652)
T KOG2376|consen   95 LDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA----ALQVQ-LL  164 (652)
T ss_pred             HHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----hhhHH-HH
Confidence            999999988     333333 355555566889999999999999998876432 2222222222211    11111 23


Q ss_pred             hcCCCCChhhHHHH---HHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhc-CCC-----CH-
Q 006246          192 DDGSKSDVICWNAL---IDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEM-NDK-----DE-  261 (654)
Q Consensus       192 ~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-----~~-  261 (654)
                      +..+.....+|..+   ...+...|++.+|+++++...+                        +-.+- .+.     +. 
T Consensus       165 q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~------------------------~~~e~l~~~d~~eEeie  220 (652)
T KOG2376|consen  165 QSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALR------------------------ICREKLEDEDTNEEEIE  220 (652)
T ss_pred             HhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHH------------------------HHHHhhcccccchhhHH
Confidence            33333223333332   2345566777777777655411                        00000 000     00 


Q ss_pred             ----hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHH---HHHhcCChhH--HHHHHHHH----------
Q 006246          262 ----ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLA---ACASLGALDQ--GIWIHDHV----------  322 (654)
Q Consensus       262 ----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~---~~~~~g~~~~--a~~~~~~~----------  322 (654)
                          ..--.|.-.+-..|+.++|.++|...++.. .+|........+   +...-.++-.  ....++..          
T Consensus       221 ~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~  299 (652)
T KOG2376|consen  221 EELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLS  299 (652)
T ss_pred             HHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHH
Confidence                011223334455666666666666666553 333322211111   1111111111  00011100          


Q ss_pred             -HHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCC-HHHHHHHHHHHHH--cCChhHHHHHHHHHhhcCCCCCHH
Q 006246          323 -KRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKE-VFTWNAMIGGLAM--HGRADDAIELFFKMQREKMRPDRI  398 (654)
Q Consensus       323 -~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~-~~~~~~li~~~~~--~g~~~~A~~l~~~m~~~g~~p~~~  398 (654)
                       ...........-+.++.+|.  +..+.+.++-...+... ...+.+++....+  .....+|.+++...-+....-...
T Consensus       300 ~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~  377 (652)
T KOG2376|consen  300 KLSKKQKQAIYRNNALLALFT--NKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKV  377 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHH
Confidence             00000011222244555554  55667777776666532 3444444443322  224677777777766542221233


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHH--------HHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC--------CCC
Q 006246          399 TFACVLSACAHAGMIDRGLQALT--------YMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM--------PME  462 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~--------~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--------~~~  462 (654)
                      .....+..-...|+++.|.+++.        .+.+ .+..|  .+-..++.++.+.++-+-|.+++.+.        ...
T Consensus       378 v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~-~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s  454 (652)
T KOG2376|consen  378 VLLLRAQLKISQGNPEVALEILSLFLESWKSSILE-AKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGS  454 (652)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhh-hccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccc
Confidence            44455556677899999998888        4444 23344  44566778888888777777776654        222


Q ss_pred             CC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          463 PN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       463 p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +. ..+|.-+...-.++|+-++|...++++++.+|++.
T Consensus       455 ~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~  492 (652)
T KOG2376|consen  455 IALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDT  492 (652)
T ss_pred             hHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchH
Confidence            21 33444444455677999999999999999888886

>PRK12370 invasion protein regulator; Provisional

Probab=99.04  E-value=1.9e-08  Score=109.17  Aligned_cols=206  Identities=13%  Similarity=0.068  Sum_probs=131.0

Q ss_pred             CCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHH
Q 006246          213 GDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND--K-DEITWSAIIDGYTKDGYYKEALEVFNE  286 (654)
Q Consensus       213 g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~  286 (654)
                      +++++|...+++..+   .+...+..+...+...|++++|...|++..+  | +...|..+...+...|++++|+..+++
T Consensus       318 ~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        318 NAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             hHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            446777777777665   2455666677777777788888888877654  3 455677777888888888888888888


Q ss_pred             HHhCCCCCCc-chHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---CH
Q 006246          287 MQRDKIKPRK-FVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK---EV  362 (654)
Q Consensus       287 m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~  362 (654)
                      ..+.+  |+. ..+..++..+...|++++|...+..+.+...+.++..+..+...|...|+.++|.+.++++...   +.
T Consensus       398 Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~  475 (553)
T PRK12370        398 CLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGL  475 (553)
T ss_pred             HHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhH
Confidence            87753  332 2233334445567788888888887776543334555667777888888888888888876543   33


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQRE-KMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ..++.+...|...|  ++|...++++.+. .-.|+...+..+  .+.-.|+-+.+..+ +++.+
T Consensus       476 ~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~--~~~~~g~~~~~~~~-~~~~~  534 (553)
T PRK12370        476 IAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGLLPL--VLVAHGEAIAEKMW-NKFKN  534 (553)
T ss_pred             HHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchHHHH--HHHHHhhhHHHHHH-HHhhc
Confidence            45566666666666  4677766666542 122333333333  33444555555544 65554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.02  E-value=2.1e-06  Score=81.60  Aligned_cols=459  Identities=11%  Similarity=0.070  Sum_probs=266.9

Q ss_pred             hcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCchH
Q 006246           40 TKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEPWR  116 (654)
Q Consensus        40 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~  116 (654)
                      .....++..|..+.......+-.-...+--=+..+|.+  .|++++|..++..+.   .++...|-.|.-.+.-.|.+.+
T Consensus        32 fls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fh--LgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~e  109 (557)
T KOG3785|consen   32 FLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFH--LGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIE  109 (557)
T ss_pred             HHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHh--hccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHH
Confidence            44467778888777765533322111122222344555  899999999987765   3555666666666666678888


Q ss_pred             HHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 006246          117 VISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSK  196 (654)
Q Consensus       117 A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~  196 (654)
                      |..+-....+     ++..-..++...-+.++-++-..+++.+...     ..-..+|..+....-.+.+|++++.+...
T Consensus       110 A~~~~~ka~k-----~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~  179 (557)
T KOG3785|consen  110 AKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQ  179 (557)
T ss_pred             HHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8776554322     2333344455556777777777777766532     23344566665556678899999988643


Q ss_pred             --CChhhHHH-HHHHHHHcCCHHHHHHHHHhcCC--CCc-chHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHH
Q 006246          197 --SDVICWNA-LIDGYLKCGDIEGAKELFKSTKD--KNT-GSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDG  270 (654)
Q Consensus       197 --~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~  270 (654)
                        |.-...|. +.-+|.+..-++-+.++++...+  ||. ...|.......+.=.-..|+.-...+.+.-...| ..+.-
T Consensus       180 dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~-~f~~~  258 (557)
T KOG3785|consen  180 DNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEY-PFIEY  258 (557)
T ss_pred             cChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccc-hhHHH
Confidence              34444454 34467788888877777766654  433 3334433333332111112222222211100011 11222


Q ss_pred             HHhc-----CChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHH-----HHH
Q 006246          271 YTKD-----GYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTAL-----VDM  340 (654)
Q Consensus       271 ~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-----i~~  340 (654)
                      .++.     ..-+.|++++--+.+.  .|..  -..++-.+.+.++..+|..+.+.+..  ..|...+...+     ..-
T Consensus       259 l~rHNLVvFrngEgALqVLP~L~~~--IPEA--RlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe  332 (557)
T KOG3785|consen  259 LCRHNLVVFRNGEGALQVLPSLMKH--IPEA--RLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQE  332 (557)
T ss_pred             HHHcCeEEEeCCccHHHhchHHHhh--ChHh--hhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhh
Confidence            2222     2446677766555442  2321  12333446677777777666554321  11222222222     222


Q ss_pred             HHHcCCHHHHHHHHhhcCCC-----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHH
Q 006246          341 YAKCGRLDMAWKVFEDMKMK-----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDR  415 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~~-----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  415 (654)
                      ......+.-|.+.|+-....     ++.--.++.+.+.-..++++++-.+.....-=...|... ..+..+.+..|.+.+
T Consensus       333 ~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn-~N~AQAk~atgny~e  411 (557)
T KOG3785|consen  333 TGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFN-LNLAQAKLATGNYVE  411 (557)
T ss_pred             cCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhh-hHHHHHHHHhcChHH
Confidence            22223466677777765542     233456677777777788888888888776533334444 457888999999999


Q ss_pred             HHHHHHHHHHHcCCCCCcchH-HHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHH-HHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          416 GLQALTYMQQMYGIDPEVEHY-GCIVDLLGRAGYLAEAEEVISSMPMEPNAAVW-EALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       416 a~~~~~~~~~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      |.++|-.+... .++ +..+| ..|...|.++++.+-|.+++-++....+..+. ..+.+-|.+.+.+=-|-++|..+-.
T Consensus       412 aEelf~~is~~-~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~  489 (557)
T KOG3785|consen  412 AEELFIRISGP-EIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEI  489 (557)
T ss_pred             HHHHHhhhcCh-hhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHc
Confidence            99999877642 333 33445 44567889999999999999888644454444 4455679999999999999999988


Q ss_pred             cCCCCCCchH----HHHHHHHHHhcCCccCC
Q 006246          494 MEPQNRRCDD----VAKMRKLMKERGIKTNP  520 (654)
Q Consensus       494 ~~p~~~~~~~----a~~~~~~m~~~g~~~~~  520 (654)
                      ++|....|+.    ...++..+....-.|.|
T Consensus       490 lDP~pEnWeGKRGACaG~f~~l~~~~~~~~p  520 (557)
T KOG3785|consen  490 LDPTPENWEGKRGACAGLFRQLANHKTDPIP  520 (557)
T ss_pred             cCCCccccCCccchHHHHHHHHHcCCCCCCc
Confidence            9998887763    44466655544333333

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.02  E-value=1.4e-07  Score=93.71  Aligned_cols=217  Identities=15%  Similarity=0.024  Sum_probs=152.0

Q ss_pred             cCChHHHHHHHHHHHhCC-CCCC--cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHH
Q 006246          274 DGYYKEALEVFNEMQRDK-IKPR--KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMA  350 (654)
Q Consensus       274 ~g~~~~A~~~~~~m~~~g-~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A  350 (654)
                      .+..+.++.-+.+++... ..|+  ...|......+...|+.++|...|..+.+.. +.+...|+.+...|...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            345667777777777542 2222  2345666667788888888888888888765 44678889999999999999999


Q ss_pred             HHHHhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHc
Q 006246          351 WKVFEDMKM--K-EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMY  427 (654)
Q Consensus       351 ~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~  427 (654)
                      ...|++..+  | +..+|..+...+...|++++|++.|++..+.  .|+..........+...++.++|...|.....  
T Consensus       118 ~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--  193 (296)
T PRK11189        118 YEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--  193 (296)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--
Confidence            999998865  3 5678888999999999999999999999885  45443222222334556789999999977654  


Q ss_pred             CCCCCcchHHHHHHHHHHcCCHHH--HHHHHHhC-CC----CC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          428 GIDPEVEHYGCIVDLLGRAGYLAE--AEEVISSM-PM----EP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       428 g~~p~~~~~~~li~~~~~~g~~~~--A~~~~~~m-~~----~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      ...|+... ..++..  ..|+..+  +.+.+.+. ..    .| ....|..+...+...|++++|+..|+++++.+|.+
T Consensus       194 ~~~~~~~~-~~~~~~--~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~  269 (296)
T PRK11189        194 KLDKEQWG-WNIVEF--YLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYN  269 (296)
T ss_pred             hCCccccH-HHHHHH--HccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCch
Confidence            33444322 233333  3455433  33333221 11    12 34689999999999999999999999999999854

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.01  E-value=1e-07  Score=98.88  Aligned_cols=228  Identities=16%  Similarity=0.166  Sum_probs=134.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhcC----------CCCChh-hHHHHHHHHHHcCCHHHHHHHHHhcCC-------CC-
Q 006246          169 HVKSSGIQMYACFGCVNKARQILDDG----------SKSDVI-CWNALIDGYLKCGDIEGAKELFKSTKD-------KN-  229 (654)
Q Consensus       169 ~~~~~li~~y~~~g~~~~A~~~~~~~----------~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~-------~~-  229 (654)
                      .+...|..+|...|+++.|..+++..          ..+.+. ..+.+...|...+++++|..+|+++..       ++ 
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34445666677777777776666552          122222 233456677788888888888877753       22 


Q ss_pred             ---cchHHHHHHHHHhcCCHHHHHHHHHhcCC----------CCH-hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 006246          230 ---TGSYNAMISGFARFGRFEEARKLFNEMND----------KDE-ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPR  295 (654)
Q Consensus       230 ---~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  295 (654)
                         ..+++.|...|.+.|++++|...+++..+          +.+ ..++.++..+...+++++|..+++...+.     
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i-----  354 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKI-----  354 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH-----
Confidence               23567777788899998888877765432          111 13455555566666666666666543321     


Q ss_pred             cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----------CHHH
Q 006246          296 KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----------EVFT  364 (654)
Q Consensus       296 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----------~~~~  364 (654)
                                             +..........-..+++.|...|.+.|++++|+++|+++..+           .-..
T Consensus       355 -----------------------~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~  411 (508)
T KOG1840|consen  355 -----------------------YLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKP  411 (508)
T ss_pred             -----------------------HHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHH
Confidence                                   000000000112346677777777777777777777766531           1235


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhh----cCC-CCC-HHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQR----EKM-RPD-RITFACVLSACAHAGMIDRGLQALTYMQ  424 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~----~g~-~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~  424 (654)
                      .+.|...|.+.+++++|.++|.+...    .|. .|+ ..+|..|...|...|+++.|.++.+.+.
T Consensus       412 l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  412 LNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            66677777777777777777766432    221 122 2366777777777777777777766654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.97  E-value=2.6e-06  Score=89.23  Aligned_cols=412  Identities=12%  Similarity=0.092  Sum_probs=230.5

Q ss_pred             CCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcc-c
Q 006246           60 GHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK---PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKF-T  135 (654)
Q Consensus        60 g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t  135 (654)
                      .++.|+.+|..|.-+..+  +|+++.+.+.|++...   .....|+.+-..|...|....|+.+.+.-....-.|+.. .
T Consensus       318 ~~qnd~ai~d~Lt~al~~--~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~  395 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSR--CGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISV  395 (799)
T ss_pred             hhcchHHHHHHHHHHHHH--HHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchH
Confidence            356688999999999988  9999999999998653   334569999999999999999999988776543234333 3


Q ss_pred             HHHHHHHHh-ccCCcHHHHHHHHHHHHh--CCC--CChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 006246          136 YPTVFKACS-ITEADKEGVQVHAHVVKN--GLC--GDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYL  210 (654)
Q Consensus       136 ~~~ll~~~~-~~~~~~~a~~~~~~~~~~--g~~--~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~  210 (654)
                      +-..-+.|. +.+..+++...-.+++..  +..  ..+..+..+.-+|...-.              ....+.      .
T Consensus       396 ~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~--------------~a~~~s------e  455 (799)
T KOG4162|consen  396 LLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQAR--------------QANLKS------E  455 (799)
T ss_pred             HHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhh--------------cCCChH------H
Confidence            333333343 446667776666666652  111  122223333333321100              000000      0


Q ss_pred             HcCCHHHHHHHHHhcCCC---CcchHHHHHHHHHhcCCHHHHHHHHHhcCC----CCHhHHHHHHHHHHhcCChHHHHHH
Q 006246          211 KCGDIEGAKELFKSTKDK---NTGSYNAMISGFARFGRFEEARKLFNEMND----KDEITWSAIIDGYTKDGYYKEALEV  283 (654)
Q Consensus       211 ~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~  283 (654)
                      +.....++++.+++..+.   |+.+.-.+.--|+-.++++.|.+...+..+    .+...|..+.-.+...+++.+|+.+
T Consensus       456 R~~~h~kslqale~av~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~v  535 (799)
T KOG4162|consen  456 RDALHKKSLQALEEAVQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDV  535 (799)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHH
Confidence            111123344444444321   222222222234444555555554444332    2455555555555555555555555


Q ss_pred             HHHHHhCCCCCC-cchHHHHHHHHHhcCChhHHHHHHHHHHH---------------------cC-------CCCchhHH
Q 006246          284 FNEMQRDKIKPR-KFVLSCVLAACASLGALDQGIWIHDHVKR---------------------NS-------ICVDAVLG  334 (654)
Q Consensus       284 ~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~---------------------~~-------~~~~~~~~  334 (654)
                      .+.....  -|+ ......-+..-...++.+++......+..                     .|       ......++
T Consensus       536 vd~al~E--~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~s  613 (799)
T KOG4162|consen  536 VDAALEE--FGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTS  613 (799)
T ss_pred             HHHHHHH--hhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhh
Confidence            5544332  011 00000000000111222222211111110                     01       01112222


Q ss_pred             HHHHHHHHHcC---CHHHHHHHHhhcCCCC------HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 006246          335 TALVDMYAKCG---RLDMAWKVFEDMKMKE------VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLS  405 (654)
Q Consensus       335 ~~li~~y~~~g---~~~~A~~~~~~m~~~~------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  405 (654)
                      ..+.......+   ..+..+..+...+.++      ...|......+.+.++.++|...+.+..+.. +-....|.....
T Consensus       614 r~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~  692 (799)
T KOG4162|consen  614 RYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGL  692 (799)
T ss_pred             HHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhH
Confidence            22222211111   1111122222222232      2356677788888999999998888876642 224445555556


Q ss_pred             HHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHH--HHHhC-CCCC-CHHHHHHHHHHHHHhCC
Q 006246          406 ACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEE--VISSM-PMEP-NAAVWEALLGACRKHGE  480 (654)
Q Consensus       406 ~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~m-~~~p-~~~~~~~ll~~~~~~g~  480 (654)
                      .+...|..++|.+.|.....   +.|+ +..-.++..++.+.|+..-|..  ++..+ ..+| +...|-.++..+.+.|+
T Consensus       693 ~~~~~~~~~EA~~af~~Al~---ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd  769 (799)
T KOG4162|consen  693 LLEVKGQLEEAKEAFLVALA---LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGD  769 (799)
T ss_pred             HHHHHHhhHHHHHHHHHHHh---cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccc
Confidence            67788999999999988764   5666 5678899999999998877777  87777 5556 69999999999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCC
Q 006246          481 VEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       481 ~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+.|-..|+-++++++.++
T Consensus       770 ~~~Aaecf~aa~qLe~S~P  788 (799)
T KOG4162|consen  770 SKQAAECFQAALQLEESNP  788 (799)
T ss_pred             hHHHHHHHHHHHhhccCCC
Confidence            9999999999999998876

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.96  E-value=1.3e-06  Score=90.21  Aligned_cols=368  Identities=17%  Similarity=0.187  Sum_probs=206.2

Q ss_pred             CCCChHHHHHHHHHHHHh--------CCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCC
Q 006246           42 CHTSWQHLKQAHAVILKS--------GHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNE  113 (654)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~--------g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~  113 (654)
                      ..|+...++.+|+..--.        |-..+-+-..+++.+..+    ++.+|..+|-+  +.+   -..-|..|....+
T Consensus       502 ai~dvak~r~lhd~~eiadeas~~~ggdgt~fykvra~lail~k----kfk~ae~ifle--qn~---te~aigmy~~lhk  572 (1636)
T KOG3616|consen  502 AIGDVAKARFLHDILEIADEASIEIGGDGTDFYKVRAMLAILEK----KFKEAEMIFLE--QNA---TEEAIGMYQELHK  572 (1636)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhhCCCCchHHHHHHHHHHHHh----hhhHHHHHHHh--ccc---HHHHHHHHHHHHh
Confidence            345666666666543211        222233444455555544    57777777743  222   1234566666777


Q ss_pred             chHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhc
Q 006246          114 PWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDD  193 (654)
Q Consensus       114 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  193 (654)
                      +++|+.+-+.   .|.+.-...-.+.++++...|.-+.|-++-         .+.--..+.|..|.+.|....|.+....
T Consensus       573 wde~i~lae~---~~~p~~eklk~sy~q~l~dt~qd~ka~elk---------~sdgd~laaiqlyika~~p~~a~~~a~n  640 (1636)
T KOG3616|consen  573 WDEAIALAEA---KGHPALEKLKRSYLQALMDTGQDEKAAELK---------ESDGDGLAAIQLYIKAGKPAKAARAALN  640 (1636)
T ss_pred             HHHHHHHHHh---cCChHHHHHHHHHHHHHHhcCchhhhhhhc---------cccCccHHHHHHHHHcCCchHHHHhhcC
Confidence            8888776443   222211222233455555666655554321         1112234567888898888877665432


Q ss_pred             --CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcch--------H-------------------HHHHHHHHhcC
Q 006246          194 --GSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGS--------Y-------------------NAMISGFARFG  244 (654)
Q Consensus       194 --~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~--------~-------------------~~li~~~~~~g  244 (654)
                        -...|......+..++.+..-++.|-.+|+++..++...        |                   ......+...|
T Consensus       641 ~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~lee~wg~hl~~~~  720 (1636)
T KOG3616|consen  641 DEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLEEAWGDHLEQIG  720 (1636)
T ss_pred             HHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHHHHHhHHHHHHH
Confidence              244455555556666666666666666666655432110        0                   11122223344


Q ss_pred             CHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHH
Q 006246          245 RFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKR  324 (654)
Q Consensus       245 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  324 (654)
                      +++.|...|-+..     ..-..|.+-.....|.+|+.+++.++....  -..-|..+...|+..|+++.|.++|-+.  
T Consensus       721 q~daainhfiea~-----~~~kaieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~--  791 (1636)
T KOG3616|consen  721 QLDAAINHFIEAN-----CLIKAIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA--  791 (1636)
T ss_pred             hHHHHHHHHHHhh-----hHHHHHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc--
Confidence            4444444443321     112234455667788888888888776642  3345677778889999999998888653  


Q ss_pred             cCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC--CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHH
Q 006246          325 NSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK--EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFAC  402 (654)
Q Consensus       325 ~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~  402 (654)
                             ..++--|+||.+.|+|++|.++-++...|  .+..|-+-..-+-.+|++.+|.++|-...    .|+.     
T Consensus       792 -------~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----  855 (1636)
T KOG3616|consen  792 -------DLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----  855 (1636)
T ss_pred             -------chhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----
Confidence                   24456788999999999999888877665  34556666666777888888877764432    2333     


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          403 VLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       403 ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .|..|-+.|..+..+++.++--.    ..-..+...+..-|-..|++.+|++-|-+.
T Consensus       856 aiqmydk~~~~ddmirlv~k~h~----d~l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  856 AIQMYDKHGLDDDMIRLVEKHHG----DHLHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             HHHHHHhhCcchHHHHHHHHhCh----hhhhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence            34455666666665555443211    111223344445555566666666555444

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.93  E-value=2.4e-05  Score=80.63  Aligned_cols=440  Identities=12%  Similarity=0.078  Sum_probs=275.8

Q ss_pred             hhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC---CCcchHHHHHHHHHhCCCch
Q 006246           39 NTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK---PNVFVWNSVLRACLEHNEPW  115 (654)
Q Consensus        39 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~  115 (654)
                      -|-..+.+..+...-..+++. ++..+.+..-.--.+..  .|+-++|........+   ++-+.|..+.-.+-...+++
T Consensus        16 k~yE~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~--lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~   92 (700)
T KOG1156|consen   16 KCYETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNC--LGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYD   92 (700)
T ss_pred             HHHHHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhc--ccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHH
Confidence            466778888888888888873 33333333322222333  6889999988877664   45678999888888888999


Q ss_pred             HHHHHHHHhHhCCCCCCc-ccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC
Q 006246          116 RVISLYSEMVGVDSKPNK-FTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG  194 (654)
Q Consensus       116 ~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~  194 (654)
                      +|++.|+.....  .||. ..+.-+--.-++.++++.....-.+..+.. +.....|..++..+.-.|+...|..+++..
T Consensus        93 eaiKcy~nAl~~--~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef  169 (700)
T KOG1156|consen   93 EAIKCYRNALKI--EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEF  169 (700)
T ss_pred             HHHHHHHHHHhc--CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999875  4554 344444334467788888777777777653 344566888888888899999998887763


Q ss_pred             -----CCCChhhHHHHH------HHHHHcCCHHHHHHHHHhcCCC--C-cchHHHHHHHHHhcCCHHHHHHHHHhcCCC-
Q 006246          195 -----SKSDVICWNALI------DGYLKCGDIEGAKELFKSTKDK--N-TGSYNAMISGFARFGRFEEARKLFNEMNDK-  259 (654)
Q Consensus       195 -----~~~~~~~~~~li------~~~~~~g~~~~A~~~~~~m~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-  259 (654)
                           ..++...+.-..      ....+.|..++|++.+......  | ...-..-...+.+.+++++|..++..+..+ 
T Consensus       170 ~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn  249 (700)
T KOG1156|consen  170 EKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN  249 (700)
T ss_pred             HHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC
Confidence                 234444443322      3456788889998888766542  2 223345567788999999999999998864 


Q ss_pred             -CHhHHHHH-HHHHHhcCChHHHH-HHHHHHHhCCCCCCcch-HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHH
Q 006246          260 -DEITWSAI-IDGYTKDGYYKEAL-EVFNEMQRDKIKPRKFV-LSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGT  335 (654)
Q Consensus       260 -~~~~~~~l-i~~~~~~g~~~~A~-~~~~~m~~~g~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  335 (654)
                       |..-|+-. ..++.+-.+.-+++ .+|....+.  .|.... ...=++......-.+....++....+.|+++   ++.
T Consensus       250 Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~---vf~  324 (700)
T KOG1156|consen  250 PDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS---VFK  324 (700)
T ss_pred             chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--CcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc---hhh
Confidence             44444444 44443333444444 566555443  221111 1111111222222333445555666667554   344


Q ss_pred             HHHHHHHHcCCHHH----HHHHHhhcC--------------CCCHHHHH--HHHHHHHHcCChhHHHHHHHHHhhcCCCC
Q 006246          336 ALVDMYAKCGRLDM----AWKVFEDMK--------------MKEVFTWN--AMIGGLAMHGRADDAIELFFKMQREKMRP  395 (654)
Q Consensus       336 ~li~~y~~~g~~~~----A~~~~~~m~--------------~~~~~~~~--~li~~~~~~g~~~~A~~l~~~m~~~g~~p  395 (654)
                      .+...|-.-...+-    +..+...+.              .|....|.  -++..|-..|+++.|..+++.....  .|
T Consensus       325 dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TP  402 (700)
T KOG1156|consen  325 DLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TP  402 (700)
T ss_pred             hhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--Cc
Confidence            44444432111110    111111111              13444454  4677889999999999999998875  66


Q ss_pred             CHH-HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCC-CC--------H
Q 006246          396 DRI-TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPME-PN--------A  465 (654)
Q Consensus       396 ~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-p~--------~  465 (654)
                      +.+ -|..-...+.+.|++++|..+++...+.  -.||...-.--+.-..|+.+.++|.++.....-. .+        .
T Consensus       403 TliEly~~KaRI~kH~G~l~eAa~~l~ea~el--D~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mq  480 (700)
T KOG1156|consen  403 TLIELYLVKARIFKHAGLLDEAAAWLDEAQEL--DTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQ  480 (700)
T ss_pred             hHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc--cchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhh
Confidence            655 4555567899999999999999999872  3456554445566678999999999988776211 12        2


Q ss_pred             HHHHHH--HHHHHHhCChHHHHHHHHHHHh
Q 006246          466 AVWEAL--LGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       466 ~~~~~l--l~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      -.|-.+  ..+|.+.|++.+|.+=|..+-.
T Consensus       481 cmWf~~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  481 CMWFQLEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             hHHHhHhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            234433  3567888888887766655443

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.92  E-value=4.7e-08  Score=91.66  Aligned_cols=221  Identities=11%  Similarity=0.060  Sum_probs=130.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC--CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchH-HHHHHHHHhcC
Q 006246          234 NAMISGFARFGRFEEARKLFNEMND--KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVL-SCVLAACASLG  310 (654)
Q Consensus       234 ~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~-~~ll~~~~~~g  310 (654)
                      +.+..+|.+.|.+.+|++.|+...+  +-+.+|-.+-..|.+..+++.|+.+|.+-++.  .|-.+|| ..+...+...+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHH
Confidence            4555666666666666666655442  34555666666666666666666666665543  3433333 23444555566


Q ss_pred             ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 006246          311 ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFK  387 (654)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~  387 (654)
                      +.+.+.++|+.+.+.. +.++....++...|.-.++++.|+..|.++.+   .+...|+.+.-+|.-.++++-++--|++
T Consensus       305 ~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~R  383 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQR  383 (478)
T ss_pred             hHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHHH
Confidence            6666666666666543 23344444455555556666666666665544   3555666666666666667777766666


Q ss_pred             HhhcCCCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          388 MQREKMRPDRI--TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       388 m~~~g~~p~~~--t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+..--.|+..  .|..+-......|++..|.+.|+....  .-....+.++.|.-.-.+.|++++|..+++..
T Consensus       384 Alstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~--~d~~h~ealnNLavL~~r~G~i~~Arsll~~A  455 (478)
T KOG1129|consen  384 ALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALT--SDAQHGEALNNLAVLAARSGDILGARSLLNAA  455 (478)
T ss_pred             HHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhc--cCcchHHHHHhHHHHHhhcCchHHHHHHHHHh
Confidence            66544344432  455565566666777777777776654  22333556666666667777777777777665

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.87  E-value=2e-07  Score=91.28  Aligned_cols=260  Identities=12%  Similarity=0.090  Sum_probs=170.4

Q ss_pred             HhcCCHHHHHHHHHhcCCC----CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHH
Q 006246          241 ARFGRFEEARKLFNEMNDK----DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGI  316 (654)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  316 (654)
                      .-.|++..+..-.+ ....    +.....-+.+++...|+++.++   .+..... .|.......+...+....+-+.+.
T Consensus        12 fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l   86 (290)
T PF04733_consen   12 FYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESAL   86 (290)
T ss_dssp             HCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHH
T ss_pred             HHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHH
Confidence            34566776665444 2111    2334556677788888876544   3333333 566655555554444434444444


Q ss_pred             HHHHHHHHcCCC-CchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC
Q 006246          317 WIHDHVKRNSIC-VDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP  395 (654)
Q Consensus       317 ~~~~~~~~~~~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  395 (654)
                      .-+......... .+..+......+|...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+.  . 
T Consensus        87 ~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~-  161 (290)
T PF04733_consen   87 EELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--D-  161 (290)
T ss_dssp             HHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--S-
T ss_pred             HHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C-
Confidence            444333322222 23344444456677889999999998876  56666777888999999999999999999875  3 


Q ss_pred             CHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHH
Q 006246          396 DRITFACVLSACAH----AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWE  469 (654)
Q Consensus       396 ~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~  469 (654)
                      +..+...+..++..    .+.+.+|..+|+++.+  ...+++.+.+.+..+....|++++|.+++++. ...| |+.++.
T Consensus       162 eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~La  239 (290)
T PF04733_consen  162 EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLA  239 (290)
T ss_dssp             CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHH
Confidence            33445555555433    3468999999999876  45677888899999999999999999999876 3334 577788


Q ss_pred             HHHHHHHHhCCh-HHHHHHHHHHHhcCCCCC---CchHHHHHHHHHH
Q 006246          470 ALLGACRKHGEV-EFGERLGKILLEMEPQNR---RCDDVAKMRKLMK  512 (654)
Q Consensus       470 ~ll~~~~~~g~~-~~a~~~~~~~~~~~p~~~---~~~~a~~~~~~m~  512 (654)
                      .++......|+. +.+.+..+++....|+++   .+.+....|+...
T Consensus       240 Nliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~~~~~~~~~~FD~~~  286 (290)
T PF04733_consen  240 NLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLVKDLAEKEAEFDRAV  286 (290)
T ss_dssp             HHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHH
Confidence            888888888887 778899999999999987   5555555665543

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.81  E-value=5.7e-06  Score=87.14  Aligned_cols=277  Identities=17%  Similarity=0.203  Sum_probs=163.3

Q ss_pred             HHHcCCHHHHHHHHHhcCC--CC-cchHHHHHHHHHhcCCHHHHHHHHHhcCCC--C-HhHHHHHHHHHHhc-----CCh
Q 006246          209 YLKCGDIEGAKELFKSTKD--KN-TGSYNAMISGFARFGRFEEARKLFNEMNDK--D-EITWSAIIDGYTKD-----GYY  277 (654)
Q Consensus       209 ~~~~g~~~~A~~~~~~m~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~-~~~~~~li~~~~~~-----g~~  277 (654)
                      +...|++++|++.++.-..  .| ..........+.+.|+.++|..++..+.++  + ..-|..+..+....     ...
T Consensus        14 l~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~~~   93 (517)
T PF12569_consen   14 LEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSDEDV   93 (517)
T ss_pred             HHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccccccH
Confidence            3555666666666655433  22 223344555666666666666666666543  2 22233333333111     234


Q ss_pred             HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh-hHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhh
Q 006246          278 KEALEVFNEMQRDKIKPRKFVLSCVLAACASLGAL-DQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFED  356 (654)
Q Consensus       278 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  356 (654)
                      +...++|+++...-  |.......+.-.+.....+ ..+...+....+.|+++   +++.|-..|....+.+-..+++..
T Consensus        94 ~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~  168 (517)
T PF12569_consen   94 EKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEE  168 (517)
T ss_pred             HHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHH
Confidence            55566666665442  3322222221111111112 23334444555556432   455555555544443333334333


Q ss_pred             cC------------------CCCHHHH--HHHHHHHHHcCChhHHHHHHHHHhhcCCCCC-HHHHHHHHHHHHccCCHHH
Q 006246          357 MK------------------MKEVFTW--NAMIGGLAMHGRADDAIELFFKMQREKMRPD-RITFACVLSACAHAGMIDR  415 (654)
Q Consensus       357 m~------------------~~~~~~~--~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~  415 (654)
                      ..                  .|....|  .-+...|-..|++++|+++.++.++.  .|+ ...|..-...+-+.|++++
T Consensus       169 ~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~  246 (517)
T PF12569_consen  169 YVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKE  246 (517)
T ss_pred             HHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHH
Confidence            21                  1223334  55677788899999999999999886  565 4477777888999999999


Q ss_pred             HHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCC---CC--C----HHHH--HHHHHHHHHhCChHHH
Q 006246          416 GLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPM---EP--N----AAVW--EALLGACRKHGEVEFG  484 (654)
Q Consensus       416 a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~p--~----~~~~--~~ll~~~~~~g~~~~a  484 (654)
                      |.+.++..+.-  -.-|...-+..+..+.|+|++++|.+++....-   .|  |    ...|  .....+|.+.|++..|
T Consensus       247 Aa~~~~~Ar~L--D~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~A  324 (517)
T PF12569_consen  247 AAEAMDEAREL--DLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLA  324 (517)
T ss_pred             HHHHHHHHHhC--ChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            99999998862  234455556667788899999999998887731   12  1    2244  4566789999999999


Q ss_pred             HHHHHHHHhc
Q 006246          485 ERLGKILLEM  494 (654)
Q Consensus       485 ~~~~~~~~~~  494 (654)
                      ++-|..+.+.
T Consensus       325 Lk~~~~v~k~  334 (517)
T PF12569_consen  325 LKRFHAVLKH  334 (517)
T ss_pred             HHHHHHHHHH
Confidence            9988887773

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.81  E-value=2.2e-06  Score=77.19  Aligned_cols=191  Identities=15%  Similarity=0.066  Sum_probs=107.3

Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHH
Q 006246          305 ACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDA  381 (654)
Q Consensus       305 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A  381 (654)
                      .|...|+...|+.-++++++.. +.+..++..+...|.+.|+.+.|.+-|++..+   .+-...|....-+|..|++++|
T Consensus        44 ~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA  122 (250)
T COG3063          44 GYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEA  122 (250)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHH
Confidence            3444444444444444444433 22344455555555666666666666555443   2444555555556666666666


Q ss_pred             HHHHHHHhhcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-
Q 006246          382 IELFFKMQREKMRP-DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-  459 (654)
Q Consensus       382 ~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-  459 (654)
                      ...|++....-.-| -..||..+.-+..+.|+.+.|..+|++..+.  .+-.......+.....+.|++..|..+++.. 
T Consensus       123 ~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~  200 (250)
T COG3063         123 MQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPARLYLERYQ  200 (250)
T ss_pred             HHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            66666665532111 2235666666666666666666666666552  1222344555666666677777777666655 


Q ss_pred             -CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          460 -PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       460 -~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                       ...++..+.-..+..-...||.+.+-+.-.++....|..
T Consensus       201 ~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s  240 (250)
T COG3063         201 QRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYS  240 (250)
T ss_pred             hcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCc
Confidence             233556655556666667777777776666666666664

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.80  E-value=8.7e-06  Score=77.28  Aligned_cols=317  Identities=15%  Similarity=0.131  Sum_probs=192.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHH---HHHHcCCHHHHHHHHHhcCCCCcchHHHH---HHHHHhcCCH
Q 006246          173 SGIQMYACFGCVNKARQILDDGSKSDVICWNALID---GYLKCGDIEGAKELFKSTKDKNTGSYNAM---ISGFARFGRF  246 (654)
Q Consensus       173 ~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~---~~~~~g~~~~A~~~~~~m~~~~~~~~~~l---i~~~~~~g~~  246 (654)
                      -+-..+...|++.+|..-|......|+..|.++.+   .|...|+...|+.-|....+..+..+.+-   ...+.+.|.+
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gel  122 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGEL  122 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccH
Confidence            34455555666666666666665555555555433   45555555555555555544222222221   2234555555


Q ss_pred             HHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 006246          247 EEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNS  326 (654)
Q Consensus       247 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~  326 (654)
                      +.|..-|+.+.+.++.- +....++.+.-       +.+++         ......+..+...|+...++.....+++..
T Consensus       123 e~A~~DF~~vl~~~~s~-~~~~eaqskl~-------~~~e~---------~~l~~ql~s~~~~GD~~~ai~~i~~llEi~  185 (504)
T KOG0624|consen  123 EQAEADFDQVLQHEPSN-GLVLEAQSKLA-------LIQEH---------WVLVQQLKSASGSGDCQNAIEMITHLLEIQ  185 (504)
T ss_pred             HHHHHHHHHHHhcCCCc-chhHHHHHHHH-------hHHHH---------HHHHHHHHHHhcCCchhhHHHHHHHHHhcC
Confidence            65555555554322100 00001111100       00111         112233444556778888888888887764


Q ss_pred             CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHH----
Q 006246          327 ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK---MKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT----  399 (654)
Q Consensus       327 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t----  399 (654)
                       +.|+..+..-..+|...|++..|+.=+....   ..+....--+-..+...|+.+.++...++-++.  .||...    
T Consensus       186 -~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~  262 (504)
T KOG0624|consen  186 -PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPF  262 (504)
T ss_pred             -cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHH
Confidence             5678888888888888888888876655443   346666666777778888888888888887764  566542    


Q ss_pred             HHHH---H------HHHHccCCHHHHHHHHHHHHHHcCCCCC-----cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC
Q 006246          400 FACV---L------SACAHAGMIDRGLQALTYMQQMYGIDPE-----VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN  464 (654)
Q Consensus       400 ~~~l---l------~~~~~~g~~~~a~~~~~~~~~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~  464 (654)
                      |-.|   .      ......+.|.++.+..+...+.   .|.     ...+..+-..+...|++.+|++...+. .+.||
T Consensus       263 YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~  339 (504)
T KOG0624|consen  263 YKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPD  339 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCch
Confidence            1111   1      1223456677777777776653   444     223445556677889999999998876 56665


Q ss_pred             -HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHH
Q 006246          465 -AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMK  512 (654)
Q Consensus       465 -~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~  512 (654)
                       +.++.--..+|....+++.|+.-|+++.+.+|++.+-.+..+--+.++
T Consensus       340 dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reGle~Akrlk  388 (504)
T KOG0624|consen  340 DVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREGLERAKRLK  388 (504)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHH
Confidence             888888889999999999999999999999999985444444333333

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.76  E-value=1.8e-06  Score=85.82  Aligned_cols=194  Identities=14%  Similarity=0.035  Sum_probs=106.8

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC--C-CHhHHHHHHHHHHhc
Q 006246          201 CWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND--K-DEITWSAIIDGYTKD  274 (654)
Q Consensus       201 ~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~  274 (654)
                      .|..+...|...|+.++|...|++..+   .+...|+.+...|...|++++|...|++..+  | +..+|..+...+...
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~  145 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYG  145 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC
Confidence            344455555666666666666665544   2345666666666666777777766766643  2 355666677777777


Q ss_pred             CChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHH--HH
Q 006246          275 GYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMA--WK  352 (654)
Q Consensus       275 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A--~~  352 (654)
                      |++++|++.|++..+.  .|+..........+...++.++|...+....... .++... ..+...+  .|+...+  .+
T Consensus       146 g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~-~~~~~~~--lg~~~~~~~~~  219 (296)
T PRK11189        146 GRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWG-WNIVEFY--LGKISEETLME  219 (296)
T ss_pred             CCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccH-HHHHHHH--ccCCCHHHHHH
Confidence            7777777777777664  3433221222222334556777777775544322 222221 1222222  3433322  22


Q ss_pred             HHhhcCC-------CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHH
Q 006246          353 VFEDMKM-------KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFA  401 (654)
Q Consensus       353 ~~~~m~~-------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~  401 (654)
                      .+.+-..       +...+|..+...+.+.|++++|+..|++..+.+ +||.+-+.
T Consensus       220 ~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e~~  274 (296)
T PRK11189        220 RLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVEHR  274 (296)
T ss_pred             HHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHHHH
Confidence            2221111       123467777778888888888888888877653 23444333

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=98.76  E-value=1.4e-05  Score=84.28  Aligned_cols=278  Identities=13%  Similarity=0.093  Sum_probs=156.5

Q ss_pred             HHHhcCCHHHHHHHHhcC--CCCCh-hhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCcch-HHHHHHHHHhc-----CC
Q 006246          177 MYACFGCVNKARQILDDG--SKSDV-ICWNALIDGYLKCGDIEGAKELFKSTKD--KNTGS-YNAMISGFARF-----GR  245 (654)
Q Consensus       177 ~y~~~g~~~~A~~~~~~~--~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~~~-~~~li~~~~~~-----g~  245 (654)
                      .+...|++++|.+.+++.  .-.|. .........+.+.|+.++|..+|..+.+  |+... |..+..+..-.     .+
T Consensus        13 il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~~   92 (517)
T PF12569_consen   13 ILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSDED   92 (517)
T ss_pred             HHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhccccccc
Confidence            345566666666666553  11232 2334455566677777777777777765  33333 33333333111     24


Q ss_pred             HHHHHHHHHhcCCCCH--hHHHHHHHHHHhcCCh-HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHH
Q 006246          246 FEEARKLFNEMNDKDE--ITWSAIIDGYTKDGYY-KEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV  322 (654)
Q Consensus       246 ~~~A~~~~~~~~~~~~--~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  322 (654)
                      .+...++++++....+  ...-.+.-.+.....+ ..+...+..+...|+++   +|+.+-..|.......-..+++...
T Consensus        93 ~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~~  169 (517)
T PF12569_consen   93 VEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEEY  169 (517)
T ss_pred             HHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHHH
Confidence            5556666666543211  1111111111111122 23444556666677553   5555555555555444444554444


Q ss_pred             HHc----C----------CCCchh--HHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHH
Q 006246          323 KRN----S----------ICVDAV--LGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIE  383 (654)
Q Consensus       323 ~~~----~----------~~~~~~--~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~  383 (654)
                      ...    +          -+|...  ++.-+...|-..|++++|++++++....   .+..|..-...|-..|++.+|.+
T Consensus       170 ~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~  249 (517)
T PF12569_consen  170 VNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAE  249 (517)
T ss_pred             HHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            321    1          123332  3344566677788888888888877653   24567777777888888888888


Q ss_pred             HHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchH--------HHHHHHHHHcCCHHHHHHH
Q 006246          384 LFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHY--------GCIVDLLGRAGYLAEAEEV  455 (654)
Q Consensus       384 l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~--------~~li~~~~~~g~~~~A~~~  455 (654)
                      .++........ |...=+.....+.+.|++++|.+++....+. +..|....+        .....+|.|.|++..|++.
T Consensus       250 ~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~-~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~  327 (517)
T PF12569_consen  250 AMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTRE-DVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKR  327 (517)
T ss_pred             HHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCC-CCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            88888776533 6666666667777888888888888777653 433332222        2335677888888888876


Q ss_pred             HHhC
Q 006246          456 ISSM  459 (654)
Q Consensus       456 ~~~m  459 (654)
                      |...
T Consensus       328 ~~~v  331 (517)
T PF12569_consen  328 FHAV  331 (517)
T ss_pred             HHHH
Confidence            6654

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.76  E-value=5.7e-05  Score=79.48  Aligned_cols=334  Identities=15%  Similarity=0.083  Sum_probs=207.0

Q ss_pred             hCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCC--c--c-hH
Q 006246          162 NGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSK---SDVICWNALIDGYLKCGDIEGAKELFKSTKDKN--T--G-SY  233 (654)
Q Consensus       162 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~--~-~~  233 (654)
                      ..+..|..+|..|.-....+|+++.+.+.|++..+   .....|+.+...|...|.-..|+.+++.-..+.  +  . .+
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            34567888999999999999999999999998633   456789999999999999999999998876532  3  2 22


Q ss_pred             HHHHHHH-HhcCCHHHHHHHHHhcCC--------CCHhHHHHHHHHHHhc-----------CChHHHHHHHHHHHhCC-C
Q 006246          234 NAMISGF-ARFGRFEEARKLFNEMND--------KDEITWSAIIDGYTKD-----------GYYKEALEVFNEMQRDK-I  292 (654)
Q Consensus       234 ~~li~~~-~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~-----------g~~~~A~~~~~~m~~~g-~  292 (654)
                      -..-..| -+.+.++++...-.++..        .....|-.+.-+|...           -...++++.+++..+.+ -
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            2222222 234566666655554432        1344555555554332           12457788888887754 2


Q ss_pred             CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC--C---------
Q 006246          293 KPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK--E---------  361 (654)
Q Consensus       293 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~--~---------  361 (654)
                      .|+...|  +---++..++++.|.+...+..+.+-..+...|..|.-.+...+++.+|+.+.+.....  +         
T Consensus       477 dp~~if~--lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~  554 (799)
T KOG4162|consen  477 DPLVIFY--LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKI  554 (799)
T ss_pred             CchHHHH--HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhh
Confidence            3333333  33346777899999999999999877788999999999999999999999888765431  0         


Q ss_pred             ------------HHHHHHHHHHHH------Hc-----------------CChhHHHHHHHHHhh--------cC------
Q 006246          362 ------------VFTWNAMIGGLA------MH-----------------GRADDAIELFFKMQR--------EK------  392 (654)
Q Consensus       362 ------------~~~~~~li~~~~------~~-----------------g~~~~A~~l~~~m~~--------~g------  392 (654)
                                  +.|...++...-      +.                 ++..+|.+..+++..        .|      
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp  634 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLP  634 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccC
Confidence                        111111211111      00                 111112211111110        00      


Q ss_pred             ---CC--CCH------HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-C
Q 006246          393 ---MR--PDR------ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-P  460 (654)
Q Consensus       393 ---~~--p~~------~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~  460 (654)
                         +.  |+.      ..|......+.+.+..++|...+.+....  ..-....|......+...|..+||.+.|... -
T Consensus       635 ~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~--~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~  712 (799)
T KOG4162|consen  635 SSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI--DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA  712 (799)
T ss_pred             cccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc--chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh
Confidence               11  111      11233344556666677776666666542  2233445555566677777777777777655 4


Q ss_pred             CCCC-HHHHHHHHHHHHHhCChHHHHH--HHHHHHhcCCCCC
Q 006246          461 MEPN-AAVWEALLGACRKHGEVEFGER--LGKILLEMEPQNR  499 (654)
Q Consensus       461 ~~p~-~~~~~~ll~~~~~~g~~~~a~~--~~~~~~~~~p~~~  499 (654)
                      ..|+ +.+..++...+.+.|+...|..  +...+++++|.+.
T Consensus       713 ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~  754 (799)
T KOG4162|consen  713 LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNH  754 (799)
T ss_pred             cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCH
Confidence            4554 5666777777777777777777  7777777777776

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.74  E-value=5.7e-05  Score=79.61  Aligned_cols=207  Identities=16%  Similarity=0.205  Sum_probs=108.0

Q ss_pred             HcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006246          211 KCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRD  290 (654)
Q Consensus       211 ~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  290 (654)
                      ..|+++.|+.+|....     -|-+++...|-.|+.++|-++-++-  .|......+...|-..|++.+|+.+|-+.+. 
T Consensus       924 S~GemdaAl~~Y~~A~-----D~fs~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa-  995 (1416)
T KOG3617|consen  924 SVGEMDAALSFYSSAK-----DYFSMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQA-  995 (1416)
T ss_pred             cccchHHHHHHHHHhh-----hhhhheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH-
Confidence            3455555555544332     2444444555556666665554442  3555666788888889999999988877643 


Q ss_pred             CCCCCcchHHHHHHHHHhcC---------------ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHh
Q 006246          291 KIKPRKFVLSCVLAACASLG---------------ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFE  355 (654)
Q Consensus       291 g~~p~~~t~~~ll~~~~~~g---------------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~  355 (654)
                              |...|..|-..+               +.-.|..+|++   .|.     -...-+..|-|.|.+.+|+++-=
T Consensus       996 --------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe---~g~-----~~~~AVmLYHkAGm~~kALelAF 1059 (1416)
T KOG3617|consen  996 --------FSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEE---LGG-----YAHKAVMLYHKAGMIGKALELAF 1059 (1416)
T ss_pred             --------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHH---cch-----hhhHHHHHHHhhcchHHHHHHHH
Confidence                    333333332222               12222222222   221     11233456777888777766532


Q ss_pred             hcCC--------------CCHHHHHHHHHHHHHcCChhHHHHHHHHHhh----------cC----------------CCC
Q 006246          356 DMKM--------------KEVFTWNAMIGGLAMHGRADDAIELFFKMQR----------EK----------------MRP  395 (654)
Q Consensus       356 ~m~~--------------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~----------~g----------------~~p  395 (654)
                      +-.+              .|+...+--..-|..+.++++|..++-...+          .|                -.|
T Consensus      1060 ~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~ 1139 (1416)
T KOG3617|consen 1060 RTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMP 1139 (1416)
T ss_pred             hhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCc
Confidence            2111              2444455555555666666666665433321          11                123


Q ss_pred             CHH----HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHH
Q 006246          396 DRI----TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAE  451 (654)
Q Consensus       396 ~~~----t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  451 (654)
                      +..    ....+...|.+.|.+..|-+-|.+.-.+          -.-+.++.+.|+.++
T Consensus      1140 ~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQAGdK----------l~AMraLLKSGdt~K 1189 (1416)
T KOG3617|consen 1140 NEQERKQVLEQVAELCLQQGAYHAATKKFTQAGDK----------LSAMRALLKSGDTQK 1189 (1416)
T ss_pred             cHHHHHHHHHHHHHHHHhccchHHHHHHHhhhhhH----------HHHHHHHHhcCCcce
Confidence            333    3455566788888888777666654331          122455556665554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.73  E-value=0.00012  Score=70.11  Aligned_cols=388  Identities=9%  Similarity=0.037  Sum_probs=195.8

Q ss_pred             CCChHHHHHHHhcCCC------CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHH
Q 006246           80 FSNFELALKVFNSVHK------PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGV  153 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  153 (654)
                      ..++..|+.+++.-..      .++..|  +..++.+.|++++|+..|.-+.+.. .|+...+..+.-...-.|...+|+
T Consensus        35 ~rDytGAislLefk~~~~~EEE~~~~lW--ia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~  111 (557)
T KOG3785|consen   35 NRDYTGAISLLEFKLNLDREEEDSLQLW--IAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAK  111 (557)
T ss_pred             cccchhHHHHHHHhhccchhhhHHHHHH--HHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHH
Confidence            3567777777654331      122223  2334556677777777776666543 344444444443444455566665


Q ss_pred             HHHHHHHHhCCCCChhhHHH-HHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCc--
Q 006246          154 QVHAHVVKNGLCGDVHVKSS-GIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNT--  230 (654)
Q Consensus       154 ~~~~~~~~~g~~~~~~~~~~-li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--  230 (654)
                      ++-..      .|+....+. |...--+.++-++-...-+.+... ..---+|.+.....-.+.+|+++|++....+.  
T Consensus       112 ~~~~k------a~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey  184 (557)
T KOG3785|consen  112 SIAEK------APKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEY  184 (557)
T ss_pred             HHHhh------CCCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhh
Confidence            54433      233333332 333333444443333333322111 12222333333333445666666666554322  


Q ss_pred             chHHH-HHHHHHhcCCHHHHHHHHHhcCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHH
Q 006246          231 GSYNA-MISGFARFGRFEEARKLFNEMND--K-DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAAC  306 (654)
Q Consensus       231 ~~~~~-li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  306 (654)
                      ...|. +.-+|.+..-++-+.++++--..  | +.+.-|.......+.=....|.+-.+.+...+-..    |.. +.-.
T Consensus       185 ~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~~f-~~~l  259 (557)
T KOG3785|consen  185 IALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----YPF-IEYL  259 (557)
T ss_pred             hhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----chh-HHHH
Confidence            22222 22234455545544444433221  1 23344444443333323333333333333322111    111 1111


Q ss_pred             Hhc-----CChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCC----
Q 006246          307 ASL-----GALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGR----  377 (654)
Q Consensus       307 ~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~----  377 (654)
                      ++.     .+-+.|.+++--+.+.  -|  ..--.|+--|.+.+++++|..+.++....++.-|-.-...++..|+    
T Consensus       260 ~rHNLVvFrngEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gS  335 (557)
T KOG3785|consen  260 CRHNLVVFRNGEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGS  335 (557)
T ss_pred             HHcCeEEEeCCccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCc
Confidence            111     2234455544443332  12  2223456668899999999999998876555444333333444443    


Q ss_pred             ---hhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHH
Q 006246          378 ---ADDAIELFFKMQREKMRPDRI-TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       378 ---~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  453 (654)
                         ..-|.+.|+-.-..+..-|.+ --.++.+++--..++++.+-++..+.. +=...|... -.+..+++..|.+.+|+
T Consensus       336 reHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~s-YF~NdD~Fn-~N~AQAk~atgny~eaE  413 (557)
T KOG3785|consen  336 REHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIES-YFTNDDDFN-LNLAQAKLATGNYVEAE  413 (557)
T ss_pred             HHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcchhh-hHHHHHHHHhcChHHHH
Confidence               445566665554444443332 233445555556678999999999887 333344433 45789999999999999


Q ss_pred             HHHHhCC--CCCCHHHHHHHHH-HHHHhCChHHHHHHH
Q 006246          454 EVISSMP--MEPNAAVWEALLG-ACRKHGEVEFGERLG  488 (654)
Q Consensus       454 ~~~~~m~--~~p~~~~~~~ll~-~~~~~g~~~~a~~~~  488 (654)
                      ++|-...  .-.|..+|.+++. .|.++|.++.|-.++
T Consensus       414 elf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~  451 (557)
T KOG3785|consen  414 ELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMM  451 (557)
T ss_pred             HHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHH
Confidence            9998873  1136777776655 557778887775544

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.73  E-value=5.3e-05  Score=77.31  Aligned_cols=400  Identities=12%  Similarity=0.057  Sum_probs=210.5

Q ss_pred             hhcCCCChHHHHHHHHHHHHhCCCCchhHHHH--HHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchH
Q 006246           39 NTKCHTSWQHLKQAHAVILKSGHFQDHYVSGT--LVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWR  116 (654)
Q Consensus        39 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~--Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~  116 (654)
                      +....+.++.|..    +++....  ..+++.  +=.+|+..|.+..++|+..++...+-+..+-..-...+.+.|++++
T Consensus        55 alIq~~ky~~ALk----~ikk~~~--~~~~~~~~fEKAYc~Yrlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~yde  128 (652)
T KOG2376|consen   55 ALIQLDKYEDALK----LIKKNGA--LLVINSFFFEKAYCEYRLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDE  128 (652)
T ss_pred             hhhhhhHHHHHHH----HHHhcch--hhhcchhhHHHHHHHHHcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHH
Confidence            4455666776663    2332211  122222  4678887779999999999996665565566666677889999999


Q ss_pred             HHHHHHHhHhCCCCCCcccHHHHHHH-HhccCCcHHHHHHHHHHHHhCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHhc
Q 006246          117 VISLYSEMVGVDSKPNKFTYPTVFKA-CSITEADKEGVQVHAHVVKNGLCG--DVHVKSSGIQMYACFGCVNKARQILDD  193 (654)
Q Consensus       117 A~~~~~~m~~~g~~p~~~t~~~ll~~-~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~  193 (654)
                      |+++|+.+.+.+.. |   +...+.+ |...+....+.    .+......|  +-..+-.....++..|++.+|+++++.
T Consensus       129 aldiY~~L~kn~~d-d---~d~~~r~nl~a~~a~l~~~----~~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~k  200 (652)
T KOG2376|consen  129 ALDIYQHLAKNNSD-D---QDEERRANLLAVAAALQVQ----LLQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEK  200 (652)
T ss_pred             HHHHHHHHHhcCCc-h---HHHHHHHHHHHHHHhhhHH----HHHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            99999999876432 2   2222221 11111111111    122222222  222233345567788999999999876


Q ss_pred             C--------CCCChh----------hHHHHHHHHHHcCCHHHHHHHHHhcCCC---Ccch----HHHHHHHHHhcCCHH-
Q 006246          194 G--------SKSDVI----------CWNALIDGYLKCGDIEGAKELFKSTKDK---NTGS----YNAMISGFARFGRFE-  247 (654)
Q Consensus       194 ~--------~~~~~~----------~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~~----~~~li~~~~~~g~~~-  247 (654)
                      .        ...|..          .--.|.-.+...|+.++|..+|....+.   |...    -|.|+.+-....-++ 
T Consensus       201 A~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~D~~~~Av~~NNLva~~~d~~~~d~  280 (652)
T KOG2376|consen  201 ALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPADEPSLAVAVNNLVALSKDQNYFDG  280 (652)
T ss_pred             HHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCCCchHHHHHhcchhhhccccccCch
Confidence            4        221111          1123344567889999999999888753   3221    222222111111111 


Q ss_pred             HHHHHHHhcCCC---------------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc--C
Q 006246          248 EARKLFNEMNDK---------------DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASL--G  310 (654)
Q Consensus       248 ~A~~~~~~~~~~---------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~--g  310 (654)
                      .++..|+.....               ....-+.++..|..  .-+.+.++.....  +..| .+.+..++..+.+.  .
T Consensus       281 ~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tn--k~~q~r~~~a~lp--~~~p-~~~~~~ll~~~t~~~~~  355 (652)
T KOG2376|consen  281 DLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTN--KMDQVRELSASLP--GMSP-ESLFPILLQEATKVREK  355 (652)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhh--hHHHHHHHHHhCC--ccCc-hHHHHHHHHHHHHHHHH
Confidence            222233322211               11111222333322  2222222222111  1122 23344444443322  2


Q ss_pred             ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHh--------hcCC--CCHHHHHHHHHHHHHcCChhH
Q 006246          311 ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFE--------DMKM--KEVFTWNAMIGGLAMHGRADD  380 (654)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~--------~m~~--~~~~~~~~li~~~~~~g~~~~  380 (654)
                      ....+.+++....+........+.-.++......|+++.|.+++.        .+.+  ..+.+-.++...|.+.++.+.
T Consensus       356 ~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~~V~aiv~l~~~~~~~~~  435 (652)
T KOG2376|consen  356 KHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPGTVGAIVALYYKIKDNDS  435 (652)
T ss_pred             HHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChhHHHHHHHHHHhccCCcc
Confidence            355566666555554333334455556666777788888887777        3332  123344555566666666655


Q ss_pred             HHHHHHHHhhc--CCCCCHHH----HHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHH
Q 006246          381 AIELFFKMQRE--KMRPDRIT----FACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEE  454 (654)
Q Consensus       381 A~~l~~~m~~~--g~~p~~~t----~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  454 (654)
                      |..++.+....  .-.+....    +.-+...-.+.|+-++|...++++.+  -..+|..+...+|.+|++. +.+.|+.
T Consensus       436 a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k--~n~~d~~~l~~lV~a~~~~-d~eka~~  512 (652)
T KOG2376|consen  436 ASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVK--FNPNDTDLLVQLVTAYARL-DPEKAES  512 (652)
T ss_pred             HHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHH--hCCchHHHHHHHHHHHHhc-CHHHHHH
Confidence            66666555431  01112222    22233333456888888888888887  2467777888888888765 5677777


Q ss_pred             HHHhCC
Q 006246          455 VISSMP  460 (654)
Q Consensus       455 ~~~~m~  460 (654)
                      +-..++
T Consensus       513 l~k~L~  518 (652)
T KOG2376|consen  513 LSKKLP  518 (652)
T ss_pred             HhhcCC
Confidence            777764

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.72  E-value=3.7e-06  Score=75.74  Aligned_cols=192  Identities=15%  Similarity=0.012  Sum_probs=151.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYA  342 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~  342 (654)
                      ....+.-+|.+.|++..|..-+++.++.. +-+..++..+...|.+.|..+.|.+.|+.+.+.. +.+..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            45566778888888888888888888764 3345577777788888888888888888888765 446678888888899


Q ss_pred             HcCCHHHHHHHHhhcCC-C----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 006246          343 KCGRLDMAWKVFEDMKM-K----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGL  417 (654)
Q Consensus       343 ~~g~~~~A~~~~~~m~~-~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  417 (654)
                      ..|++++|.+.|++... |    -..+|..+.-+..+.|+.+.|.+.|++.++.. +-...+...+.......|++..|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            99999999999988765 3    34688888888899999999999999998863 224456777888888899999999


Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          418 QALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       418 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+++.....  ..++.++.-..|..-.+.|+-+.|-+.=..+
T Consensus       194 ~~~~~~~~~--~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         194 LYLERYQQR--GGAQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             HHHHHHHhc--ccccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            999998873  4488888877888888888888877654443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.68  E-value=1.6e-05  Score=74.09  Aligned_cols=304  Identities=11%  Similarity=0.040  Sum_probs=173.1

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHH-HHHHHHH
Q 006246          101 WNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKS-SGIQMYA  179 (654)
Q Consensus       101 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~y~  179 (654)
                      +++.+.-+.+..++..|++++..-.++. +.+...++.+-.+|-...++..|...++++-..-  |...-|. --...+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQSLY   89 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHHHH
Confidence            5666667777888888888887776653 2255666777777778888888888888876643  3222221 1122333


Q ss_pred             hcCCHHHHHHHHhcCCCC-ChhhHHHHHH--HHHHcCCHHHHHHHHHhcC-CCCcchHHHHHHHHHhcCCHHHHHHHHHh
Q 006246          180 CFGCVNKARQILDDGSKS-DVICWNALID--GYLKCGDIEGAKELFKSTK-DKNTGSYNAMISGFARFGRFEEARKLFNE  255 (654)
Q Consensus       180 ~~g~~~~A~~~~~~~~~~-~~~~~~~li~--~~~~~g~~~~A~~~~~~m~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~  255 (654)
                      +.+.+.+|.++...|... +...-..-+.  .....+++..+..++++.. +.+..+.+.......+.|+++.|.+-|+.
T Consensus        90 ~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqa  169 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQA  169 (459)
T ss_pred             HhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHH
Confidence            556667777776666442 1111111111  1234566666666666666 35555556666666666777777777766


Q ss_pred             cCCC----CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHH-----HHHHHHhcCChhHHHHHHHHHHHcC
Q 006246          256 MNDK----DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSC-----VLAACASLGALDQGIWIHDHVKRNS  326 (654)
Q Consensus       256 ~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-----ll~~~~~~g~~~~a~~~~~~~~~~~  326 (654)
                      ..+-    ....||..+. ..+.|+++.|+++..+..+.|++-.+. ++.     .+.    ...+..-..++...+   
T Consensus       170 AlqvsGyqpllAYniALa-Hy~~~qyasALk~iSEIieRG~r~HPE-lgIGm~tegiD----vrsvgNt~~lh~Sal---  240 (459)
T KOG4340|consen  170 ALQVSGYQPLLAYNLALA-HYSSRQYASALKHISEIIERGIRQHPE-LGIGMTTEGID----VRSVGNTLVLHQSAL---  240 (459)
T ss_pred             HHhhcCCCchhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhhcCCc-cCccceeccCc----hhcccchHHHHHHHH---
Confidence            6542    3445554443 334566677777777766666542211 000     000    000000001111000   


Q ss_pred             CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHH
Q 006246          327 ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFA  401 (654)
Q Consensus       327 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~  401 (654)
                          +..+|.-...+.+.|+.+.|.+.+-.|+.+     |++|...+.-.-. .+++.+..+-++-++.... -...||.
T Consensus       241 ----~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP-fP~ETFA  314 (459)
T KOG4340|consen  241 ----VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP-FPPETFA  314 (459)
T ss_pred             ----HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC-CChHHHH
Confidence                122333344567889999999999999864     6777665543322 3445555555555555432 3456899


Q ss_pred             HHHHHHHccCCHHHHHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTY  422 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~  422 (654)
                      .++-.||+..-++.|-.++.+
T Consensus       315 NlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  315 NLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHHHhhhHHHhHHHHHHhh
Confidence            999999999888887777653

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.68  E-value=0.00011  Score=77.55  Aligned_cols=259  Identities=13%  Similarity=0.104  Sum_probs=170.8

Q ss_pred             CchhHHHHHHH--hcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhC-C--------CCC
Q 006246           63 QDHYVSGTLVK--CHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGV-D--------SKP  131 (654)
Q Consensus        63 ~~~~~~~~Li~--~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g--------~~p  131 (654)
                      -|+.+--++++  .|..  -|+++.|.+-.+.+.  +-..|..|.+.+.+..+.+-|.-.+..|... |        -.|
T Consensus       724 Cd~~TRkaml~FSfyvt--iG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~  799 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVT--IGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNG  799 (1416)
T ss_pred             cCHHHHHhhhceeEEEE--eccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCC
Confidence            36667777765  5666  899999988777654  3456999999999999888888777776532 1        123


Q ss_pred             CcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCC-ChhhHHHHHHHHH
Q 006246          132 NKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKS-DVICWNALIDGYL  210 (654)
Q Consensus       132 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~  210 (654)
                      + .+=..+.-.....|.+++|+.++.+-.+..         .|=..|-..|.+++|.++-+.-..- =..||..-..-+-
T Consensus       800 ~-e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Le  869 (1416)
T KOG3617|consen  800 E-EDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLE  869 (1416)
T ss_pred             c-chhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHH
Confidence            2 222222222457889999999999987743         3445677889999999887654222 2335666666667


Q ss_pred             HcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006246          211 KCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRD  290 (654)
Q Consensus       211 ~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  290 (654)
                      ..++.+.|++.|++...+--.++..|.      .++.......+++.++  ..|.....-+-..|+.+.|+.+|..... 
T Consensus       870 ar~Di~~AleyyEK~~~hafev~rmL~------e~p~~~e~Yv~~~~d~--~L~~WWgqYlES~GemdaAl~~Y~~A~D-  940 (1416)
T KOG3617|consen  870 ARRDIEAALEYYEKAGVHAFEVFRMLK------EYPKQIEQYVRRKRDE--SLYSWWGQYLESVGEMDAALSFYSSAKD-  940 (1416)
T ss_pred             hhccHHHHHHHHHhcCChHHHHHHHHH------hChHHHHHHHHhccch--HHHHHHHHHHhcccchHHHHHHHHHhhh-
Confidence            788899999999887655444443332      2333334444444443  4455555556667888888888876653 


Q ss_pred             CCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          291 KIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       291 g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                              |-+++...|-.|+.++|-++-++-      .|....-.|..+|-..|++.+|..+|.+..
T Consensus       941 --------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  941 --------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             --------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence                    334555566777888777765542      244555567888888888888888877654

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.68  E-value=3.2e-05  Score=79.66  Aligned_cols=192  Identities=13%  Similarity=0.040  Sum_probs=106.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----C--HHHHHHHHHHHH
Q 006246          301 CVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----E--VFTWNAMIGGLA  373 (654)
Q Consensus       301 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----~--~~~~~~li~~~~  373 (654)
                      .+...+...|++++|.+.++...+.. +.+...+..+...|...|++++|...+++....     +  ...|..+...+.
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~  197 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYL  197 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHH
Confidence            33445666777777777777777655 334556667777777777777777777765541     1  123556677777


Q ss_pred             HcCChhHHHHHHHHHhhcCC-CCCHHHH-H--HHHHHHHccCCHHHHHHH--HHHHHHHcCCCCCcchHH--HHHHHHHH
Q 006246          374 MHGRADDAIELFFKMQREKM-RPDRITF-A--CVLSACAHAGMIDRGLQA--LTYMQQMYGIDPEVEHYG--CIVDLLGR  445 (654)
Q Consensus       374 ~~g~~~~A~~l~~~m~~~g~-~p~~~t~-~--~ll~~~~~~g~~~~a~~~--~~~~~~~~g~~p~~~~~~--~li~~~~~  445 (654)
                      ..|++++|+.+|++...... .+..... +  .++.-+...|..+.+.++  ....... ........+.  ..+.++..
T Consensus       198 ~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~  276 (355)
T cd05804         198 ERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAW-HFPDHGLAFNDLHAALALAG  276 (355)
T ss_pred             HCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHh-hcCcccchHHHHHHHHHHhc
Confidence            78888888888887754321 1111111 1  223333334433332222  1111111 1111111122  45556677


Q ss_pred             cCCHHHHHHHHHhCC--CCC---C------HHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          446 AGYLAEAEEVISSMP--MEP---N------AAVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       446 ~g~~~~A~~~~~~m~--~~p---~------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      .|+.++|..+++.+.  ...   .      ....-...-++...|+.+.|.+.+..++.+
T Consensus       277 ~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         277 AGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            888888888887762  111   1      222223334456888999998888877653

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.67  E-value=1.7e-05  Score=77.17  Aligned_cols=263  Identities=15%  Similarity=0.069  Sum_probs=178.6

Q ss_pred             CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHH---HHHHHhcCCHHHHHHHHHhcCCC---CHhHHHHHH
Q 006246          195 SKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAM---ISGFARFGRFEEARKLFNEMNDK---DEITWSAII  268 (654)
Q Consensus       195 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li  268 (654)
                      .+.|+.....+...+...|+.++|+..|++...-|+.+..+|   .-.+.+.|+.+....+...+-..   ....|-.-.
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~~~ta~~wfV~~  307 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKVKYTASHWFVHA  307 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhhhcchhhhhhhh
Confidence            444666666777777777777777777777665555443332   22345667777666666655433   234455555


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHH
Q 006246          269 DGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLD  348 (654)
Q Consensus       269 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~  348 (654)
                      .......+++.|+.+-++.++.+ +-+...|-.-..++...++.++|.-.|..+.... +.+...|.-|+..|...|++.
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHH
Confidence            55666778888888887777653 2233445444566778888888888888777654 457788889999999999988


Q ss_pred             HHHHHHhhcCC---CCHHHHHHHH-HHH-HHcCChhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHH
Q 006246          349 MAWKVFEDMKM---KEVFTWNAMI-GGL-AMHGRADDAIELFFKMQREKMRPDRI-TFACVLSACAHAGMIDRGLQALTY  422 (654)
Q Consensus       349 ~A~~~~~~m~~---~~~~~~~~li-~~~-~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~  422 (654)
                      +|.-.-+....   .+..+.+.+. ..+ -.-.--++|..++++.+.  +.|+.. ..+.+...|...|..+.++.++++
T Consensus       386 EA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~  463 (564)
T KOG1174|consen  386 EANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIKLLEK  463 (564)
T ss_pred             HHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHHHHHH
Confidence            87655443221   1222322221 111 111224788888888776  467665 566777889999999999999999


Q ss_pred             HHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC
Q 006246          423 MQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN  464 (654)
Q Consensus       423 ~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~  464 (654)
                      ...   ..||....+.|.+.+...+.+.+|.+.|... ...|+
T Consensus       464 ~L~---~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  464 HLI---IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHh---hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            876   4799999999999999999999999998876 45554

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.66  E-value=0.00025  Score=73.42  Aligned_cols=416  Identities=11%  Similarity=0.059  Sum_probs=245.9

Q ss_pred             HHHHHHHhcccccCCChHHHHHHHhcCCC-----CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHH
Q 006246           67 VSGTLVKCHANSRFSNFELALKVFNSVHK-----PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFK  141 (654)
Q Consensus        67 ~~~~Li~~y~~~~~g~~~~A~~~f~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  141 (654)
                      .+-..+..|-.   +++..-+++.+.+.+     ++..+.-  .-.+...|+-++|.+..+.-.... .-+.+.|..+--
T Consensus        10 lF~~~lk~yE~---kQYkkgLK~~~~iL~k~~eHgeslAmk--GL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl   83 (700)
T KOG1156|consen   10 LFRRALKCYET---KQYKKGLKLIKQILKKFPEHGESLAMK--GLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGL   83 (700)
T ss_pred             HHHHHHHHHHH---HHHHhHHHHHHHHHHhCCccchhHHhc--cchhhcccchHHHHHHHHHHhccC-cccchhHHHHHH
Confidence            34445555543   444444444444332     3332221  112445688899998888776643 235667776666


Q ss_pred             HHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhc---CCCCChhhHHHHHHHHHHcCCHHHH
Q 006246          142 ACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDD---GSKSDVICWNALIDGYLKCGDIEGA  218 (654)
Q Consensus       142 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A  218 (654)
                      .+....+.++|...+..+++.+ +.|...+.-|.-.=+..|+++.....-..   ..+.....|...+.++.-.|+...|
T Consensus        84 ~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A  162 (700)
T KOG1156|consen   84 LQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMA  162 (700)
T ss_pred             HHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence            6667788999999999998876 45556666555555556666555443333   4556778899999999999999999


Q ss_pred             HHHHHhcCC-----CCcchHHHH------HHHHHhcCCHHHHHHHHHhcCCC--C-HhHHHHHHHHHHhcCChHHHHHHH
Q 006246          219 KELFKSTKD-----KNTGSYNAM------ISGFARFGRFEEARKLFNEMNDK--D-EITWSAIIDGYTKDGYYKEALEVF  284 (654)
Q Consensus       219 ~~~~~~m~~-----~~~~~~~~l------i~~~~~~g~~~~A~~~~~~~~~~--~-~~~~~~li~~~~~~g~~~~A~~~~  284 (654)
                      ..+++...+     ++...+...      .....+.|..++|.+.+......  | ...-......+.+.+++++|..++
T Consensus       163 ~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y  242 (700)
T KOG1156|consen  163 LEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVY  242 (700)
T ss_pred             HHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHH
Confidence            998877654     444444332      23446778888888887766543  2 223445567788899999999999


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHH-hc-CChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH
Q 006246          285 NEMQRDKIKPRKFVLSCVLAACA-SL-GALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV  362 (654)
Q Consensus       285 ~~m~~~g~~p~~~t~~~ll~~~~-~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~  362 (654)
                      ..++..  .||..-|...+..+. +. +..+....+|....+.-........ .=++...-..-.+..-+++..+.++.+
T Consensus       243 ~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~R-lplsvl~~eel~~~vdkyL~~~l~Kg~  319 (700)
T KOG1156|consen  243 RRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRR-LPLSVLNGEELKEIVDKYLRPLLSKGV  319 (700)
T ss_pred             HHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchh-ccHHHhCcchhHHHHHHHHHHHhhcCC
Confidence            999887  577777766665544 23 3333333555555432111000000 000000001112222223333333221


Q ss_pred             -HHHHHHHHHHHHcCChhH----HHHHHHHHhhcC----------CCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          363 -FTWNAMIGGLAMHGRADD----AIELFFKMQREK----------MRPDRI--TFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       363 -~~~~~li~~~~~~g~~~~----A~~l~~~m~~~g----------~~p~~~--t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                       .++..+.+.|-.-...+-    +..+...+...|          -+|...  |+..+...+-+.|+++.|..+++....
T Consensus       320 p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId  399 (700)
T KOG1156|consen  320 PSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID  399 (700)
T ss_pred             CchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc
Confidence             233333333322221111    111111111111          144444  455667788899999999999998875


Q ss_pred             HcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          426 MYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSMP--MEPNAAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       426 ~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                         -.|+ ++.|..=..++...|.+++|..++++..  ..||..+-.--..-..+..+.++|.+++.+...-+
T Consensus       400 ---HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~  469 (700)
T KOG1156|consen  400 ---HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREG  469 (700)
T ss_pred             ---cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcc
Confidence               3455 5566666788899999999999999873  33566555556666778889999988887776543

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.65  E-value=3.7e-06  Score=82.43  Aligned_cols=211  Identities=16%  Similarity=0.104  Sum_probs=96.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-C----CcchHHHHHHHHHhcCCHHH
Q 006246          174 GIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD-K----NTGSYNAMISGFARFGRFEE  248 (654)
Q Consensus       174 li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~----~~~~~~~li~~~~~~g~~~~  248 (654)
                      +.+.|...|+.+.+..-......|.......+...+...++-+.++.-+++... +    +.........++...|++++
T Consensus        41 ~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~  120 (290)
T PF04733_consen   41 QYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEE  120 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHH
T ss_pred             HHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHH
Confidence            444455555555444444443444444433333333222344444444444332 1    11122222234455666676


Q ss_pred             HHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCChhHHHHHHHHHHH
Q 006246          249 ARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACAS----LGALDQGIWIHDHVKR  324 (654)
Q Consensus       249 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~  324 (654)
                      |++++...  .+.......+..|.+.++++.|.+.++.|.+.+   +..+...+..++..    ...+..|..+|+++..
T Consensus       121 AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~  195 (290)
T PF04733_consen  121 ALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSD  195 (290)
T ss_dssp             HHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC
T ss_pred             HHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh
Confidence            66666554  345555566667777777777777777776542   33444444444322    1235555555555433


Q ss_pred             cCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCCh-hHHHHHHHHHhh
Q 006246          325 NSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRA-DDAIELFFKMQR  390 (654)
Q Consensus       325 ~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~-~~A~~l~~~m~~  390 (654)
                      . +.+++.+.|.+..++...|++++|.+++++....   |..+...++......|+. +.+.+++.++..
T Consensus       196 ~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  196 K-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             C-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             c-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            2 3344445555555555555555555555544332   333444444444444444 334444444443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.64  E-value=8.8e-05  Score=76.38  Aligned_cols=145  Identities=14%  Similarity=0.165  Sum_probs=76.7

Q ss_pred             hccCCcHHHHHHHHHHHHhCCCCChhhHH---HHHHHHHhcCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHHcCCHHH
Q 006246          144 SITEADKEGVQVHAHVVKNGLCGDVHVKS---SGIQMYACFGCVNKARQILDDGSKS---DVICWNALIDGYLKCGDIEG  217 (654)
Q Consensus       144 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~---~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~  217 (654)
                      ...|+.++|..+++..++.. +.+...+.   .+.......+..+.+.+.++...+.   .......+...+...|++++
T Consensus        54 ~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~  132 (355)
T cd05804          54 WIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDR  132 (355)
T ss_pred             HHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHH
Confidence            44556666666666555542 22222222   1111112234444444444432111   12223334445666777777


Q ss_pred             HHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC-----CH--hHHHHHHHHHHhcCChHHHHHHHHHH
Q 006246          218 AKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMNDK-----DE--ITWSAIIDGYTKDGYYKEALEVFNEM  287 (654)
Q Consensus       218 A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~--~~~~~li~~~~~~g~~~~A~~~~~~m  287 (654)
                      |...+++..+   .+...+..+...|...|++++|...+++..+.     +.  ..|..+...+...|++++|+.+|++.
T Consensus       133 A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~  212 (355)
T cd05804         133 AEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTH  212 (355)
T ss_pred             HHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            7777766654   23445566666667777777777776665431     11  23445666777777777777777776


Q ss_pred             Hh
Q 006246          288 QR  289 (654)
Q Consensus       288 ~~  289 (654)
                      ..
T Consensus       213 ~~  214 (355)
T cd05804         213 IA  214 (355)
T ss_pred             hc
Confidence            43

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.62  E-value=3.1e-05  Score=78.26  Aligned_cols=223  Identities=14%  Similarity=0.072  Sum_probs=124.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc------hhHHHHHHH
Q 006246          266 AIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD------AVLGTALVD  339 (654)
Q Consensus       266 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~li~  339 (654)
                      .+.++..+..+++.|++-+.......  -+..-++....++...|........-....+.|...-      ......+..
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~  306 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGN  306 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhh
Confidence            34444444445555555555444432  1222222333334444444444443333333321100      011112444


Q ss_pred             HHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHccCCHHHHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI-TFACVLSACAHAGMIDRGLQ  418 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~  418 (654)
                      +|.+.++++.|...|++...+...     -....+....++++.......-  +.|... -...-...+-+.|++..|+.
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~Av~  379 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPEAVK  379 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHHHHH
Confidence            677778888888888775432110     1112223334444444444333  223321 11122455667888999999


Q ss_pred             HHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCC
Q 006246          419 ALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEP  496 (654)
Q Consensus       419 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  496 (654)
                      .+.++++.  -+-|...|..-.-+|.+.|.+.+|++=.+.. ...|+ ...|.-=+.++....+++.|...|++.++.+|
T Consensus       380 ~YteAIkr--~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp  457 (539)
T KOG0548|consen  380 HYTEAIKR--DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDP  457 (539)
T ss_pred             HHHHHHhc--CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence            99888873  3556778888888888999988888766655 33443 44555556666777789999999999999999


Q ss_pred             CCC
Q 006246          497 QNR  499 (654)
Q Consensus       497 ~~~  499 (654)
                      ++.
T Consensus       458 ~~~  460 (539)
T KOG0548|consen  458 SNA  460 (539)
T ss_pred             hhH
Confidence            875

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.62  E-value=0.00059  Score=73.85  Aligned_cols=118  Identities=20%  Similarity=0.277  Sum_probs=94.1

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHH
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIV  440 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li  440 (654)
                      ....|..+..+-.+.|...+|++-|-+.      -|...|..++..+++.|.+++-.+++...+++ .-+|.++  +.|+
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHH
Confidence            3457999999999999999999987543      26778999999999999999999999988875 5566654  6799


Q ss_pred             HHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHH
Q 006246          441 DLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKIL  491 (654)
Q Consensus       441 ~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  491 (654)
                      -+|++.+++.|-++++..    ||..-....++-|...|.++.|+-+|..+
T Consensus      1174 ~AyAkt~rl~elE~fi~g----pN~A~i~~vGdrcf~~~~y~aAkl~y~~v 1220 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFIAG----PNVANIQQVGDRCFEEKMYEAAKLLYSNV 1220 (1666)
T ss_pred             HHHHHhchHHHHHHHhcC----CCchhHHHHhHHHhhhhhhHHHHHHHHHh
Confidence            999999999998877753    56666666777777777777776666544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.62  E-value=0.00056  Score=69.34  Aligned_cols=128  Identities=13%  Similarity=0.059  Sum_probs=72.6

Q ss_pred             CCchhHHHHHHHhcccccCCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHH
Q 006246           62 FQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK--P-NVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPT  138 (654)
Q Consensus        62 ~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  138 (654)
                      +-|..+|+.||.-+..  . ..++++..++++..  | ....|..-|..-.+..+++....+|.+-+..-.  +...|..
T Consensus        17 P~di~sw~~lire~qt--~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~l   91 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQT--Q-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKL   91 (656)
T ss_pred             CccHHHHHHHHHHHcc--C-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHH
Confidence            3467788888877665  4 78888888888763  3 345678888888888888888888877765422  3333333


Q ss_pred             HHHHHhc-cCCcHH----HHHHHHHHH-HhCCCCCh-hhHHHHHHH---------HHhcCCHHHHHHHHhcC
Q 006246          139 VFKACSI-TEADKE----GVQVHAHVV-KNGLCGDV-HVKSSGIQM---------YACFGCVNKARQILDDG  194 (654)
Q Consensus       139 ll~~~~~-~~~~~~----a~~~~~~~~-~~g~~~~~-~~~~~li~~---------y~~~g~~~~A~~~~~~~  194 (654)
                      -|.-..+ .+....    ..+.++..+ +.|+++.. ..|+..+..         |....+++..++++.++
T Consensus        92 Yl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqra  163 (656)
T KOG1914|consen   92 YLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRA  163 (656)
T ss_pred             HHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHH
Confidence            3332211 122222    233344333 34544332 345554443         33334566667777765

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.61  E-value=3.7e-05  Score=77.72  Aligned_cols=201  Identities=14%  Similarity=0.105  Sum_probs=141.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH---H-------HHHHH
Q 006246          299 LSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV---F-------TWNAM  368 (654)
Q Consensus       299 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~---~-------~~~~l  368 (654)
                      ...+.++.-+..+++.+.+-+....+..  .+..-++....+|...|....+...-+...+...   .       ....+
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~  304 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            4456667777788888988888888776  5667777888889999988888777666554321   1       22224


Q ss_pred             HHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcc-hHHHHHHHHHHcC
Q 006246          369 IGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVE-HYGCIVDLLGRAG  447 (654)
Q Consensus       369 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g  447 (654)
                      ..+|.+.++++.|+..|++.+.....||..         .+....+++....+...-   +.|... -...=...+.+.|
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~---~~pe~A~e~r~kGne~Fk~g  372 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAY---INPEKAEEEREKGNEAFKKG  372 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHh---hChhHHHHHHHHHHHHHhcc
Confidence            456777788999999999977765554432         222333444444433322   234321 1112256678999


Q ss_pred             CHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC--------------CchHHHHHHHHH
Q 006246          448 YLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLM  511 (654)
Q Consensus       448 ~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~--------------~~~~a~~~~~~m  511 (654)
                      ++.+|+..|.++ ...| |...|.....+|.+.|++..|+.-.+..++++|+..              +|+.|.+.+..-
T Consensus       373 dy~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~ea  452 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEA  452 (539)
T ss_pred             CHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999988 3345 789999999999999999999999999999999987              777777766654


Q ss_pred             Hh
Q 006246          512 KE  513 (654)
Q Consensus       512 ~~  513 (654)
                      .+
T Consensus       453 le  454 (539)
T KOG0548|consen  453 LE  454 (539)
T ss_pred             Hh
Confidence            43

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.60  E-value=0.00017  Score=75.20  Aligned_cols=344  Identities=13%  Similarity=0.154  Sum_probs=219.1

Q ss_pred             HHHHHhcccccCCChHHHHHHHhcCCCCCcc-hHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccC
Q 006246           69 GTLVKCHANSRFSNFELALKVFNSVHKPNVF-VWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITE  147 (654)
Q Consensus        69 ~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~  147 (654)
                      ...+.||..  ..+|++|+.+-+-...|-.. .-.+.+.++...|+-++|-++-    .    .|..++ +.|+.|.+.|
T Consensus       561 e~aigmy~~--lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka~elk----~----sdgd~l-aaiqlyika~  629 (1636)
T KOG3616|consen  561 EEAIGMYQE--LHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKAAELK----E----SDGDGL-AAIQLYIKAG  629 (1636)
T ss_pred             HHHHHHHHH--HHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhhhhhc----c----ccCccH-HHHHHHHHcC
Confidence            455788888  88899999988766555432 2344556666667666665441    1    122232 2345566666


Q ss_pred             CcHHHHHHH-------------HHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCC-------------CCChhh
Q 006246          148 ADKEGVQVH-------------AHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGS-------------KSDVIC  201 (654)
Q Consensus       148 ~~~~a~~~~-------------~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-------------~~~~~~  201 (654)
                      .+..|....             +++...-  .....|...-+.|-+..++++|.+.|+++.             +..++.
T Consensus       630 ~p~~a~~~a~n~~~l~~de~il~~ia~al--ik~elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~  707 (1636)
T KOG3616|consen  630 KPAKAARAALNDEELLADEEILEHIAAAL--IKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVK  707 (1636)
T ss_pred             CchHHHHhhcCHHHhhccHHHHHHHHHHH--HhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhh
Confidence            555443321             1111100  011233444445555566677777776641             111111


Q ss_pred             -HHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhH--HHHHHHHHHhcCChH
Q 006246          202 -WNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEIT--WSAIIDGYTKDGYYK  278 (654)
Q Consensus       202 -~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~g~~~  278 (654)
                       -.....-+.+.|+++.|+..|-+..     ..-.-+.+......+.+|..+++.+.++++.+  |..+...|...|+++
T Consensus       708 lee~wg~hl~~~~q~daainhfiea~-----~~~kaieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe  782 (1636)
T KOG3616|consen  708 LEEAWGDHLEQIGQLDAAINHFIEAN-----CLIKAIEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFE  782 (1636)
T ss_pred             HHHHHhHHHHHHHhHHHHHHHHHHhh-----hHHHHHHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHH
Confidence             1122223345566666655553321     12223455567788999999999888776553  777788899999999


Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          279 EALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       279 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                      .|.++|-+.         ..+.-.+..|.+.|+++.|.++-.+..  |.......|-+-..-+-+.|++.+|.++|-.+.
T Consensus       783 ~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~  851 (1636)
T KOG3616|consen  783 IAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG  851 (1636)
T ss_pred             HHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc
Confidence            999998653         235567788999999998877655442  334455666666667788899999999999888


Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHH
Q 006246          359 MKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGC  438 (654)
Q Consensus       359 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~  438 (654)
                      .|+..     |..|-++|..+..+++..+-.-.   --..|...+..-+...|++..|...|-+..+          |.+
T Consensus       852 ~p~~a-----iqmydk~~~~ddmirlv~k~h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d----------~ka  913 (1636)
T KOG3616|consen  852 EPDKA-----IQMYDKHGLDDDMIRLVEKHHGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD----------FKA  913 (1636)
T ss_pred             CchHH-----HHHHHhhCcchHHHHHHHHhChh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh----------HHH
Confidence            88753     67889999999998887764321   1234666677778888999999888766543          567


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC
Q 006246          439 IVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       439 li~~~~~~g~~~~A~~~~~~m  459 (654)
                      -+++|...+.+++|..+-+.-
T Consensus       914 avnmyk~s~lw~dayriakte  934 (1636)
T KOG3616|consen  914 AVNMYKASELWEDAYRIAKTE  934 (1636)
T ss_pred             HHHHhhhhhhHHHHHHHHhcc
Confidence            788888889999988887654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.56  E-value=4e-05  Score=82.57  Aligned_cols=102  Identities=13%  Similarity=0.005  Sum_probs=56.4

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHH----HHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHH
Q 006246          396 DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYG----CIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEAL  471 (654)
Q Consensus       396 ~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~----~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~l  471 (654)
                      +...|.......-+.+.+..|.+...+...-...+-+...|+    .....+...|.++.|..-+...+...+..+-.+-
T Consensus       966 ~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~ 1045 (1238)
T KOG1127|consen  966 LCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDEDIRGTD 1045 (1238)
T ss_pred             hhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHHHHhhhh
Confidence            344555555555566655555555444432212223334444    2334455567777776666555444444444443


Q ss_pred             HHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          472 LGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       472 l~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      +.. .-.|+++++...|++++.+--++
T Consensus      1046 l~l-Ffkndf~~sl~~fe~aLsis~se 1071 (1238)
T KOG1127|consen 1046 LTL-FFKNDFFSSLEFFEQALSISNSE 1071 (1238)
T ss_pred             HHH-HHHhHHHHHHHHHHHHhhhcccc
Confidence            333 34577899999999998865444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.56  E-value=0.00015  Score=84.70  Aligned_cols=316  Identities=11%  Similarity=0.032  Sum_probs=174.1

Q ss_pred             hccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC----CCC----C--h--hhHHHHHHHHHH
Q 006246          144 SITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG----SKS----D--V--ICWNALIDGYLK  211 (654)
Q Consensus       144 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~----~~~----~--~--~~~~~li~~~~~  211 (654)
                      ...|+.+.+...+..+.......+..........+...|++++|...++..    ...    +  .  .....+...+..
T Consensus       385 ~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  464 (903)
T PRK04841        385 FNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAIN  464 (903)
T ss_pred             HhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHh
Confidence            344555555555544421111222333334444555667777776666542    110    1  0  111122234456


Q ss_pred             cCCHHHHHHHHHhcCC--C--Cc----chHHHHHHHHHhcCCHHHHHHHHHhcCC-------CC--HhHHHHHHHHHHhc
Q 006246          212 CGDIEGAKELFKSTKD--K--NT----GSYNAMISGFARFGRFEEARKLFNEMND-------KD--EITWSAIIDGYTKD  274 (654)
Q Consensus       212 ~g~~~~A~~~~~~m~~--~--~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~~--~~~~~~li~~~~~~  274 (654)
                      .|++++|...+++...  +  +.    ...+.+...+...|++++|...+++...       +.  ..++..+...+...
T Consensus       465 ~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~  544 (903)
T PRK04841        465 DGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQ  544 (903)
T ss_pred             CCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHC
Confidence            7777777777766543  1  11    2334555566777888888777776642       11  22445556667778


Q ss_pred             CChHHHHHHHHHHHhC----CCC--C-CcchHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCCchhHHHHHHHHHHH
Q 006246          275 GYYKEALEVFNEMQRD----KIK--P-RKFVLSCVLAACASLGALDQGIWIHDHVKRN----SICVDAVLGTALVDMYAK  343 (654)
Q Consensus       275 g~~~~A~~~~~~m~~~----g~~--p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~y~~  343 (654)
                      |++++|...+++....    +..  + ....+..+...+...|++++|...+......    +.......+..+...+..
T Consensus       545 G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~  624 (903)
T PRK04841        545 GFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLA  624 (903)
T ss_pred             CCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHH
Confidence            8888888877776442    211  1 1122333444556668888888777776542    111123344445667777


Q ss_pred             cCCHHHHHHHHhhcCC----C-CHHHHH-----HHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH---HHHHHHHHHHcc
Q 006246          344 CGRLDMAWKVFEDMKM----K-EVFTWN-----AMIGGLAMHGRADDAIELFFKMQREKMRPDRI---TFACVLSACAHA  410 (654)
Q Consensus       344 ~g~~~~A~~~~~~m~~----~-~~~~~~-----~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~---t~~~ll~~~~~~  410 (654)
                      .|+.++|.+.+++...    . ....+.     ..+..+...|+.+.|..++.+...........   .+..+..++...
T Consensus       625 ~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~  704 (903)
T PRK04841        625 RGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILL  704 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHc
Confidence            8888888777766532    1 111111     12234455778888888876655422111111   134556667778


Q ss_pred             CCHHHHHHHHHHHHHH---cCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          411 GMIDRGLQALTYMQQM---YGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       411 g~~~~a~~~~~~~~~~---~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      |+.++|..+++.....   .|..++ ..+...+..++.+.|+.++|.+.+.+.
T Consensus       705 g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~A  757 (903)
T PRK04841        705 GQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEA  757 (903)
T ss_pred             CCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888888888776552   133222 335566677788888888888888766

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.53  E-value=0.0028  Score=74.25  Aligned_cols=29  Identities=14%  Similarity=0.076  Sum_probs=16.0

Q ss_pred             HHHHHHHHhHhCCCC--C-C----cccHHHHHHHHh
Q 006246          116 RVISLYSEMVGVDSK--P-N----KFTYPTVFKACS  144 (654)
Q Consensus       116 ~A~~~~~~m~~~g~~--p-~----~~t~~~ll~~~~  144 (654)
                      .+.+.++++...|+-  | +    .+.|+.++..+.
T Consensus       293 ~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l  328 (903)
T PRK04841        293 NGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFL  328 (903)
T ss_pred             cHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHH
Confidence            345666666666541  1 1    355777766654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.49  E-value=4.3e-06  Score=84.99  Aligned_cols=191  Identities=11%  Similarity=0.050  Sum_probs=144.3

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHH
Q 006246          306 CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      +.+.|++.+|.-.|+..++.. +.+...|.-|....+..++-..|+..+++..+   .|....-+|...|...|.-.+|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            356777888888888887765 45677888888888888887778877777665   36778888888899999888999


Q ss_pred             HHHHHHhhcCCC--------CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHH
Q 006246          383 ELFFKMQREKMR--------PDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEE  454 (654)
Q Consensus       383 ~l~~~m~~~g~~--------p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  454 (654)
                      +.+++-+....+        ++..+-..  ..+.....+....++|-.+....+..+|..++.+|.-+|.-.|.+++|++
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            988887654211        00000000  11222233445556666666555766888899999999999999999999


Q ss_pred             HHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          455 VISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       455 ~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .|+.+ ..+| |...||-|+..+....+.++|+.+|++++++.|...
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yV  498 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYV  498 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCee
Confidence            99987 5666 688999999999999999999999999999999986

>PF12854 PPR_1: PPR repeat

Probab=98.48  E-value=2.2e-07  Score=58.04  Aligned_cols=32  Identities=34%  Similarity=0.589  Sum_probs=21.4

Q ss_pred             CCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          428 GIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       428 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      |+.||..+|+.||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56666666666666666666666666666665

>PF12854 PPR_1: PPR repeat

Probab=98.43  E-value=3.5e-07  Score=57.09  Aligned_cols=33  Identities=39%  Similarity=0.642  Sum_probs=24.7

Q ss_pred             CCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          326 SICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       326 ~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                      |+.||..+||+||++|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            567777777777777777777777777777764

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.43  E-value=1.8e-05  Score=82.65  Aligned_cols=234  Identities=12%  Similarity=0.082  Sum_probs=127.1

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCcchHHHHHHHHHhc
Q 006246          166 GDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD--KNTGSYNAMISGFARF  243 (654)
Q Consensus       166 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~  243 (654)
                      |--.....+...+...|-...|..+|++.     ..|..+|.+|...|+..+|..+..+-.+  ||+..|..+.+.....
T Consensus       396 p~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~  470 (777)
T KOG1128|consen  396 PIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDP  470 (777)
T ss_pred             CcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccCh
Confidence            33334445566666666666666666653     2355555566666655555555444333  3444555555554444


Q ss_pred             CCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHH
Q 006246          244 GRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVK  323 (654)
Q Consensus       244 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~  323 (654)
                      .-+++|+++++....+--..|+.   ....+++++++.+.|                                   +.-.
T Consensus       471 s~yEkawElsn~~sarA~r~~~~---~~~~~~~fs~~~~hl-----------------------------------e~sl  512 (777)
T KOG1128|consen  471 SLYEKAWELSNYISARAQRSLAL---LILSNKDFSEADKHL-----------------------------------ERSL  512 (777)
T ss_pred             HHHHHHHHHhhhhhHHHHHhhcc---ccccchhHHHHHHHH-----------------------------------HHHh
Confidence            44555555554433221111111   111234444444444                                   4433


Q ss_pred             HcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHH
Q 006246          324 RNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K-EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITF  400 (654)
Q Consensus       324 ~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~  400 (654)
                      +.+ +....+|-.+..++.++++++.|.+.|.....  | +..+||.+-.+|.+.|+-.+|...+++..+.+ .-+...|
T Consensus       513 ~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iW  590 (777)
T KOG1128|consen  513 EIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIW  590 (777)
T ss_pred             hcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeee
Confidence            332 22344555566666667777777777765543  3 45677777777777777777777777777765 3344455


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHH
Q 006246          401 ACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLG  444 (654)
Q Consensus       401 ~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~  444 (654)
                      ...+....+.|.+++|++.+.++........|..+-..++....
T Consensus       591 ENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  591 ENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTVL  634 (777)
T ss_pred             echhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHHH
Confidence            55555666777777777777776654333335555544444433

>PLN02789 farnesyltranstransferase

Probab=98.40  E-value=0.00019  Score=71.38  Aligned_cols=209  Identities=13%  Similarity=0.100  Sum_probs=135.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          264 WSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKF-VLSCVLAACASLG-ALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       264 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      +..+-..+...++.++|+.++.++++.  .|+.. .|..--.++...| .+++++..+..+.+.. +.+..+|+...-.+
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l  116 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHH
Confidence            333444455667777888887777764  34333 3333334445555 5677777777777765 33445566555555


Q ss_pred             HHcCCH--HHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHcc---CC-
Q 006246          342 AKCGRL--DMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHA---GM-  412 (654)
Q Consensus       342 ~~~g~~--~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~---g~-  412 (654)
                      .+.|+.  +++..+++++.+   +|..+|+...-.+...|+++++++.+.++++.++. |...|+.....+.+.   |. 
T Consensus       117 ~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~  195 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGL  195 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccc
Confidence            556652  567777776664   47788998888888889999999999999887654 555666555555444   22 


Q ss_pred             ---HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHc----CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHh
Q 006246          413 ---IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRA----GYLAEAEEVISSM-PMEP-NAAVWEALLGACRKH  478 (654)
Q Consensus       413 ---~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~  478 (654)
                         .++..++..++...  .+-+...|+.+..+|...    ++..+|.+++.+. ...| +......|+..|...
T Consensus       196 ~~~~e~el~y~~~aI~~--~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        196 EAMRDSELKYTIDAILA--NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEG  268 (320)
T ss_pred             cccHHHHHHHHHHHHHh--CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhh
Confidence               24566777666652  344566788888777763    4456788888775 3333 577788888888753

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.39  E-value=0.0066  Score=66.20  Aligned_cols=250  Identities=15%  Similarity=0.147  Sum_probs=144.5

Q ss_pred             CCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC--
Q 006246          182 GCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDK--  259 (654)
Q Consensus       182 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--  259 (654)
                      +.++.|.+.-++...  +..|..+..+-.+.|...+|++-|-+.  .|+..|..+++...+.|.+++-.+.+....++  
T Consensus      1089 ~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSyika--dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~ 1164 (1666)
T KOG0985|consen 1089 GSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESYIKA--DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVR 1164 (1666)
T ss_pred             hhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHHHhc--CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhc
Confidence            334444444444333  345777777777778887777766433  45666777788888888888877766655432  


Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      ....=+.+|-+|++.++..+..+++       .-||......+..-|...+.++.|+-+|..+.         -|..|..
T Consensus      1165 E~~id~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vS---------N~a~La~ 1228 (1666)
T KOG0985|consen 1165 EPYIDSELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVS---------NFAKLAS 1228 (1666)
T ss_pred             CccchHHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhh---------hHHHHHH
Confidence            2333456777788877776655543       24677777777777777777777777766442         3445666


Q ss_pred             HHHHcCCHHHHHHHHhhcCC------------------------C----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhc
Q 006246          340 MYAKCGRLDMAWKVFEDMKM------------------------K----EVFTWNAMIGGLAMHGRADDAIELFFKMQRE  391 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~------------------------~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  391 (654)
                      .+...|+++.|...-++...                        -    ...-..-++.-|-..|-+++.+.+++..+. 
T Consensus      1229 TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LG- 1307 (1666)
T KOG0985|consen 1229 TLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLG- 1307 (1666)
T ss_pred             HHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhc-
Confidence            66666666666544333321                        0    112344566666777777777776665432 


Q ss_pred             CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCC------CCcchHHHHHHHHHHcCCHHHHHH
Q 006246          392 KMRP-DRITFACVLSACAHAGMIDRGLQALTYMQQMYGID------PEVEHYGCIVDLLGRAGYLAEAEE  454 (654)
Q Consensus       392 g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~------p~~~~~~~li~~~~~~g~~~~A~~  454 (654)
                       +.- ..-.|+-|.-.|++- ++++..+.++..-...+++      -....|+-++-.|.+-..++.|.-
T Consensus      1308 -LERAHMgmfTELaiLYsky-kp~km~EHl~LFwsRvNipKviRA~eqahlW~ElvfLY~~y~eyDNAa~ 1375 (1666)
T KOG0985|consen 1308 -LERAHMGMFTELAILYSKY-KPEKMMEHLKLFWSRVNIPKVIRAAEQAHLWSELVFLYDKYEEYDNAAL 1375 (1666)
T ss_pred             -hhHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Confidence             221 122344444444443 3444444444333322221      124467777777777777776653

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.38  E-value=3.1e-05  Score=74.51  Aligned_cols=59  Identities=17%  Similarity=0.227  Sum_probs=48.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCC
Q 006246          438 CIVDLLGRAGYLAEAEEVISSM----PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEP  496 (654)
Q Consensus       438 ~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  496 (654)
                      .+...|.+.|++++|+..+++.    |..| ....|..+..++...|++++|...++.+....|
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            4567788999999999999876    3233 367899999999999999999998888776555

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.36  E-value=0.00017  Score=78.01  Aligned_cols=410  Identities=13%  Similarity=0.062  Sum_probs=204.6

Q ss_pred             ChHHHHHHHhcCCCCCc---chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHH
Q 006246           82 NFELALKVFNSVHKPNV---FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAH  158 (654)
Q Consensus        82 ~~~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  158 (654)
                      +...|...|=+..+.|+   ..|..|...|...-+...|...|++..+.. ..|..........+++..+++.|..+.-.
T Consensus       473 ~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             hHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            35555555544443332   346666666655555566666666665532 22444555555666666666666665222


Q ss_pred             HHHhCC-CCChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchH-
Q 006246          159 VVKNGL-CGDVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSY-  233 (654)
Q Consensus       159 ~~~~g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~-  233 (654)
                      .-+... ..-..-|..+--.|.+.++...|..-|+..   .+.|...|..+..+|...|++..|+++|.+...-++..+ 
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y  631 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKY  631 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHH
Confidence            211110 000111222333355666666666666543   444555666666666666666666666655543222211 


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHhcCCC----------CHhHHHHHHHHHHhcCChHHHHHHHHHH-------HhCCC--
Q 006246          234 --NAMISGFARFGRFEEARKLFNEMNDK----------DEITWSAIIDGYTKDGYYKEALEVFNEM-------QRDKI--  292 (654)
Q Consensus       234 --~~li~~~~~~g~~~~A~~~~~~~~~~----------~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~g~--  292 (654)
                        --...+-+..|++.+|...+..+...          -..++-.+...+.-.|-..+|...++.-       .....  
T Consensus       632 ~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~  711 (1238)
T KOG1127|consen  632 GRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQS  711 (1238)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhh
Confidence              11222334455555555555544321          0112222222222222222222222221       11111  


Q ss_pred             ------------------CCC---cchHHHHHHHHHhcCCh---h---HHHHHHHHHHHcCCCCchhHHHHHHHHHHH--
Q 006246          293 ------------------KPR---KFVLSCVLAACASLGAL---D---QGIWIHDHVKRNSICVDAVLGTALVDMYAK--  343 (654)
Q Consensus       293 ------------------~p~---~~t~~~ll~~~~~~g~~---~---~a~~~~~~~~~~~~~~~~~~~~~li~~y~~--  343 (654)
                                        .|+   ......+..-....+..   +   .|.+.+-.  ...+..+...|..|+.-|.+  
T Consensus       712 ~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~--hlsl~~~~~~WyNLGinylr~f  789 (1238)
T KOG1127|consen  712 DRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIA--HLSLAIHMYPWYNLGINYLRYF  789 (1238)
T ss_pred             hHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhH--HHHHhhccchHHHHhHHHHHHH
Confidence                              122   11111111112222222   1   01111111  11111223344344433332  


Q ss_pred             --cCC----HHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHH
Q 006246          344 --CGR----LDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMID  414 (654)
Q Consensus       344 --~g~----~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  414 (654)
                        +|.    ...|...+.+..+   .+...||.|... ...|++.-|...|-+-.... +-+..+|..+.-.|....+++
T Consensus       790 ~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E  867 (1238)
T KOG1127|consen  790 LLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFE  867 (1238)
T ss_pred             HHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHH
Confidence              222    3356666665543   577899988766 55677888888777766553 346778888888888999999


Q ss_pred             HHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHHhCChHHHHH
Q 006246          415 RGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM-------PMEPNAAVWEALLGACRKHGEVEFGER  486 (654)
Q Consensus       415 ~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~~~~~~ll~~~~~~g~~~~a~~  486 (654)
                      .|...|...+.   +.|+ ...|--..-.....|+.-++..+|..-       +--|+..-|-.-......+|+.++-+.
T Consensus       868 ~A~~af~~~qS---LdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~  944 (1238)
T KOG1127|consen  868 HAEPAFSSVQS---LDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESIN  944 (1238)
T ss_pred             HhhHHHHhhhh---cCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHH
Confidence            99999998875   3443 444544444455678888888888752       233566666555555666666665444


Q ss_pred             H----------HHHHHhcCCCCC
Q 006246          487 L----------GKILLEMEPQNR  499 (654)
Q Consensus       487 ~----------~~~~~~~~p~~~  499 (654)
                      .          .++.+.-.|+..
T Consensus       945 t~~ki~sAs~al~~yf~~~p~~~  967 (1238)
T KOG1127|consen  945 TARKISSASLALSYYFLGHPQLC  967 (1238)
T ss_pred             HhhhhhhhHHHHHHHHhcCcchh
Confidence            3          344444566654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.36  E-value=1.9e-05  Score=69.07  Aligned_cols=114  Identities=7%  Similarity=-0.017  Sum_probs=85.5

Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 006246          383 ELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PM  461 (654)
Q Consensus       383 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  461 (654)
                      .+|++.++.  .|+.  +..+..++...|++++|...|+.....  -+.+...|..+..++.+.|++++|...|++. ..
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            455555553  4443  445666777888888888888887752  2335667788888888888888888888877 33


Q ss_pred             CC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCch
Q 006246          462 EP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCD  502 (654)
Q Consensus       462 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  502 (654)
                      .| +...|..+..++...|+.++|+..+++++++.|+++.+-
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~  129 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWS  129 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHH
Confidence            34 678888888889999999999999999999999887443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.33  E-value=0.0053  Score=62.57  Aligned_cols=394  Identities=12%  Similarity=0.160  Sum_probs=237.1

Q ss_pred             CCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCC-CcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHH
Q 006246           96 PNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKP-NKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSG  174 (654)
Q Consensus        96 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  174 (654)
                      -|+.+|+.||.-+... -++++.+.++++...  -| ....|..-+..-....+++..+.+|.+.+..-+.  ...|...
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~~--FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLn--lDLW~lY   92 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV--FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLN--LDLWKLY   92 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhh--HhHHHHH
Confidence            4889999999876555 899999999999864  44 4557777888888899999999999998876544  4444444


Q ss_pred             HHHHH-hcCCHHHHHH----HHh----c--CCCCChhhHHHHHHH---------HHHcCCHHHHHHHHHhcCCC------
Q 006246          175 IQMYA-CFGCVNKARQ----ILD----D--GSKSDVICWNALIDG---------YLKCGDIEGAKELFKSTKDK------  228 (654)
Q Consensus       175 i~~y~-~~g~~~~A~~----~~~----~--~~~~~~~~~~~li~~---------~~~~g~~~~A~~~~~~m~~~------  228 (654)
                      ++--- ..|+...+++    .|+    +  |...+-..|+..+.-         |..+.+.+...++|+++..-      
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlE  172 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLE  172 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHH
Confidence            43221 1233333221    121    1  344455667766653         45566777888888888752      


Q ss_pred             ----CcchHHHHHHHH-------HhcCCHHHHHHHHHhcCC------CC---------------HhHHHHHHHHHHhcCC
Q 006246          229 ----NTGSYNAMISGF-------ARFGRFEEARKLFNEMND------KD---------------EITWSAIIDGYTKDGY  276 (654)
Q Consensus       229 ----~~~~~~~li~~~-------~~~g~~~~A~~~~~~~~~------~~---------------~~~~~~li~~~~~~g~  276 (654)
                          |-..|..=|+..       -+...+-.|.++++++..      ++               +..|-.+|.-=-.++.
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL  252 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCc
Confidence                222222222211       122344556666655431      11               1124444442222211


Q ss_pred             h--------HHHHHHHHHH-HhCCCCCCcchH-HHHH----HHHHhcCC-------hhHHHHHHHHHHHcCCCCchhHHH
Q 006246          277 Y--------KEALEVFNEM-QRDKIKPRKFVL-SCVL----AACASLGA-------LDQGIWIHDHVKRNSICVDAVLGT  335 (654)
Q Consensus       277 ~--------~~A~~~~~~m-~~~g~~p~~~t~-~~ll----~~~~~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~  335 (654)
                      -        ....-.+++. .-.+..|+.... ...+    ..+...|+       -+++..+++..+..-...+..+|.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            1        0111122221 122333332211 1111    11222333       345555666555433333444444


Q ss_pred             HHHHHHHHcC---CHHHHHHHHhhcCC----CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHHHH
Q 006246          336 ALVDMYAKCG---RLDMAWKVFEDMKM----KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLSAC  407 (654)
Q Consensus       336 ~li~~y~~~g---~~~~A~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~  407 (654)
                      .+.+-=-..-   ..+.....+++...    .-..+|-..+..-.+..-.+.|..+|.+..+.+..+ +...+.+++.-+
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~  412 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYY  412 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHH
Confidence            3332211111   13334444444433    233567778887788888999999999999988888 555667777655


Q ss_pred             HccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCC---CCCC--HHHHHHHHHHHHHhCChH
Q 006246          408 AHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMP---MEPN--AAVWEALLGACRKHGEVE  482 (654)
Q Consensus       408 ~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~p~--~~~~~~ll~~~~~~g~~~  482 (654)
                      + .++.+-|.++|+.-.+.+|-.  ..--.+.++-+...++-..|..+|++.-   ..||  ..+|..++.--..-|++.
T Consensus       413 c-skD~~~AfrIFeLGLkkf~d~--p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~  489 (656)
T KOG1914|consen  413 C-SKDKETAFRIFELGLKKFGDS--PEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLN  489 (656)
T ss_pred             h-cCChhHHHHHHHHHHHhcCCC--hHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHH
Confidence            5 578899999999988865543  3445678889999999999999999872   3443  689999999999999999


Q ss_pred             HHHHHHHHHHhcCCC
Q 006246          483 FGERLGKILLEMEPQ  497 (654)
Q Consensus       483 ~a~~~~~~~~~~~p~  497 (654)
                      .+.++-++....-|.
T Consensus       490 si~~lekR~~~af~~  504 (656)
T KOG1914|consen  490 SILKLEKRRFTAFPA  504 (656)
T ss_pred             HHHHHHHHHHHhcch
Confidence            999999998887773

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.32  E-value=7.7e-05  Score=69.02  Aligned_cols=151  Identities=13%  Similarity=0.140  Sum_probs=113.3

Q ss_pred             HHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 006246          338 VDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGL  417 (654)
Q Consensus       338 i~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  417 (654)
                      +-.|.+.|+++......+.+..+.        ..|...++.++++..+++..+.. +.|...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456778888777655443332221        01223566778888888877764 447778888888999999999999


Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHHHH-HHcCC--HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHH
Q 006246          418 QALTYMQQMYGIDPEVEHYGCIVDLL-GRAGY--LAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILL  492 (654)
Q Consensus       418 ~~~~~~~~~~g~~p~~~~~~~li~~~-~~~g~--~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  492 (654)
                      ..|++..+.  .+.+...+..+..++ .+.|+  .++|.+++++. ...| +..++..+...+...|++++|+..+++++
T Consensus        94 ~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL  171 (198)
T PRK10370         94 LAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVL  171 (198)
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999988863  233566777888764 67777  59999999987 3445 68889999999999999999999999999


Q ss_pred             hcCCCCC
Q 006246          493 EMEPQNR  499 (654)
Q Consensus       493 ~~~p~~~  499 (654)
                      ++.|.+.
T Consensus       172 ~l~~~~~  178 (198)
T PRK10370        172 DLNSPRV  178 (198)
T ss_pred             hhCCCCc
Confidence            9988876

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.32  E-value=8.3e-05  Score=82.92  Aligned_cols=196  Identities=14%  Similarity=0.175  Sum_probs=128.6

Q ss_pred             cchHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCC---chhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-C-HHHHHHHH
Q 006246          296 KFVLSCVLAACASLGALDQGIWIHDHVKRN-SICV---DAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-E-VFTWNAMI  369 (654)
Q Consensus       296 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~---~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-~-~~~~~~li  369 (654)
                      ...|-..+....+.+.+++|+++.+++++. ++.-   -..+|.+++++-..-|.-+...++|+++.+- | ...|..|.
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~ 1537 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLL 1537 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHH
Confidence            344555555556666666666666666542 1111   1345666666666666667777777777652 3 34567777


Q ss_pred             HHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC---cchHHHHHHHHHHc
Q 006246          370 GGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE---VEHYGCIVDLLGRA  446 (654)
Q Consensus       370 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~---~~~~~~li~~~~~~  446 (654)
                      ..|.+.+++++|.++|+.|.+. +.-....|..++..+.+..+-+.|..++.++.+-   -|.   .....-.+++-.+.
T Consensus      1538 ~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~---lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1538 GIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS---LPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh---cchhhhHHHHHHHHHHHhhc
Confidence            7777777777788887777764 3334556777777777777777777777777653   333   33344555666677


Q ss_pred             CCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          447 GYLAEAEEVISSM--PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       447 g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      |+.+.+..+|+..  ..+.....|+.+++.-.+||+.+.++.+|++++++.
T Consensus      1614 GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~ 1664 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELK 1664 (1710)
T ss_pred             CCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcC
Confidence            8888888788766  223356778888888888888888888888887753

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.30  E-value=1.8e-05  Score=80.62  Aligned_cols=118  Identities=16%  Similarity=0.148  Sum_probs=94.8

Q ss_pred             hhHHHHHHHHHh-hcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHHH
Q 006246          378 ADDAIELFFKMQ-REKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEEV  455 (654)
Q Consensus       378 ~~~A~~l~~~m~-~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~  455 (654)
                      .....++|-++. +.+.++|......|.-.|.-.|.+++|...|+.+..   ++| |...||.|.-.++...+.+||+..
T Consensus       410 l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsA  486 (579)
T KOG1125|consen  410 LAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISA  486 (579)
T ss_pred             HHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHH
Confidence            345555665554 345446666666677678888999999999999986   355 467899999999999999999999


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          456 ISSM-PMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       456 ~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      |++. .++|. +.++..|.-+|...|.+++|.+.+-.++.+.+..
T Consensus       487 Y~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks  531 (579)
T KOG1125|consen  487 YNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKS  531 (579)
T ss_pred             HHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcc
Confidence            9988 67887 6788899999999999999999999888876653

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.22  E-value=0.0002  Score=79.99  Aligned_cols=217  Identities=16%  Similarity=0.149  Sum_probs=156.7

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC--------CcchHHHHHHHHHhcCCHHHHHHHHHhcCCC-C-HhHHHH
Q 006246          197 SDVICWNALIDGYLKCGDIEGAKELFKSTKDK--------NTGSYNAMISGFARFGRFEEARKLFNEMNDK-D-EITWSA  266 (654)
Q Consensus       197 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~  266 (654)
                      .+...|-..+.-..+.++.++|.++.++....        -...|.++++.-..-|.-+...++|+++.+- | ...|..
T Consensus      1456 NSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~ 1535 (1710)
T KOG1070|consen 1456 NSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLK 1535 (1710)
T ss_pred             CcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHH
Confidence            34556666666667777777777777766541        2346777777777777777888888887653 3 456788


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-CchhHHHHHHHHHHHcC
Q 006246          267 IIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSIC-VDAVLGTALVDMYAKCG  345 (654)
Q Consensus       267 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~y~~~g  345 (654)
                      |...|.+.+.+++|.++|+.|.+. +.-....|...+..+.+...-+.|..++.++.+.-.. -...+..-.+.+-.++|
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~G 1614 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYG 1614 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcC
Confidence            888888888888888888888775 3345567777788888888888888888888775322 13445556677778899


Q ss_pred             CHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH--HHHHHHHHHHccCCHH
Q 006246          346 RLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI--TFACVLSACAHAGMID  414 (654)
Q Consensus       346 ~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~--t~~~ll~~~~~~g~~~  414 (654)
                      +.+.++.+|+....   +-...|+..|..-.++|+.+.+..+|++....++.|-..  .|...|..-...|+-+
T Consensus      1615 DaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1615 DAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             CchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            99999999998775   356789999999999999999999999999988877443  4444444444444433

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.21  E-value=6.6e-05  Score=78.58  Aligned_cols=208  Identities=12%  Similarity=0.106  Sum_probs=163.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChh
Q 006246          234 NAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALD  313 (654)
Q Consensus       234 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  313 (654)
                      ..+...+...|-...|..+|+++     ..|...|.+|...|+..+|..+..+-.+.  +||...|..+.....+..-++
T Consensus       402 ~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yE  474 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYE  474 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHH
Confidence            56777888999999999999986     56888899999999999999998888773  788888888888877777778


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhh
Q 006246          314 QGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQR  390 (654)
Q Consensus       314 ~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  390 (654)
                      +|.++.++....       .-..+.......++++++.+.|+.-..-   -..+|-.+..+..+.++++.|.+.|..-..
T Consensus       475 kawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvt  547 (777)
T KOG1128|consen  475 KAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT  547 (777)
T ss_pred             HHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhh
Confidence            888777765432       1112222233468899999888865543   457888888889999999999999998877


Q ss_pred             cCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          391 EKMRPDRI-TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       391 ~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .  .||.. .|+++-.+|.+.++-.+|...+.+..+ +. .-+...|-..+-...+.|.+++|.+.+.++
T Consensus       548 L--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlK-cn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  548 L--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALK-CN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             c--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhh-cC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            4  56654 799999999999999999999999887 45 444556667777788999999999998876

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.20  E-value=0.00032  Score=77.01  Aligned_cols=126  Identities=10%  Similarity=0.061  Sum_probs=57.6

Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCH-HHHHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K-EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDR-ITFACVLS  405 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~  405 (654)
                      ++..+..|.......|.+++|..+++...+  | +...+..++..+.+.+++++|+..+++....  .|+. .....+..
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~  162 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLEAK  162 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHHHH
Confidence            344444444455555555555555554443  2 3334444444555555555555555555443  2222 23333334


Q ss_pred             HHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          406 ACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       406 ~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      ++.+.|++++|..+|+++...  ..-+...+..+..++...|+.++|...|++.
T Consensus       163 ~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a  214 (694)
T PRK15179        163 SWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAG  214 (694)
T ss_pred             HHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444455555555555555431  1112334444444555555555555555444

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.18  E-value=0.0034  Score=60.25  Aligned_cols=298  Identities=13%  Similarity=0.058  Sum_probs=152.6

Q ss_pred             HHHHHHHHhccCCcHHHHHHHHHHHHhCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHH---HHHHHH
Q 006246          136 YPTVFKACSITEADKEGVQVHAHVVKNGLCGDV-HVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNAL---IDGYLK  211 (654)
Q Consensus       136 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~  211 (654)
                      -.-+-+.+...|.+..|..-+..+++.  .|+. .++-.-...|...|+...|..-|++....-+.-+.+-   ...+.+
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK  118 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLK  118 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhh
Confidence            334445566667777777666666543  2222 2333344568888888888877777633322223332   345789


Q ss_pred             cCCHHHHHHHHHhcCCCCcc------------------hHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHH
Q 006246          212 CGDIEGAKELFKSTKDKNTG------------------SYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDG  270 (654)
Q Consensus       212 ~g~~~~A~~~~~~m~~~~~~------------------~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  270 (654)
                      .|.++.|..-|+...+.++.                  .....+..+...|+...|+.....+.+   .|+..|-.-..+
T Consensus       119 ~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc  198 (504)
T KOG0624|consen  119 QGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKC  198 (504)
T ss_pred             cccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHH
Confidence            99999999999998864321                  112233344555666666666666554   255556666666


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHH
Q 006246          271 YTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMA  350 (654)
Q Consensus       271 ~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A  350 (654)
                      |...|++..|+.-++...+.. .-+..++--+-..+...|+.+.++....+-++.+  ||-..+-.   .|-+   +.+.
T Consensus       199 ~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld--pdHK~Cf~---~YKk---lkKv  269 (504)
T KOG0624|consen  199 YIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLD--PDHKLCFP---FYKK---LKKV  269 (504)
T ss_pred             HHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC--cchhhHHH---HHHH---HHHH
Confidence            677777766666555554432 2233344444455556666666665555555432  33221111   0111   1111


Q ss_pred             HHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHH---HHHHHHHHHccCCHHHHHHHHHHHHHHc
Q 006246          351 WKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT---FACVLSACAHAGMIDRGLQALTYMQQMY  427 (654)
Q Consensus       351 ~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t---~~~ll~~~~~~g~~~~a~~~~~~~~~~~  427 (654)
                      .+.++.|            ......+++.++++-.+...+.......++   +..+-.++...|++.+|++...++..  
T Consensus       270 ~K~les~------------e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--  335 (504)
T KOG0624|consen  270 VKSLESA------------EQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--  335 (504)
T ss_pred             HHHHHHH------------HHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh--
Confidence            1111111            112334445555555555444322211222   22223344445556666555555543  


Q ss_pred             CCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          428 GIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       428 g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                       +.|+ +.++.--.++|.-...+++|+.-|+..
T Consensus       336 -~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A  367 (504)
T KOG0624|consen  336 -IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKA  367 (504)
T ss_pred             -cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             3343 445555555555555556665555554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.14  E-value=0.00033  Score=67.29  Aligned_cols=58  Identities=17%  Similarity=0.129  Sum_probs=29.3

Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhcCC-CC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          368 MIGGLAMHGRADDAIELFFKMQREKM-RP-DRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       368 li~~~~~~g~~~~A~~l~~~m~~~g~-~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      +...|.+.|++++|+..|++..+... .| ....+..+..++.+.|+.++|..+++.+..
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~  231 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGA  231 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33445555555566655555554311 11 123445555555555555555555555544

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.13  E-value=0.002  Score=64.95  Aligned_cols=107  Identities=21%  Similarity=0.138  Sum_probs=48.2

Q ss_pred             hcCCHHHHHHHHHhcCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCChhHHHH
Q 006246          242 RFGRFEEARKLFNEMND--K-DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRK-FVLSCVLAACASLGALDQGIW  317 (654)
Q Consensus       242 ~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~  317 (654)
                      ..|++++|+..++.+..  | |+..+......+...++..+|.+.++++...  .|+. .....+..++.+.|++.+|..
T Consensus       318 ~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         318 LAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             HhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHH
Confidence            34445555555444432  2 3334444444555555555555555555443  2332 222233344444555555544


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHH
Q 006246          318 IHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAW  351 (654)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~  351 (654)
                      ++....... +.|+..|..|..+|...|+..+|.
T Consensus       396 ~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~  428 (484)
T COG4783         396 ILNRYLFND-PEDPNGWDLLAQAYAELGNRAEAL  428 (484)
T ss_pred             HHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHH
Confidence            444444332 334444555555555555444443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.12  E-value=0.00012  Score=63.90  Aligned_cols=119  Identities=12%  Similarity=-0.119  Sum_probs=78.1

Q ss_pred             HHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC
Q 006246          353 VFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE  432 (654)
Q Consensus       353 ~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~  432 (654)
                      +|++..+.++..+..+...+.+.|++++|...|++..... +.+...+..+..++...|++++|...|+...+  --+.+
T Consensus        15 ~~~~al~~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~--l~p~~   91 (144)
T PRK15359         15 ILKQLLSVDPETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALM--LDASH   91 (144)
T ss_pred             HHHHHHHcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh--cCCCC
Confidence            4444444444445556667777788888888887777653 23556777777777788888888888887775  23345


Q ss_pred             cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH
Q 006246          433 VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AAVWEALLGA  474 (654)
Q Consensus       433 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~  474 (654)
                      ...+..+..++.+.|++++|++.|++. ...|+ +..|.....+
T Consensus        92 ~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~  135 (144)
T PRK15359         92 PEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNA  135 (144)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            667777777788888888888887776 34453 4444444333

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.11  E-value=4.7e-06  Score=52.77  Aligned_cols=35  Identities=14%  Similarity=0.322  Sum_probs=32.3

Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCc
Q 006246           99 FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNK  133 (654)
Q Consensus        99 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  133 (654)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999984

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.09  E-value=0.00011  Score=63.55  Aligned_cols=113  Identities=10%  Similarity=0.042  Sum_probs=89.5

Q ss_pred             HHHHHhhcCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CC
Q 006246          384 LFFKMQREKMRPDR-ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PM  461 (654)
Q Consensus       384 l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~  461 (654)
                      +|++....  .|+. .....+...+...|++++|.+.|+.+...  .+.+...+..+...|.+.|++++|...+++. ..
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45555554  4433 44666777788899999999999988773  2445677888889999999999999998877 33


Q ss_pred             CC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCC
Q 006246          462 EP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRR  500 (654)
Q Consensus       462 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  500 (654)
                      .| +...|..+...+...|+++.|...++++++++|++..
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            34 6788888999999999999999999999999999863

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.09  E-value=0.00063  Score=62.96  Aligned_cols=122  Identities=11%  Similarity=0.031  Sum_probs=68.9

Q ss_pred             cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHH-HHcCC--hhHHH
Q 006246          309 LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGL-AMHGR--ADDAI  382 (654)
Q Consensus       309 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~-~~~g~--~~~A~  382 (654)
                      .++.+++...+....+.+ +.+...|..|...|...|++++|...|++...   .+...+..+..++ .+.|+  .++|.
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~  130 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTR  130 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHH
Confidence            344455555555555444 34556666666666666666666666665543   2555555555543 45455  36666


Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcc
Q 006246          383 ELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVE  434 (654)
Q Consensus       383 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~  434 (654)
                      +++++..+.+.. +...+..+...+...|++++|+..|+++.+  ..+|+..
T Consensus       131 ~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~--l~~~~~~  179 (198)
T PRK10370        131 EMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLD--LNSPRVN  179 (198)
T ss_pred             HHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCcc
Confidence            666666665321 444555555666666666666666666665  3344443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.09  E-value=5e-06  Score=52.65  Aligned_cols=35  Identities=40%  Similarity=0.733  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCH
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDR  397 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  397 (654)
                      ++||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37899999999999999999999999999988873

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.08  E-value=0.0017  Score=60.90  Aligned_cols=280  Identities=13%  Similarity=0.072  Sum_probs=193.3

Q ss_pred             HHHHHHhcccccCCChHHHHHHHhcCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHH-HHHH
Q 006246           68 SGTLVKCHANSRFSNFELALKVFNSVHKP---NVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTV-FKAC  143 (654)
Q Consensus        68 ~~~Li~~y~~~~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~~~  143 (654)
                      +++.+..+.+  -.++++|++++..-.++   +....+.|..+|-...++..|-+.|+++-..  .|...-|..- ...+
T Consensus        13 ftaviy~lI~--d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   13 FTAVVYRLIR--DARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSL   88 (459)
T ss_pred             hHHHHHHHHH--HhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHH
Confidence            3444444455  67899999998766543   5556777788888999999999999999775  4555555432 2335


Q ss_pred             hccCCcHHHHHHHHHHHHhCCCCChhhHHHHHH----HHHhcCCHHHHHHHHhcCC-CCChhhHHHHHHHHHHcCCHHHH
Q 006246          144 SITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQ----MYACFGCVNKARQILDDGS-KSDVICWNALIDGYLKCGDIEGA  218 (654)
Q Consensus       144 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~----~y~~~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A  218 (654)
                      -+.+.+..|..+...|...   +  ...+..+.    .....+++..++.+++..+ +.+..+.+...-...+.|+++.|
T Consensus        89 Y~A~i~ADALrV~~~~~D~---~--~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaA  163 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLDN---P--ALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAA  163 (459)
T ss_pred             HHhcccHHHHHHHHHhcCC---H--HHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHH
Confidence            5677888888888877532   2  22222221    2335788999999999987 46677777776677899999999


Q ss_pred             HHHHHhcCC----CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC-----------------CH---------------h
Q 006246          219 KELFKSTKD----KNTGSYNAMISGFARFGRFEEARKLFNEMNDK-----------------DE---------------I  262 (654)
Q Consensus       219 ~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----------------~~---------------~  262 (654)
                      ++-|+...+    .....||.-+..| +.|+++.|++...++.++                 |+               .
T Consensus       164 vqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~e  242 (459)
T KOG4340|consen  164 VQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVE  242 (459)
T ss_pred             HHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHH
Confidence            999998876    3445677666555 558999999998887642                 11               1


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRD-KIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      .+|.-...+.+.|+++.|.+.+-.|.-. .-..|++|+..+.-. -..+++..+.+-+..+...+. ....++..++-.|
T Consensus       243 AfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLlly  320 (459)
T KOG4340|consen  243 AFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQNP-FPPETFANLLLLY  320 (459)
T ss_pred             HhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcCC-CChHHHHHHHHHH
Confidence            3444555677889999998888887532 234567777654321 233556777777777777654 4456777788889


Q ss_pred             HHcCCHHHHHHHHhhcCC
Q 006246          342 AKCGRLDMAWKVFEDMKM  359 (654)
Q Consensus       342 ~~~g~~~~A~~~~~~m~~  359 (654)
                      +|..-++.|-.++.+-..
T Consensus       321 CKNeyf~lAADvLAEn~~  338 (459)
T KOG4340|consen  321 CKNEYFDLAADVLAENAH  338 (459)
T ss_pred             hhhHHHhHHHHHHhhCcc
Confidence            998888888888776544

>PLN02789 farnesyltranstransferase

Probab=98.08  E-value=0.001  Score=66.34  Aligned_cols=126  Identities=10%  Similarity=0.080  Sum_probs=59.4

Q ss_pred             HHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhc---CCh----HHHHH
Q 006246          216 EGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKD---GYY----KEALE  282 (654)
Q Consensus       216 ~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~---g~~----~~A~~  282 (654)
                      ++++.+++.+.+   .|..+|+.....+.+.|++++|++.++++.+   .|..+|+.....+.+.   |..    +++++
T Consensus       125 ~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~  204 (320)
T PLN02789        125 NKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSELK  204 (320)
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHHHH
Confidence            344555544443   2334455555555555555566655555543   2444555544444333   111    34555


Q ss_pred             HHHHHHhCCCCCCcchHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH
Q 006246          283 VFNEMQRDKIKPRKFVLSCVLAACAS----LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK  343 (654)
Q Consensus       283 ~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~  343 (654)
                      ...+++... +-|...|..+...+..    .+...++......+.+.+ ..+......|++.|+.
T Consensus       205 y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        205 YTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            554555442 2344455555544444    223344555555544432 2234455556666653

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.06  E-value=0.0042  Score=57.73  Aligned_cols=176  Identities=17%  Similarity=0.079  Sum_probs=123.1

Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC
Q 006246          317 WIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD  396 (654)
Q Consensus       317 ~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  396 (654)
                      ++.+.+.......+......-...|.+.|++++|++.......-+....|  ...+.+..+.+-|.+.+++|.+-   -+
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~i---de  168 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAAALN--VQILLKMHRFDLAEKELKKMQQI---DE  168 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHHHHH--HHHHHHHHHHHHHHHHHHHHHcc---ch
Confidence            34444444444444344444455688889999999988874433333333  34456777888999999999873   26


Q ss_pred             HHHHHHHHHHHHc----cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHH
Q 006246          397 RITFACVLSACAH----AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM--PMEPNAAVWEA  470 (654)
Q Consensus       397 ~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~  470 (654)
                      ..|.+-|..++.+    .+.+.+|.-+|++|.+  ...|+..+.+-+..+....|++++|..++++.  +...++.+...
T Consensus       169 d~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~N  246 (299)
T KOG3081|consen  169 DATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLAN  246 (299)
T ss_pred             HHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHH
Confidence            6777777776653    4568889999999987  46788888888888888899999999999887  33346667666


Q ss_pred             HHHHHHHhCC-hHHHHHHHHHHHhcCCCCC
Q 006246          471 LLGACRKHGE-VEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       471 ll~~~~~~g~-~~~a~~~~~~~~~~~p~~~  499 (654)
                      ++..-...|. .+--.+...++....|+.+
T Consensus       247 liv~a~~~Gkd~~~~~r~l~QLk~~~p~h~  276 (299)
T KOG3081|consen  247 LIVLALHLGKDAEVTERNLSQLKLSHPEHP  276 (299)
T ss_pred             HHHHHHHhCCChHHHHHHHHHHHhcCCcch
Confidence            6655555554 4556777888888888887

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.06  E-value=0.0023  Score=71.22  Aligned_cols=169  Identities=13%  Similarity=0.097  Sum_probs=109.5

Q ss_pred             CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCc-chHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHH
Q 006246          195 SKSDVICWNALIDGYLKCGDIEGAKELFKSTKD--KNT-GSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGY  271 (654)
Q Consensus       195 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  271 (654)
                      .+.+...|..|+..|...+++++|.++.+...+  |+. ..|-.+...+.+.++..++..+             .++..+
T Consensus        27 ~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~   93 (906)
T PRK14720         27 SLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-------------NLIDSF   93 (906)
T ss_pred             CcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhc
Confidence            344566777777777788888888888776654  322 2333333355555554444433             344444


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHH
Q 006246          272 TKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAW  351 (654)
Q Consensus       272 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~  351 (654)
                      ....++.-...+...|...  .-+...+..+..+|.+.|+.+++..+++++++.. +.|+.+.|.+...|+.. ++++|.
T Consensus        94 ~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~  169 (906)
T PRK14720         94 SQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAI  169 (906)
T ss_pred             ccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHH
Confidence            4455554444444455443  2334467777788888888888888888888877 56778888888888888 888888


Q ss_pred             HHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhc
Q 006246          352 KVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQRE  391 (654)
Q Consensus       352 ~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  391 (654)
                      +++.+...           .|...+++.++.+++.++...
T Consensus       170 ~m~~KAV~-----------~~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        170 TYLKKAIY-----------RFIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             HHHHHHHH-----------HHHhhhcchHHHHHHHHHHhc
Confidence            87766533           256666777777777777764

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.01  E-value=0.0015  Score=65.95  Aligned_cols=106  Identities=17%  Similarity=0.152  Sum_probs=51.4

Q ss_pred             cCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC-HHHHHHHHHHHHccCCHHHHHHH
Q 006246          344 CGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD-RITFACVLSACAHAGMIDRGLQA  419 (654)
Q Consensus       344 ~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~  419 (654)
                      .|.+++|+..++.+..   .|+..+......+...++..+|.+.++++...  .|+ ......+..++.+.|+..+|+.+
T Consensus       319 ~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~  396 (484)
T COG4783         319 AGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRI  396 (484)
T ss_pred             hcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHH
Confidence            4455555555544432   24444444455555555555555555555543  333 23333444455555555555555


Q ss_pred             HHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHH
Q 006246          420 LTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       420 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  453 (654)
                      ++....  ..+-|+..|..|..+|...|+..+|.
T Consensus       397 L~~~~~--~~p~dp~~w~~LAqay~~~g~~~~a~  428 (484)
T COG4783         397 LNRYLF--NDPEDPNGWDLLAQAYAELGNRAEAL  428 (484)
T ss_pred             HHHHhh--cCCCCchHHHHHHHHHHHhCchHHHH
Confidence            555443  33444445555555555555554444

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.00  E-value=0.0011  Score=61.00  Aligned_cols=161  Identities=17%  Similarity=0.231  Sum_probs=119.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCCC-----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKMK-----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACA  408 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~~-----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~  408 (654)
                      +.-++-+...+|+.+.|..+++.+..+     -+.-..+|  -+-..|++++|+++|+..++.. +-|.+++---+...-
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam--~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilk  131 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAM--LLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILK  131 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHH--HHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHH
Confidence            334444555667777777777765542     12222222  2445788999999999999876 446777776666666


Q ss_pred             ccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhC---ChHH
Q 006246          409 HAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHG---EVEF  483 (654)
Q Consensus       409 ~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g---~~~~  483 (654)
                      ..|+--+|++-+....+  .+..|.+.|.-+.+.|...|++++|.-.++++ -..| ++..+..+...+...|   +.+.
T Consensus       132 a~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~  209 (289)
T KOG3060|consen  132 AQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLEL  209 (289)
T ss_pred             HcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHH
Confidence            77877789998888887  47889999999999999999999999999998 2345 5666666666655544   7889


Q ss_pred             HHHHHHHHHhcCCCCC
Q 006246          484 GERLGKILLEMEPQNR  499 (654)
Q Consensus       484 a~~~~~~~~~~~p~~~  499 (654)
                      |.+.|.+++++.|.+.
T Consensus       210 arkyy~~alkl~~~~~  225 (289)
T KOG3060|consen  210 ARKYYERALKLNPKNL  225 (289)
T ss_pred             HHHHHHHHHHhChHhH
Confidence            9999999999999654

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.00  E-value=0.00047  Score=63.87  Aligned_cols=153  Identities=16%  Similarity=0.113  Sum_probs=95.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccC
Q 006246          335 TALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAG  411 (654)
Q Consensus       335 ~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g  411 (654)
                      ..+-..|.-.|+-+.+..+......   .|....+..+....+.|++.+|+..|++..... ++|..+|+.+.-+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHcc
Confidence            3344555555666666555555332   244455556666777777777777777776543 556667777777777777


Q ss_pred             CHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHHhCChHHHHHHHH
Q 006246          412 MIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPM--EPNAAVWEALLGACRKHGEVEFGERLGK  489 (654)
Q Consensus       412 ~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~  489 (654)
                      +.++|..-|.+..+-.  .-+...++.|.-.|.-.|+++.|..++.+.-.  ..|..+-..|.-.....|++++|+.+..
T Consensus       149 r~~~Ar~ay~qAl~L~--~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELA--PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhc--cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            7777777777776632  22344566666667777777777777766521  1256666666666777777777766554


Q ss_pred             H
Q 006246          490 I  490 (654)
Q Consensus       490 ~  490 (654)
                      +
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            3

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=97.97  E-value=0.0021  Score=59.61  Aligned_cols=156  Identities=15%  Similarity=0.076  Sum_probs=121.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcC
Q 006246          300 SCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHG  376 (654)
Q Consensus       300 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g  376 (654)
                      ...-.++...|+-+....+....... .+.|..+.+.++....+.|++..|...|.+...   +|...|+.+..+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHcc
Confidence            44445555666666666555554322 244666777788888999999999999998875   47889999999999999


Q ss_pred             ChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHH
Q 006246          377 RADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVI  456 (654)
Q Consensus       377 ~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  456 (654)
                      +.++|..-|.+..+.. .-+...++.+...+.-.|+.+.|..++.....  .-.-|..+-..+.-+.+..|++++|..+.
T Consensus       149 r~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l--~~~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         149 RFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYL--SPAADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             ChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHh--CCCCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            9999999999998852 22556788888888899999999999998876  33346777888889999999999999887


Q ss_pred             HhC
Q 006246          457 SSM  459 (654)
Q Consensus       457 ~~m  459 (654)
                      ..-
T Consensus       226 ~~e  228 (257)
T COG5010         226 VQE  228 (257)
T ss_pred             ccc
Confidence            654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.96  E-value=1.2e-05  Score=50.49  Aligned_cols=34  Identities=35%  Similarity=0.660  Sum_probs=30.0

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCC
Q 006246           98 VFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKP  131 (654)
Q Consensus        98 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  131 (654)
                      +.+||.+|.+|++.|+++.|+++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3689999999999999999999999999988887

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.94  E-value=0.0018  Score=72.02  Aligned_cols=143  Identities=11%  Similarity=0.002  Sum_probs=81.0

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhcCC--CC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 006246          229 NTGSYNAMISGFARFGRFEEARKLFNEMND--KD-EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA  305 (654)
Q Consensus       229 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  305 (654)
                      +...+..|+..|...+++++|.++.+...+  |+ ...|-.+...+.+.++.+++..+  .+..               .
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~---------------~   92 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NLID---------------S   92 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hhhh---------------h
Confidence            445566677777677777777776665443  22 22333333355555555554444  2221               1


Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHH
Q 006246          306 CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      .....++.....++..+...+  .+...+..|..+|-+.|+.++|.++++++.+   .|+.+.|.+...|+.. +.++|+
T Consensus        93 ~~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~  169 (906)
T PRK14720         93 FSQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAI  169 (906)
T ss_pred             cccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHH
Confidence            112222222223333333322  2333556677777777888888888777765   3667777777777777 777787


Q ss_pred             HHHHHHhhc
Q 006246          383 ELFFKMQRE  391 (654)
Q Consensus       383 ~l~~~m~~~  391 (654)
                      +++.+....
T Consensus       170 ~m~~KAV~~  178 (906)
T PRK14720        170 TYLKKAIYR  178 (906)
T ss_pred             HHHHHHHHH
Confidence            777776653

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.91  E-value=0.00034  Score=71.08  Aligned_cols=127  Identities=15%  Similarity=0.141  Sum_probs=99.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM  412 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  412 (654)
                      ...+|+..+...++++.|..+|+++.+.++..+..++..+...++-.+|++++++.++.. +-|...+..-...|.+.++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            334566667777889999999999888777667778888888888889999999888652 2355555555666888899


Q ss_pred             HHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhCCCCC
Q 006246          413 IDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSMPMEP  463 (654)
Q Consensus       413 ~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  463 (654)
                      .+.|..+.+++.+   ..|+ ..+|..|+.+|.+.|++++|+..++.+|.-|
T Consensus       250 ~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  250 YELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             HHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            9999999998886   3554 5589999999999999999999999887543

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.90  E-value=2e-05  Score=49.45  Aligned_cols=33  Identities=33%  Similarity=0.610  Sum_probs=29.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP  294 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  294 (654)
                      .+||.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            579999999999999999999999999998887

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.85  E-value=0.00034  Score=71.06  Aligned_cols=122  Identities=15%  Similarity=0.141  Sum_probs=84.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhH
Q 006246          235 AMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQ  314 (654)
Q Consensus       235 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  314 (654)
                      +|+..+...++++.|..+|+++.+.++.....++..+...++..+|++++++..+.. +-+...+..-...|.+.++.+.
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~l  252 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYEL  252 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHH
Confidence            444555566778888888888887776677777888888888888888888887652 2233344444445667777777


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          315 GIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       315 a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                      |.++.+++.+.. +.+..+|..|..+|.+.|+++.|+..++.++
T Consensus       253 AL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  253 ALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            777777777654 3345577777777777777777777777666

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.81  E-value=0.0059  Score=56.79  Aligned_cols=107  Identities=16%  Similarity=0.135  Sum_probs=56.4

Q ss_pred             HHHHcCCHHHHHHHHhhcCCC-CHHHHHHHHHHHHH----cCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKMK-EVFTWNAMIGGLAM----HGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMID  414 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~~-~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  414 (654)
                      .+.|..+.+-|.+.+++|.+- +-.+.+.|..++.+    .++..+|.-+|++|.++ ..|+..+.+...-++...|+++
T Consensus       146 I~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~e  224 (299)
T KOG3081|consen  146 ILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYE  224 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHH
Confidence            344455566666666666553 23344444444333    23456666666666553 4566666666666666666666


Q ss_pred             HHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCH
Q 006246          415 RGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYL  449 (654)
Q Consensus       415 ~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  449 (654)
                      +|..+++....+  -..++++...+|-.---.|..
T Consensus       225 eAe~lL~eaL~k--d~~dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  225 EAESLLEEALDK--DAKDPETLANLIVLALHLGKD  257 (299)
T ss_pred             HHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCC
Confidence            666666666553  223334444444433344443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.80  E-value=0.00098  Score=58.45  Aligned_cols=125  Identities=17%  Similarity=0.110  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC---HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC--cchHHHH
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQREKMRPD---RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE--VEHYGCI  439 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~--~~~~~~l  439 (654)
                      |..++..+ ..++...+...++++.+... .+   ......+...+...|++++|...|+.+... ...|.  ....-.|
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~-~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYP-SSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHH
Confidence            44444444 47777888888888877532 12   123344556777888888888888888874 32222  1234456


Q ss_pred             HHHHHHcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHHhCChHHHHHHHHHHH
Q 006246          440 VDLLGRAGYLAEAEEVISSMPM-EPNAAVWEALLGACRKHGEVEFGERLGKILL  492 (654)
Q Consensus       440 i~~~~~~g~~~~A~~~~~~m~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  492 (654)
                      ..++...|++++|+..++..+. ...+..+...+..+...|+.++|+..|++++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            7778889999999999887642 2346677788888999999999999888763

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.77  E-value=0.097  Score=57.04  Aligned_cols=212  Identities=12%  Similarity=0.041  Sum_probs=140.1

Q ss_pred             CCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCchHHH
Q 006246           42 CHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEPWRVI  118 (654)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~  118 (654)
                      ..+++..|.+..+.+++..  |+ ..|...+.++...|.|+.++|..+++...   ..|..+...+-.+|...++.++|.
T Consensus        21 d~~qfkkal~~~~kllkk~--Pn-~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH--PN-ALYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC--CC-cHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHH
Confidence            4677888888888888764  33 35666667776666999999998888765   346778888888999999999999


Q ss_pred             HHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCC----------HHHHH
Q 006246          119 SLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGC----------VNKAR  188 (654)
Q Consensus       119 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~----------~~~A~  188 (654)
                      .+|++..+.  -|+......++.++.+.+++.+-.++--++-+ .++.+++.+=++++.+...-.          ..-|.
T Consensus        98 ~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   98 HLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            999998865  57777778888889988887766665555554 344555555556666543321          23355


Q ss_pred             HHHhcCCCCC-----hhhHHHHHHHHHHcCCHHHHHHHHHh-c----CCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 006246          189 QILDDGSKSD-----VICWNALIDGYLKCGDIEGAKELFKS-T----KDKNTGSYNAMISGFARFGRFEEARKLFNEMND  258 (654)
Q Consensus       189 ~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~-m----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  258 (654)
                      ++++.+...+     ..-.---...+-..|.+++|+.++.. .    ...+...-+--+..+...+++.+-.++-.++..
T Consensus       175 ~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~  254 (932)
T KOG2053|consen  175 KMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLE  254 (932)
T ss_pred             HHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence            5555553333     11111122334567888888888732 2    223444445667777777887776666655554


Q ss_pred             C
Q 006246          259 K  259 (654)
Q Consensus       259 ~  259 (654)
                      +
T Consensus       255 k  255 (932)
T KOG2053|consen  255 K  255 (932)
T ss_pred             h
Confidence            3

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.76  E-value=0.0026  Score=69.98  Aligned_cols=129  Identities=12%  Similarity=0.043  Sum_probs=74.6

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKF-VLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALV  338 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  338 (654)
                      ++..+-.|.....+.|.+++|..+++...+.  .||.. ....+..++.+.+++++|....+...... +.+....+.+.
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a  161 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEA  161 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHH
Confidence            3555666666666666666666666666654  44332 34444555666666666666666666554 23444555555


Q ss_pred             HHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhc
Q 006246          339 DMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQRE  391 (654)
Q Consensus       339 ~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  391 (654)
                      .++.+.|++++|..+|+++..+   +..+|..+..++...|+.++|...|++..+.
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5666666666666666665532   2445555556666666666666666665543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.73  E-value=0.062  Score=53.50  Aligned_cols=124  Identities=15%  Similarity=0.181  Sum_probs=91.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHH
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDR  415 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  415 (654)
                      ..+.-+...|....|.++-.+..-++-..|-..+.+|+..++|++-.++...      +-.++-|..++.+|.+.|...+
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~e  255 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKE  255 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHH
Confidence            3355556678888999998888888888999999999999999877765432      1234778888999999999998


Q ss_pred             HHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhC
Q 006246          416 GLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHG  479 (654)
Q Consensus       416 a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g  479 (654)
                      |..+..++           .+..-+.+|.++|++.+|.+.--+.+   |...+..+..-|..+.
T Consensus       256 A~~yI~k~-----------~~~~rv~~y~~~~~~~~A~~~A~~~k---d~~~L~~i~~~~~~~~  305 (319)
T PF04840_consen  256 ASKYIPKI-----------PDEERVEMYLKCGDYKEAAQEAFKEK---DIDLLKQILKRCPGNN  305 (319)
T ss_pred             HHHHHHhC-----------ChHHHHHHHHHCCCHHHHHHHHHHcC---CHHHHHHHHHHCCCCC
Confidence            88877652           23566788899999999988766654   5555555555444433

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.69  E-value=0.00029  Score=66.49  Aligned_cols=100  Identities=18%  Similarity=0.183  Sum_probs=74.4

Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHhCChHH
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AAVWEALLGACRKHGEVEF  483 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~  483 (654)
                      ..+.+++.+|+..|...++   +.|. ...|..=..+|.+.|.++.|++-.+.. .+.|. ..+|..|..+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            3456777777777777765   3443 444555567788888888888777765 45564 6789999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCchHHHHHHH
Q 006246          484 GERLGKILLEMEPQNRRCDDVAKMRK  509 (654)
Q Consensus       484 a~~~~~~~~~~~p~~~~~~~a~~~~~  509 (654)
                      |++.|+++++++|++..|....++-+
T Consensus       168 A~~aykKaLeldP~Ne~~K~nL~~Ae  193 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNESYKSNLKIAE  193 (304)
T ss_pred             HHHHHHhhhccCCCcHHHHHHHHHHH
Confidence            99999999999999875555554433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.67  E-value=5.1e-05  Score=46.35  Aligned_cols=31  Identities=13%  Similarity=0.209  Sum_probs=26.1

Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHhHhCCC
Q 006246           99 FVWNSVLRACLEHNEPWRVISLYSEMVGVDS  129 (654)
Q Consensus        99 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  129 (654)
                      ++||.||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888887763

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.66  E-value=0.00077  Score=56.67  Aligned_cols=101  Identities=13%  Similarity=0.079  Sum_probs=65.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN----AAVWEALL  472 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll  472 (654)
                      ++..+...+...|++++|...|..+.+.++-.| ....+..+..++.+.|++++|.+.++.+ ...|+    ..++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344555556666777777777777665321111 1234555667777777777777777765 22222    45677777


Q ss_pred             HHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          473 GACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       473 ~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ..+...|+.+.|...++++++..|++.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~  110 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSS  110 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCCh
Confidence            788888888888888888888888764

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.66  E-value=4.9e-05  Score=46.45  Aligned_cols=31  Identities=29%  Similarity=0.610  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCC
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKM  393 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  393 (654)
                      ++||+|+++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677788888888888888888888777663

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.63  E-value=0.0032  Score=55.16  Aligned_cols=122  Identities=13%  Similarity=0.151  Sum_probs=70.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCc----chHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc--hhHHHHH
Q 006246          264 WSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRK----FVLSCVLAACASLGALDQGIWIHDHVKRNSICVD--AVLGTAL  337 (654)
Q Consensus       264 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l  337 (654)
                      |..++..+ ..++...+...++.+....  |+.    ...-.+...+...|++++|...|+.+......++  ....-.|
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            34444444 3667777777777776652  222    1122233455666777777777777776552222  1233345


Q ss_pred             HHHHHHcCCHHHHHHHHhhcCCC--CHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 006246          338 VDMYAKCGRLDMAWKVFEDMKMK--EVFTWNAMIGGLAMHGRADDAIELFFKM  388 (654)
Q Consensus       338 i~~y~~~g~~~~A~~~~~~m~~~--~~~~~~~li~~~~~~g~~~~A~~l~~~m  388 (654)
                      ...+...|++++|+..++....+  ....+......|...|+.++|...|++.
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            66667777777777777665443  3345555666677777777777777653

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.61  E-value=0.0013  Score=56.82  Aligned_cols=91  Identities=19%  Similarity=0.164  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHcc
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHA  410 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  410 (654)
                      ...+...|.+.|++++|...|+.+..   .+...|..+...|...|++++|...|++..+.+ +.+...+..+...+...
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~   98 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHc
Confidence            33444445555555555555544432   234455555555555555555555555554432 22334444445555555


Q ss_pred             CCHHHHHHHHHHHHH
Q 006246          411 GMIDRGLQALTYMQQ  425 (654)
Q Consensus       411 g~~~~a~~~~~~~~~  425 (654)
                      |++++|...|+...+
T Consensus        99 g~~~~A~~~~~~al~  113 (135)
T TIGR02552        99 GEPESALKALDLAIE  113 (135)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555555544

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.53  E-value=0.0011  Score=52.61  Aligned_cols=89  Identities=20%  Similarity=0.137  Sum_probs=43.4

Q ss_pred             HHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHH
Q 006246          406 ACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEF  483 (654)
Q Consensus       406 ~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~  483 (654)
                      .+...|++++|...++.+.+.  .+.+...+..+...+...|++++|.+.+++. .. +.+..+|..+...+...|+.+.
T Consensus         9 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (100)
T cd00189           9 LYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEE   86 (100)
T ss_pred             HHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHHH
Confidence            333444444444444444331  1111233444444455555555555555443 11 1233455566666666666666


Q ss_pred             HHHHHHHHHhcCC
Q 006246          484 GERLGKILLEMEP  496 (654)
Q Consensus       484 a~~~~~~~~~~~p  496 (654)
                      |...++++++..|
T Consensus        87 a~~~~~~~~~~~~   99 (100)
T cd00189          87 ALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHccCC
Confidence            6666666666555

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.47  E-value=0.00036  Score=51.44  Aligned_cols=61  Identities=21%  Similarity=0.278  Sum_probs=52.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          439 IVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       439 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +...+.+.|++++|++.|++. ...| +...|..+...+...|++++|...++++++.+|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            456788999999999999988 4445 688999999999999999999999999999999874

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.45  E-value=0.0031  Score=62.01  Aligned_cols=134  Identities=13%  Similarity=0.200  Sum_probs=101.8

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH-HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA-CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD  441 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~-~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~  441 (654)
                      .+|-.++....+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+.+  ..+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
Confidence            468888888888888999999999998643 2234445544444 333567777999999999864  456677899999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          442 LLGRAGYLAEAEEVISSM-PMEPN----AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+.+.|+.+.|..+|++. ..-|.    ..+|...+.--.+.|+++...++.+++.+.-|++.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            999999999999999987 22233    35999999999999999999999999999988854

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.43  E-value=0.14  Score=54.14  Aligned_cols=353  Identities=15%  Similarity=0.173  Sum_probs=168.0

Q ss_pred             HHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHh-CCCCCCcc--cHHH--H--HHHHhccCCcHHHHHHH
Q 006246           84 ELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVG-VDSKPNKF--TYPT--V--FKACSITEADKEGVQVH  156 (654)
Q Consensus        84 ~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~--t~~~--l--l~~~~~~~~~~~a~~~~  156 (654)
                      ++|.+..+.  .|....|..+...-...-.++-|...|-+... .|++.-..  |..+  +  ...-+--|++++|+.++
T Consensus       680 edA~qfiEd--nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~y  757 (1189)
T KOG2041|consen  680 EDAIQFIED--NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLY  757 (1189)
T ss_pred             HHHHHHHhc--CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhh
Confidence            444444443  34455677776655555555556555554432 12211000  0000  0  01112346677777766


Q ss_pred             HHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCC-----hhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcc
Q 006246          157 AHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSD-----VICWNALIDGYLKCGDIEGAKELFKSTKDKNTG  231 (654)
Q Consensus       157 ~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  231 (654)
                      -.+-+..         ..+.++.+.|++-...++++.+...+     ..+|+.+..-++....+++|.+.|..-..    
T Consensus       758 ld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~----  824 (1189)
T KOG2041|consen  758 LDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD----  824 (1189)
T ss_pred             hccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc----
Confidence            6655443         24566777777777777777653221     34677777777777777777777655432    


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC
Q 006246          232 SYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGA  311 (654)
Q Consensus       232 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  311 (654)
                       -...+.+|.+..++++-+.+-..+++. ....-.|..++...|.-++|.+.|-+-   + .|     ...+..|..+++
T Consensus       825 -~e~~~ecly~le~f~~LE~la~~Lpe~-s~llp~~a~mf~svGMC~qAV~a~Lr~---s-~p-----kaAv~tCv~LnQ  893 (1189)
T KOG2041|consen  825 -TENQIECLYRLELFGELEVLARTLPED-SELLPVMADMFTSVGMCDQAVEAYLRR---S-LP-----KAAVHTCVELNQ  893 (1189)
T ss_pred             -hHhHHHHHHHHHhhhhHHHHHHhcCcc-cchHHHHHHHHHhhchHHHHHHHHHhc---c-Cc-----HHHHHHHHHHHH
Confidence             122345555555555555555555443 233445666677777777776665322   1 11     134455666666


Q ss_pred             hhHHHHHHHHHHHcCC-----------CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH---HHHHHHHHHH----H
Q 006246          312 LDQGIWIHDHVKRNSI-----------CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV---FTWNAMIGGL----A  373 (654)
Q Consensus       312 ~~~a~~~~~~~~~~~~-----------~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~---~~~~~li~~~----~  373 (654)
                      +.+|.++-+...-..+           -.+..+ ---|..+.+.|+.-+|-+++.+|.++..   +.|--+=..|    .
T Consensus       894 W~~avelaq~~~l~qv~tliak~aaqll~~~~~-~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~Al  972 (1189)
T KOG2041|consen  894 WGEAVELAQRFQLPQVQTLIAKQAAQLLADANH-MEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGAL  972 (1189)
T ss_pred             HHHHHHHHHhccchhHHHHHHHHHHHHHhhcch-HHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHH
Confidence            6666554433210000           000000 0124556666666566666655554211   0111110001    0


Q ss_pred             HcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHH
Q 006246          374 MHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       374 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  453 (654)
                      -..+..++++-.++....|...|...       +...|...++.++.+..-.  |  ....++..|.+--...|.++.|+
T Consensus       973 LvE~h~~~ik~~~~~~~~g~~~dat~-------lles~~l~~~~ri~~n~Wr--g--AEAyHFmilAQrql~eg~v~~Al 1041 (1189)
T KOG2041|consen  973 LVENHRQTIKELRKIDKHGFLEDATD-------LLESGLLAEQSRILENTWR--G--AEAYHFMILAQRQLFEGRVKDAL 1041 (1189)
T ss_pred             HHHHHHHHHHHhhhhhhcCcchhhhh-------hhhhhhhhhHHHHHHhhhh--h--HHHHHHHHHHHHHHHhchHHHHH
Confidence            11223344444444444443322221       1223333444444443322  1  22345555666666788888888


Q ss_pred             HHHHhCC----CCCCHHHHHHHHHH
Q 006246          454 EVISSMP----MEPNAAVWEALLGA  474 (654)
Q Consensus       454 ~~~~~m~----~~p~~~~~~~ll~~  474 (654)
                      +.--.+.    +-|-..+|..|.-+
T Consensus      1042 ~Tal~L~DYEd~lpP~eiySllALa 1066 (1189)
T KOG2041|consen 1042 QTALILSDYEDFLPPAEIYSLLALA 1066 (1189)
T ss_pred             HHHhhhccHhhcCCHHHHHHHHHHH
Confidence            7544442    33445556554433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.38  E-value=0.0066  Score=64.77  Aligned_cols=140  Identities=11%  Similarity=0.029  Sum_probs=99.1

Q ss_pred             CCCHHHHHHHHHHHHHcC-----ChhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHcc--------CCHHHHHHHHHHHH
Q 006246          359 MKEVFTWNAMIGGLAMHG-----RADDAIELFFKMQREKMRPDRI-TFACVLSACAHA--------GMIDRGLQALTYMQ  424 (654)
Q Consensus       359 ~~~~~~~~~li~~~~~~g-----~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~--------g~~~~a~~~~~~~~  424 (654)
                      ..|...|...+.+.....     ..+.|..+|++..+.  .||.. .|..+..++...        +++..+.+..+...
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            357778888877754432     367899999999885  56643 444333322211        12334444444433


Q ss_pred             HHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCC
Q 006246          425 QMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRR  500 (654)
Q Consensus       425 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  500 (654)
                      .......+...|..+.-.....|++++|...++++ ...|+...|..+...+...|+.++|...+++++.++|.++.
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            31113334567888877777889999999999988 56789999999999999999999999999999999999873

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.33  E-value=0.11  Score=48.36  Aligned_cols=179  Identities=13%  Similarity=0.125  Sum_probs=87.0

Q ss_pred             ChHHHHHHHHHHHh---CC-CCCCcch-HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHH
Q 006246          276 YYKEALEVFNEMQR---DK-IKPRKFV-LSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMA  350 (654)
Q Consensus       276 ~~~~A~~~~~~m~~---~g-~~p~~~t-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A  350 (654)
                      ++++.++++.++..   .| ..++..+ |-.++-+....|+.+.|...+..+...- +.+..+...-.-.+-..|.+++|
T Consensus        27 nseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~A  105 (289)
T KOG3060|consen   27 NSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKEA  105 (289)
T ss_pred             CHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhhH
Confidence            34555555555433   22 3333332 2333444445555566666555554432 22222222222223345566666


Q ss_pred             HHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHc
Q 006246          351 WKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMY  427 (654)
Q Consensus       351 ~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~  427 (654)
                      .++++.+.+.   |.+++---+...-..|+.-+|++-+.+-.+. +..|...|.-+...|...|++++|.-.++++.-  
T Consensus       106 ~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll--  182 (289)
T KOG3060|consen  106 IEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL--  182 (289)
T ss_pred             HHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH--
Confidence            6666665543   3344444444555555555666655555544 344666666666666666666666666666653  


Q ss_pred             CCCCC-cchHHHHHHHHHHcC---CHHHHHHHHHhC
Q 006246          428 GIDPE-VEHYGCIVDLLGRAG---YLAEAEEVISSM  459 (654)
Q Consensus       428 g~~p~-~~~~~~li~~~~~~g---~~~~A~~~~~~m  459 (654)
                       +.|. ...+..+.+.+.-.|   +++-|.+.|.+.
T Consensus       183 -~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~a  217 (289)
T KOG3060|consen  183 -IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERA  217 (289)
T ss_pred             -cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence             2332 223344444433333   344455555544

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.28  E-value=0.0036  Score=49.47  Aligned_cols=92  Identities=14%  Similarity=0.067  Sum_probs=49.5

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHH
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLG  444 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~  444 (654)
                      |..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|.+.++.....  .+.+...+..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALEL--DPDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHH
Confidence            3444555555666666666666655532 122344555555555566666666666665542  1222345555556666


Q ss_pred             HcCCHHHHHHHHHhC
Q 006246          445 RAGYLAEAEEVISSM  459 (654)
Q Consensus       445 ~~g~~~~A~~~~~~m  459 (654)
                      ..|++++|...+++.
T Consensus        80 ~~~~~~~a~~~~~~~   94 (100)
T cd00189          80 KLGKYEEALEAYEKA   94 (100)
T ss_pred             HHHhHHHHHHHHHHH
Confidence            666666666665543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.27  E-value=0.0072  Score=54.72  Aligned_cols=127  Identities=15%  Similarity=0.143  Sum_probs=82.8

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHH
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD--RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYG  437 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~  437 (654)
                      ....+..+...+...|++++|+..|++..+....++  ...+..+...+.+.|++++|...+.+..+.   .| +...+.
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~  110 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSALN  110 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHH
Confidence            445677777778888888888888888876543332  346677777778888888888888877763   23 344555


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHH
Q 006246          438 CIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKL  510 (654)
Q Consensus       438 ~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~  510 (654)
                      .+..+|...|+...+..-++..                  ...+++|.+.++++++.+|++  ..++....+.
T Consensus       111 ~lg~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~--~~~~~~~~~~  163 (172)
T PRK02603        111 NIAVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN--YIEAQNWLKT  163 (172)
T ss_pred             HHHHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh--HHHHHHHHHh
Confidence            6666666666665554332221                  112677888899999999886  3444444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.27  E-value=0.05  Score=53.72  Aligned_cols=100  Identities=13%  Similarity=0.195  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcc------hHHHHHHHHHhcCChhHHHHHHHHHHHc--CCCC--chh
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKF------VLSCVLAACASLGALDQGIWIHDHVKRN--SICV--DAV  332 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~------t~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~--~~~  332 (654)
                      .+..+...+.+.|++++|.++|++....-...+..      .|...+-++...|+...|...++.....  ++..  ...
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            45667777888888888888888876643222111      1222233445566777777777766543  2222  233


Q ss_pred             HHHHHHHHHHHc--CCHHHHHHHHhhcCCCCH
Q 006246          333 LGTALVDMYAKC--GRLDMAWKVFEDMKMKEV  362 (654)
Q Consensus       333 ~~~~li~~y~~~--g~~~~A~~~~~~m~~~~~  362 (654)
                      +...|+.+|-..  ..+++|..-|+.+..-|.
T Consensus       237 ~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~  268 (282)
T PF14938_consen  237 FLEDLLEAYEEGDVEAFTEAVAEYDSISRLDN  268 (282)
T ss_dssp             HHHHHHHHHHTT-CCCHHHHCHHHTTSS---H
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcccCccHH
Confidence            445566666432  346666666666665443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.22  E-value=0.028  Score=55.48  Aligned_cols=101  Identities=13%  Similarity=0.145  Sum_probs=58.3

Q ss_pred             HHHHcc-CCHHHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhCC---C-----CCCHH-HHHH
Q 006246          405 SACAHA-GMIDRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSMP---M-----EPNAA-VWEA  470 (654)
Q Consensus       405 ~~~~~~-g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~---~-----~p~~~-~~~~  470 (654)
                      ..|... |++++|++.|++..+.+.....    ...+..+...+.+.|++++|.++|++..   .     +.+.. .+-.
T Consensus       122 ~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~  201 (282)
T PF14938_consen  122 EIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLK  201 (282)
T ss_dssp             HHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHH
Confidence            344455 6777777777776654322222    2345566677888888888888887651   1     11111 2222


Q ss_pred             HHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHH
Q 006246          471 LLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVA  505 (654)
Q Consensus       471 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~  505 (654)
                      .+-.+...||+..|.+.+++..+.+|.-..-+|..
T Consensus       202 a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  202 AILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            33355667888888888888888888766444443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.21  E-value=0.00084  Score=52.48  Aligned_cols=79  Identities=16%  Similarity=0.245  Sum_probs=36.3

Q ss_pred             cCChhHHHHHHHHHhhcCCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHH
Q 006246          375 HGRADDAIELFFKMQREKMR-PDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEA  452 (654)
Q Consensus       375 ~g~~~~A~~l~~~m~~~g~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A  452 (654)
                      .|+++.|+.+|+++.+.... |+...+..+..++.+.|++++|..+++. .+   ..|. ....-.+..+|.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~---~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK---LDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT---HHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC---CCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            35556666666666554221 1233333455555555666666555555 11   1111 12222334555555555555


Q ss_pred             HHHHH
Q 006246          453 EEVIS  457 (654)
Q Consensus       453 ~~~~~  457 (654)
                      ++.++
T Consensus        78 i~~l~   82 (84)
T PF12895_consen   78 IKALE   82 (84)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            55554

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.21  E-value=0.0036  Score=63.86  Aligned_cols=90  Identities=14%  Similarity=0.066  Sum_probs=47.5

Q ss_pred             HccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHH
Q 006246          408 AHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGE  485 (654)
Q Consensus       408 ~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~  485 (654)
                      ...|++++|++.|+++.+.  -+.+...|..+..+|.+.|++++|+..++++ ...| +...|..+..+|...|++++|+
T Consensus        13 ~~~~~~~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~eA~   90 (356)
T PLN03088         13 FVDDDFALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQTAK   90 (356)
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHHHHH
Confidence            3445555555555555442  1122334444455555555555555555554 2223 3555555666666666666666


Q ss_pred             HHHHHHHhcCCCCC
Q 006246          486 RLGKILLEMEPQNR  499 (654)
Q Consensus       486 ~~~~~~~~~~p~~~  499 (654)
                      ..++++++++|++.
T Consensus        91 ~~~~~al~l~P~~~  104 (356)
T PLN03088         91 AALEKGASLAPGDS  104 (356)
T ss_pred             HHHHHHHHhCCCCH
Confidence            66666666666655

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.20  E-value=0.00073  Score=50.45  Aligned_cols=64  Identities=23%  Similarity=0.213  Sum_probs=54.9

Q ss_pred             cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhC-ChHHHHHHHHHHHhcCC
Q 006246          433 VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHG-EVEFGERLGKILLEMEP  496 (654)
Q Consensus       433 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p  496 (654)
                      ...|..+...+...|++++|+..|++. ...| ++..|..+..++...| ++++|++.++++++++|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            456778888889999999999999877 3344 5888999999999999 79999999999999988

...

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.19  E-value=0.46  Score=51.01  Aligned_cols=149  Identities=13%  Similarity=0.043  Sum_probs=83.3

Q ss_pred             HHhCCCchHHHHHHHHh--------HhCCCCCCcccHHH-----HHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHH
Q 006246          108 CLEHNEPWRVISLYSEM--------VGVDSKPNKFTYPT-----VFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSG  174 (654)
Q Consensus       108 ~~~~g~~~~A~~~~~~m--------~~~g~~p~~~t~~~-----ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  174 (654)
                      +.+.-++++-..+-+++        ..-|++.+..-|..     ++.-+...+.+..|.++-..+-..-... ..++...
T Consensus       399 ~l~~~~~d~~~~v~~~lrVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~W  477 (829)
T KOG2280|consen  399 SLRTPNPDEYMRVCRELRVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEW  477 (829)
T ss_pred             ccccCChHHHHHHHHHHHHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHH
Confidence            33444555544444333        23455555544443     3455566677777777766654221112 5677777


Q ss_pred             HHHHHhcCC---HHHHHHHHhcCCC--CChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC--------CcchHHHHHHHHH
Q 006246          175 IQMYACFGC---VNKARQILDDGSK--SDVICWNALIDGYLKCGDIEGAKELFKSTKDK--------NTGSYNAMISGFA  241 (654)
Q Consensus       175 i~~y~~~g~---~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--------~~~~~~~li~~~~  241 (654)
                      ..-+.+..+   -+-+..+-+++..  ...++|..+..-..++|+.+.|..+++.=...        +..-+..-+.-..
T Consensus       478 a~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kai  557 (829)
T KOG2280|consen  478 ARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAI  557 (829)
T ss_pred             HHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHH
Confidence            777776632   3334444444444  56778888888888899999998887654332        1222333444445


Q ss_pred             hcCCHHHHHHHHHhcC
Q 006246          242 RFGRFEEARKLFNEMN  257 (654)
Q Consensus       242 ~~g~~~~A~~~~~~~~  257 (654)
                      +.|+.+-...++-.+.
T Consensus       558 es~d~~Li~~Vllhlk  573 (829)
T KOG2280|consen  558 ESGDTDLIIQVLLHLK  573 (829)
T ss_pred             hcCCchhHHHHHHHHH
Confidence            5555555555444443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.15  E-value=0.34  Score=48.74  Aligned_cols=413  Identities=13%  Similarity=0.120  Sum_probs=222.6

Q ss_pred             CCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCc---chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHH
Q 006246           62 FQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNV---FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPT  138 (654)
Q Consensus        62 ~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  138 (654)
                      +.|..+|-.||.-|..  .|.+++.++++++|..|-+   .+|...|++-....++.....+|.+-+.....  ...|..
T Consensus        39 PtnI~S~fqLiq~~~t--q~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~--ldLW~l  114 (660)
T COG5107          39 PTNILSYFQLIQYLET--QESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLN--LDLWML  114 (660)
T ss_pred             chhHHHHHHHHHHHhh--hhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhcc--HhHHHH
Confidence            4578899999999999  9999999999999997754   47998898877778899999999988876444  334444


Q ss_pred             HHHHHhccCCcH------HHHHHHHHHHH-hCCCCC-hhhHHHHHHHHH---hcC------CHHHHHHHHhcCCCC---C
Q 006246          139 VFKACSITEADK------EGVQVHAHVVK-NGLCGD-VHVKSSGIQMYA---CFG------CVNKARQILDDGSKS---D  198 (654)
Q Consensus       139 ll~~~~~~~~~~------~a~~~~~~~~~-~g~~~~-~~~~~~li~~y~---~~g------~~~~A~~~~~~~~~~---~  198 (654)
                      -+.-..+....-      .-.+.++..+. .+++|. ...|+..+...-   ..|      +++..++.+.++...   +
T Consensus       115 Yl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~~n  194 (660)
T COG5107         115 YLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPMGN  194 (660)
T ss_pred             HHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCcccc
Confidence            443322222211      12234444443 345543 334555444321   122      344445555554221   1


Q ss_pred             h-hhHHH------HHHHHH-H------cCCHHHHHHHHHhcCC-------C---CcchHHH-----------HHHHHHhc
Q 006246          199 V-ICWNA------LIDGYL-K------CGDIEGAKELFKSTKD-------K---NTGSYNA-----------MISGFARF  243 (654)
Q Consensus       199 ~-~~~~~------li~~~~-~------~g~~~~A~~~~~~m~~-------~---~~~~~~~-----------li~~~~~~  243 (654)
                      . ..|+.      =+.... +      .--+-.|...+++...       .   +..++|.           .|.-=...
T Consensus       195 leklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en  274 (660)
T COG5107         195 LEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEMEN  274 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhhcC
Confidence            1 11111      111000 0      0012233333333321       0   1111111           11100000


Q ss_pred             -----CC-HHH-HHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc-CCh
Q 006246          244 -----GR-FEE-ARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASL-GAL  312 (654)
Q Consensus       244 -----g~-~~~-A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~-g~~  312 (654)
                           |+ .++ ..-+|++...   -....|----.-+...++-+.|++..++....  .|.   ++..++-|-.+ .+-
T Consensus       275 ~l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--sps---L~~~lse~yel~nd~  349 (660)
T COG5107         275 GLKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPS---LTMFLSEYYELVNDE  349 (660)
T ss_pred             CcccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCc---hheeHHHHHhhcccH
Confidence                 00 000 0000111000   01112222222234455666666655433221  222   33333333322 233


Q ss_pred             hHHHHHHHHHHHcCCCCchhHHHHHHHHHHH---------cCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHH
Q 006246          313 DQGIWIHDHVKRNSICVDAVLGTALVDMYAK---------CGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIE  383 (654)
Q Consensus       313 ~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~---------~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~  383 (654)
                      +.....|+...+           .|..-|.+         -|+++.-.+++-+-..+=...|...+..-.+..-.+.|..
T Consensus       350 e~v~~~fdk~~q-----------~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~  418 (660)
T COG5107         350 EAVYGCFDKCTQ-----------DLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARK  418 (660)
T ss_pred             HHHhhhHHHHHH-----------HHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHH
Confidence            322222322211           12222211         1112222222211112345678888888888888899999


Q ss_pred             HHHHHhhcC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchH-HHHHHHHHHcCCHHHHHHHHHhC--
Q 006246          384 LFFKMQREK-MRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHY-GCIVDLLGRAGYLAEAEEVISSM--  459 (654)
Q Consensus       384 l~~~m~~~g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m--  459 (654)
                      +|-+..+.| +.++...+++++.-++ .|+..-|..+|+.-...   -||...| ...+..+.+.++-+.|..+|+..  
T Consensus       419 ~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~---f~d~~~y~~kyl~fLi~inde~naraLFetsv~  494 (660)
T COG5107         419 LFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK---FPDSTLYKEKYLLFLIRINDEENARALFETSVE  494 (660)
T ss_pred             HHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh---CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHH
Confidence            999999988 6677888888887655 57788889999877664   2444443 45667788999999999999965  


Q ss_pred             CCCCC--HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          460 PMEPN--AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       460 ~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      .+..+  ..+|..++.--..-|++..+..+-+++.++-|..
T Consensus       495 r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         495 RLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            22333  6789999999999999999999999999988874

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.12  E-value=0.014  Score=48.77  Aligned_cols=93  Identities=15%  Similarity=0.104  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHH
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQREKMRPD----RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCI  439 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~l  439 (654)
                      +..++..+.+.|++++|.+.|.++.+..  |+    ...+..+..++...|++++|..+|+.+...+.-.| ....+..+
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            4445555666666666666666665532  22    23444455666666666666666666655321111 13345555


Q ss_pred             HHHHHHcCCHHHHHHHHHhC
Q 006246          440 VDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       440 i~~~~~~g~~~~A~~~~~~m  459 (654)
                      ..++.+.|+.++|.+.++++
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~  102 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQV  102 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHH
Confidence            66666666666666666655

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.11  E-value=0.38  Score=48.57  Aligned_cols=138  Identities=11%  Similarity=0.111  Sum_probs=90.1

Q ss_pred             cCCCChHHHHHHHHHHHHhCCCC-----chhHHHHHHHhcccccCCChHHHHHHHhcCCCCC-cchHHHHHHH--HHhCC
Q 006246           41 KCHTSWQHLKQAHAVILKSGHFQ-----DHYVSGTLVKCHANSRFSNFELALKVFNSVHKPN-VFVWNSVLRA--CLEHN  112 (654)
Q Consensus        41 ~~~~~~~~a~~~~~~~~~~g~~~-----~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~-~~~~~~li~~--~~~~g  112 (654)
                      ...+++.++..+|..+.+.--..     .....+.++++|.-   .+++..........+.. -..|-.+..+  +-+.+
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl---~nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k   93 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL---NNLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQK   93 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH---hhHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhh
Confidence            45688999999999998764221     13345788899875   45655555544443211 3345555554  34678


Q ss_pred             CchHHHHHHHHhHhC--CCCC------------CcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCC----CChhhHHHH
Q 006246          113 EPWRVISLYSEMVGV--DSKP------------NKFTYPTVFKACSITEADKEGVQVHAHVVKNGLC----GDVHVKSSG  174 (654)
Q Consensus       113 ~~~~A~~~~~~m~~~--g~~p------------~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~----~~~~~~~~l  174 (654)
                      .+.+|++.+..-.+.  +-.|            |-+.=+.....+...|++.+|+.++++++..=++    -+..+|+.+
T Consensus        94 ~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~  173 (549)
T PF07079_consen   94 EYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRA  173 (549)
T ss_pred             hHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHH
Confidence            899999998777654  2222            1111134455678899999999999998876443    678888888


Q ss_pred             HHHHHhc
Q 006246          175 IQMYACF  181 (654)
Q Consensus       175 i~~y~~~  181 (654)
                      +-++.+.
T Consensus       174 vlmlsrS  180 (549)
T PF07079_consen  174 VLMLSRS  180 (549)
T ss_pred             HHHHhHH
Confidence            8777553

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.10  E-value=0.36  Score=48.13  Aligned_cols=106  Identities=22%  Similarity=0.285  Sum_probs=75.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC
Q 006246          232 SYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGA  311 (654)
Q Consensus       232 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~  311 (654)
                      +.+..|.-+...|+...|.++-.+..-||-..|-..+.+++..++|++-.++..    .  +-.+.-|..++.+|.+.|+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~----s--kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAK----S--KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHh----C--CCCCCChHHHHHHHHHCCC
Confidence            455566667777888888888888877888888888888888888887655432    1  2234677788888888888


Q ss_pred             hhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHH
Q 006246          312 LDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKV  353 (654)
Q Consensus       312 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~  353 (654)
                      ..+|..+...+          .+..-+.+|.++|++.+|.+.
T Consensus       253 ~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  253 KKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHH
Confidence            77777666551          114567778888888887654

Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.04  E-value=0.22  Score=46.51  Aligned_cols=168  Identities=10%  Similarity=0.047  Sum_probs=116.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhcCCC----------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHH
Q 006246          232 SYNAMISGFARFGRFEEARKLFNEMNDK----------DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSC  301 (654)
Q Consensus       232 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  301 (654)
                      -+++|++.+.-..-+++-...|+.-..+          -....+.++..+...|.+.-.+.++++.++...+-+....+.
T Consensus       138 pqesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~  217 (366)
T KOG2796|consen  138 PQESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSG  217 (366)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHH
Confidence            3555555555555555555555443322          223456677777778888888999999988765667777888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHH-----HHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHH
Q 006246          302 VLAACASLGALDQGIWIHDHVKRNSICVDAVLGTA-----LVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLA  373 (654)
Q Consensus       302 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-----li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~  373 (654)
                      +.+.-.+.|+.+.|...++...+..-..+...++.     ....|.-..++..|...|++++.   .|++.-|.-.-+..
T Consensus       218 Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcll  297 (366)
T KOG2796|consen  218 LGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLL  297 (366)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHH
Confidence            88888899999999999998876543333333333     33446667788889888988775   36666777666677


Q ss_pred             HcCChhHHHHHHHHHhhcCCCCCHHHHH
Q 006246          374 MHGRADDAIELFFKMQREKMRPDRITFA  401 (654)
Q Consensus       374 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~  401 (654)
                      -.|+..+|++..+.|.+.  .|...+-+
T Consensus       298 Ylg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  298 YLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             HHHHHHHHHHHHHHHhcc--CCccchhh
Confidence            788999999999999886  44444433

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.03  E-value=0.007  Score=57.44  Aligned_cols=96  Identities=15%  Similarity=0.224  Sum_probs=79.2

Q ss_pred             HHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCC
Q 006246          370 GGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGY  448 (654)
Q Consensus       370 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~  448 (654)
                      .-+.+.+++++|+..|.+.++.. +-|.+-|..=..+|++.|.++.|++-.+....   +.|. ...|..|..+|...|+
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHccCc
Confidence            34667889999999999999863 33777788888899999999999988888775   4554 5689999999999999


Q ss_pred             HHHHHHHHHhC-CCCCCHHHHH
Q 006246          449 LAEAEEVISSM-PMEPNAAVWE  469 (654)
Q Consensus       449 ~~~A~~~~~~m-~~~p~~~~~~  469 (654)
                      +++|++.|++. .++|+-.+|.
T Consensus       165 ~~~A~~aykKaLeldP~Ne~~K  186 (304)
T KOG0553|consen  165 YEEAIEAYKKALELDPDNESYK  186 (304)
T ss_pred             HHHHHHHHHhhhccCCCcHHHH
Confidence            99999999887 6888766654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.02  E-value=0.022  Score=49.37  Aligned_cols=92  Identities=10%  Similarity=0.047  Sum_probs=74.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM  412 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  412 (654)
                      .+..-+...|++++|.++|+-+..   .+..-|-.|...+-..|++++|+..|.......+ -|...+-.+..++...|+
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCC
Confidence            455566778999999999987764   3567788888889999999999999999888753 467788888888999999


Q ss_pred             HHHHHHHHHHHHHHcC
Q 006246          413 IDRGLQALTYMQQMYG  428 (654)
Q Consensus       413 ~~~a~~~~~~~~~~~g  428 (654)
                      .+.|++.|+......+
T Consensus       119 ~~~A~~aF~~Ai~~~~  134 (157)
T PRK15363        119 VCYAIKALKAVVRICG  134 (157)
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999998887544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.98  E-value=0.049  Score=56.82  Aligned_cols=220  Identities=15%  Similarity=0.140  Sum_probs=112.9

Q ss_pred             HHHHHHHHhccCCcHHHHH--HHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcC
Q 006246          136 YPTVFKACSITEADKEGVQ--VHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCG  213 (654)
Q Consensus       136 ~~~ll~~~~~~~~~~~a~~--~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  213 (654)
                      ++..-++|.+..+..--+-  -++.+.+.|-.|+...   +...++-.|++.+|-++|                  .++|
T Consensus       601 f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklF------------------k~~G  659 (1081)
T KOG1538|consen  601 FETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLF------------------KRSG  659 (1081)
T ss_pred             hHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHH------------------HHcC
Confidence            4444455555555443332  2445666676566543   344556677888887777                  4455


Q ss_pred             CHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCC--CCHhHHHHHHHHHHhcCChHHHHHHHHH-----
Q 006246          214 DIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMND--KDEITWSAIIDGYTKDGYYKEALEVFNE-----  286 (654)
Q Consensus       214 ~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~-----  286 (654)
                      .-..|+++|..|+--      -...-|.+.|..++-..+.++-.+  .|+----+....+...|+.++|..+.-+     
T Consensus       660 ~enRAlEmyTDlRMF------D~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d  733 (1081)
T KOG1538|consen  660 HENRALEMYTDLRMF------DYAQEFLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVD  733 (1081)
T ss_pred             chhhHHHHHHHHHHH------HHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHH
Confidence            555555555444311      011222222322222222211100  0100001222334445555555443211     


Q ss_pred             -HHhCCC---CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C
Q 006246          287 -MQRDKI---KPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K  360 (654)
Q Consensus       287 -m~~~g~---~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~  360 (654)
                       +.+-+-   ..+..+...+...+-+...+..|-++|..+-..         .+++++....++|++|..+-++.++  +
T Consensus       734 ~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~  804 (1081)
T KOG1538|consen  734 MLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKD  804 (1081)
T ss_pred             HHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccccc
Confidence             111111   223344445555556667777888888776543         2578888888999999998888876  3


Q ss_pred             CHH-----------HHHHHHHHHHHcCChhHHHHHHHHHhhc
Q 006246          361 EVF-----------TWNAMIGGLAMHGRADDAIELFFKMQRE  391 (654)
Q Consensus       361 ~~~-----------~~~~li~~~~~~g~~~~A~~l~~~m~~~  391 (654)
                      |+.           -|..--.+|-+.|+-.+|..+++++...
T Consensus       805 dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  805 DVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             cccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            332           1222345677777777777777776554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.98  E-value=0.014  Score=50.58  Aligned_cols=96  Identities=10%  Similarity=0.004  Sum_probs=53.9

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      +....-.+...+.+.|++++|..+|+.+..-. +-+..-|..+..+|...|++++|+..|..+.... +.|+..+-.+..
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~  111 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            33344444555566666666666666665542 2233344445555555666666666666666555 245555555666


Q ss_pred             HHHHcCCHHHHHHHHhhc
Q 006246          340 MYAKCGRLDMAWKVFEDM  357 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m  357 (654)
                      +|.+.|+.+.|++.|+..
T Consensus       112 c~L~lG~~~~A~~aF~~A  129 (157)
T PRK15363        112 CYLACDNVCYAIKALKAV  129 (157)
T ss_pred             HHHHcCCHHHHHHHHHHH
Confidence            666666666666666544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.98  E-value=0.024  Score=51.29  Aligned_cols=130  Identities=18%  Similarity=0.154  Sum_probs=76.9

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPR--KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTAL  337 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  337 (654)
                      ....+..+...+...|++++|+..|++.......+.  ...+..+...+.+.|++++|...+..+.+.. +.+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            344566777777778888888888887776432222  2455666666777777777777777777653 2245555566


Q ss_pred             HHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccC
Q 006246          338 VDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAG  411 (654)
Q Consensus       338 i~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g  411 (654)
                      ..+|...|+...+..-++..                 ...+++|++++++....  .|+.  |..++..+...|
T Consensus       113 g~~~~~~g~~~~a~~~~~~A-----------------~~~~~~A~~~~~~a~~~--~p~~--~~~~~~~~~~~~  165 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEA-----------------EALFDKAAEYWKQAIRL--APNN--YIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHH-----------------HHHHHHHHHHHHHHHhh--Cchh--HHHHHHHHHhcC
Confidence            66676666655544322221                 11246677777776653  3333  545555554444

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.96  E-value=0.0069  Score=54.95  Aligned_cols=96  Identities=17%  Similarity=0.272  Sum_probs=71.7

Q ss_pred             HHHhhc--CCCCHHHHHHHHHHHHHc-----CChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccC-------------
Q 006246          352 KVFEDM--KMKEVFTWNAMIGGLAMH-----GRADDAIELFFKMQREKMRPDRITFACVLSACAHAG-------------  411 (654)
Q Consensus       352 ~~~~~m--~~~~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g-------------  411 (654)
                      ..|+..  ..+|-.+|..++..|.+.     |..+=....++.|.+-|+.-|..+|+.||..+=+..             
T Consensus        35 ~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~h  114 (228)
T PF06239_consen   35 ELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMH  114 (228)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhcc
Confidence            345544  345667777777777654     566667777888888888888889988888765432             


Q ss_pred             ---CHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCC
Q 006246          412 ---MIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGY  448 (654)
Q Consensus       412 ---~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  448 (654)
                         +.+-|++++++|.. +|+.||.+++..+++.+++.+.
T Consensus       115 yp~Qq~c~i~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  115 YPRQQECAIDLLEQMEN-NGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             CcHHHHHHHHHHHHHHH-cCCCCcHHHHHHHHHHhccccH
Confidence               35678889999987 6999999999999988877765

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.96  E-value=0.15  Score=51.34  Aligned_cols=161  Identities=17%  Similarity=0.119  Sum_probs=100.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCCC---C----HHHHHHHHHHHHH---cCChhHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKMK---E----VFTWNAMIGGLAM---HGRADDAIELFFKMQREKMRPDRITFACVLS  405 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~~---~----~~~~~~li~~~~~---~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  405 (654)
                      .++-.|-...+++...++.+.+...   +    ...-....-++.+   .|+.++|++++..+....-.++..||..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            3444577777777777777777653   1    1111122334455   6778888888888655555667777776665


Q ss_pred             HHHc---------cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHH----HHHH---Hh-C------CCC
Q 006246          406 ACAH---------AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEA----EEVI---SS-M------PME  462 (654)
Q Consensus       406 ~~~~---------~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A----~~~~---~~-m------~~~  462 (654)
                      .|-.         ....++|+..+.+.-   .+.|+..+--.++.++...|...+.    .++.   .. .      .-.
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            4431         223667777776553   4567665544555555555542222    2222   11 1      122


Q ss_pred             CCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          463 PNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       463 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .|-..+.+++.++.-.|+.+.|.+++++++.+.|...
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W  339 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAW  339 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcch
Confidence            4566678999999999999999999999999987753

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.94  E-value=0.027  Score=55.34  Aligned_cols=126  Identities=13%  Similarity=0.121  Sum_probs=64.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHH-HHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA-CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      +|..++...-+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+. +..+...+...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45566666666666666666666665332 1122222222222 22234455566666665554 344555566666666


Q ss_pred             HHcCCHHHHHHHHhhcCCC------CHHHHHHHHHHHHHcCChhHHHHHHHHHhh
Q 006246          342 AKCGRLDMAWKVFEDMKMK------EVFTWNAMIGGLAMHGRADDAIELFFKMQR  390 (654)
Q Consensus       342 ~~~g~~~~A~~~~~~m~~~------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  390 (654)
                      .+.|+.+.|+.+|++....      -...|...+.-=.+.|+.+.+.++.+++.+
T Consensus        81 ~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   81 IKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666666666665542      123566666555556666666666655555

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.90  E-value=0.0097  Score=47.78  Aligned_cols=86  Identities=15%  Similarity=0.178  Sum_probs=59.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChh
Q 006246          301 CVLAACASLGALDQGIWIHDHVKRNSI-CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRAD  379 (654)
Q Consensus       301 ~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~  379 (654)
                      ..+..|...+++...-.+|+.+++.|+ .|++.+|+.++.+.++..--.                       ..-.++.-
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~-----------------------~~ie~kl~   86 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDS-----------------------EDIENKLT   86 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccc-----------------------hhHHHHHH
Confidence            344455555777777777777777777 677777777777665432110                       11123445


Q ss_pred             HHHHHHHHHhhcCCCCCHHHHHHHHHHHHc
Q 006246          380 DAIELFFKMQREKMRPDRITFACVLSACAH  409 (654)
Q Consensus       380 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  409 (654)
                      +.+.+|+.|+..+++|+..||+.++..+.+
T Consensus        87 ~LLtvYqDiL~~~lKP~~etYnivl~~Llk  116 (120)
T PF08579_consen   87 NLLTVYQDILSNKLKPNDETYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            778889999999999999999999987654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.90  E-value=0.014  Score=59.87  Aligned_cols=99  Identities=17%  Similarity=0.177  Sum_probs=57.8

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRD--KIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTAL  337 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  337 (654)
                      +.+....++..+....+.+++..++.+.+..  ....-..|..+++..|.+.|..+.+..++..=...|+-||..++|.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            3344445555555555566666666665554  22223344556666666666666666666666666666666666666


Q ss_pred             HHHHHHcCCHHHHHHHHhhcC
Q 006246          338 VDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       338 i~~y~~~g~~~~A~~~~~~m~  358 (654)
                      ++.+.+.|++..|.++...|.
T Consensus       145 md~fl~~~~~~~A~~V~~~~~  165 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMM  165 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHH
Confidence            666666666666666655554

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.89  E-value=0.016  Score=59.19  Aligned_cols=92  Identities=9%  Similarity=0.001  Sum_probs=56.0

Q ss_pred             HHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCH
Q 006246          370 GGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYL  449 (654)
Q Consensus       370 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  449 (654)
                      ..+...|++++|+++|+++++.. +-+...|..+..++.+.|++++|+..++.+.+.  -+.+...|..+..+|...|++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCCH
Confidence            34455667777777777776643 224455666666666777777777777766652  122344566666677777777


Q ss_pred             HHHHHHHHhC-CCCCC
Q 006246          450 AEAEEVISSM-PMEPN  464 (654)
Q Consensus       450 ~~A~~~~~~m-~~~p~  464 (654)
                      ++|+..|++. ...|+
T Consensus        87 ~eA~~~~~~al~l~P~  102 (356)
T PLN03088         87 QTAKAALEKGASLAPG  102 (356)
T ss_pred             HHHHHHHHHHHHhCCC
Confidence            7777777665 33444

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=96.88  E-value=0.005  Score=48.01  Aligned_cols=50  Identities=18%  Similarity=0.278  Sum_probs=21.1

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHHcCChhHHHHHHH
Q 006246          337 LVDMYAKCGRLDMAWKVFEDMKM--KEVFTWNAMIGGLAMHGRADDAIELFF  386 (654)
Q Consensus       337 li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~l~~  386 (654)
                      +..+|.+.|++++|..++++...  .+....-.+..+|.+.|++++|++.|+
T Consensus        31 la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l~   82 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKYEEAIKALE   82 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHh
Confidence            44555555555555555544110  122222233444445555555555444

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.87  E-value=0.019  Score=46.17  Aligned_cols=81  Identities=15%  Similarity=0.131  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCcchHHHHHHHHHhcC--------ChhHHHHHHHHHHHcCCCCchhH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKI-KPRKFVLSCVLAACASLG--------ALDQGIWIHDHVKRNSICVDAVL  333 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~~~~~~g--------~~~~a~~~~~~~~~~~~~~~~~~  333 (654)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-....+|+.++..+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            445667777778999999999999999999 999999999999877643        34467788999999999999999


Q ss_pred             HHHHHHHHHH
Q 006246          334 GTALVDMYAK  343 (654)
Q Consensus       334 ~~~li~~y~~  343 (654)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999988765

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.84  E-value=0.42  Score=50.71  Aligned_cols=189  Identities=14%  Similarity=0.124  Sum_probs=114.4

Q ss_pred             CCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCC--CCcccHHHHHHHHhccCCcHHHHHHHH
Q 006246           80 FSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSK--PNKFTYPTVFKACSITEADKEGVQVHA  157 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~t~~~ll~~~~~~~~~~~a~~~~~  157 (654)
                      .|++++|.++|-.+.++|..     |..+.+.|++-...++++.-- .+..  .-...|+.+-..++....+++|.+.+.
T Consensus       747 ~g~feeaek~yld~drrDLA-----ielr~klgDwfrV~qL~r~g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~  820 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDLA-----IELRKKLGDWFRVYQLIRNGG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYS  820 (1189)
T ss_pred             hcchhHhhhhhhccchhhhh-----HHHHHhhhhHHHHHHHHHccC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            57899999999999988864     566677777777776664311 1100  012356666666677777777777766


Q ss_pred             HHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHH
Q 006246          158 HVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMI  237 (654)
Q Consensus       158 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li  237 (654)
                      +--.         ....+.+|.+..++++-..+...+++ |....-.+...+...|.-++|...|-+...|.     +-+
T Consensus       821 ~~~~---------~e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk-----aAv  885 (1189)
T KOG2041|consen  821 YCGD---------TENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRSLPK-----AAV  885 (1189)
T ss_pred             hccc---------hHhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhccCcH-----HHH
Confidence            5321         12355666666666655554444433 44455667777777788888777766555443     334


Q ss_pred             HHHHhcCCHHHHHHHHHhcCCCCHhHHHH--------------HHHHHHhcCChHHHHHHHHHHHh
Q 006246          238 SGFARFGRFEEARKLFNEMNDKDEITWSA--------------IIDGYTKDGYYKEALEVFNEMQR  289 (654)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--------------li~~~~~~g~~~~A~~~~~~m~~  289 (654)
                      ..|...+++.+|.++-++..-|.+.+.-+              -|..+.+.|+.-+|-+++.+|.+
T Consensus       886 ~tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  886 HTCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhH
Confidence            56667778888888877766554443211              23334555555555566655543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.81  E-value=0.021  Score=51.43  Aligned_cols=64  Identities=13%  Similarity=0.134  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD--RITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ...|..+...+...|++++|+..|++.......|.  ..++..+...+...|+.++|+..++...+
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34566666667777777777777777765432221  23566666677777777777777777665

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.77  E-value=0.014  Score=59.89  Aligned_cols=119  Identities=11%  Similarity=0.131  Sum_probs=90.0

Q ss_pred             CCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC-CCC-----cchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCc
Q 006246           60 GHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH-KPN-----VFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNK  133 (654)
Q Consensus        60 g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~-~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  133 (654)
                      +...+......+++....  ..+++++..++-+.. .|+     ..+..++|+.|.+.|..+++++++..=...|+-||.
T Consensus        61 ~~~vS~~dld~fvn~~~~--~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~  138 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVES--KDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDN  138 (429)
T ss_pred             CCCCcHHHHHHHHhhcCC--HhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCCh
Confidence            334455566667777766  677777887776554 221     235578999999999999999999998889999999


Q ss_pred             ccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh
Q 006246          134 FTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC  180 (654)
Q Consensus       134 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  180 (654)
                      +||+.|+..+.+.|++..|.++...|...+...+..++.--+..+.+
T Consensus       139 ~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~  185 (429)
T PF10037_consen  139 FSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK  185 (429)
T ss_pred             hhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence            99999999999999999999999888877766666555444444433

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.76  E-value=0.033  Score=46.46  Aligned_cols=91  Identities=19%  Similarity=0.134  Sum_probs=66.3

Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhcCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHH
Q 006246          368 MIGGLAMHGRADDAIELFFKMQREKMRPD--RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLG  444 (654)
Q Consensus       368 li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~  444 (654)
                      +..++-..|+.++|+.+|++....|....  ...+..+.+.+...|++++|..+|+.....+.-.+ +......+..++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            45567788999999999999999887654  33677788889999999999999998887532111 1122233345677


Q ss_pred             HcCCHHHHHHHHHh
Q 006246          445 RAGYLAEAEEVISS  458 (654)
Q Consensus       445 ~~g~~~~A~~~~~~  458 (654)
                      ..|+.+||++.+-.
T Consensus        87 ~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   87 NLGRPKEALEWLLE  100 (120)
T ss_pred             HCCCHHHHHHHHHH
Confidence            88999999887754

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.74  E-value=0.047  Score=45.53  Aligned_cols=104  Identities=13%  Similarity=0.111  Sum_probs=60.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCC--cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCC--CchhHHHHHHHHH
Q 006246          266 AIIDGYTKDGYYKEALEVFNEMQRDKIKPR--KFVLSCVLAACASLGALDQGIWIHDHVKRNSIC--VDAVLGTALVDMY  341 (654)
Q Consensus       266 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~y  341 (654)
                      .+..++-..|+.++|+.+|++....|+...  ...+..+.+.+...|++++|..+++........  .+..+...+..++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            345566777888888888888887775543  234445566677777777777777776654211  0222222233455


Q ss_pred             HHcCCHHHHHHHHhhcCCCCHHHHHHHH
Q 006246          342 AKCGRLDMAWKVFEDMKMKEVFTWNAMI  369 (654)
Q Consensus       342 ~~~g~~~~A~~~~~~m~~~~~~~~~~li  369 (654)
                      ...|+.++|.+.+-....++...|.--|
T Consensus        86 ~~~gr~~eAl~~~l~~la~~~~~y~ra~  113 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALAETLPRYRRAI  113 (120)
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667777776665544433333333333

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.73  E-value=0.035  Score=50.02  Aligned_cols=65  Identities=20%  Similarity=0.181  Sum_probs=37.6

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--cchHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPR--KFVLSCVLAACASLGALDQGIWIHDHVKRN  325 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  325 (654)
                      ...|..+...+...|++++|+..|++.......|.  ..++..+...+...|+.++|...+..+.+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34556666666667777777777777665422221  124555555566666666666666665543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.70  E-value=0.027  Score=54.43  Aligned_cols=101  Identities=12%  Similarity=0.106  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC----CCCC-CHHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM----PMEP-NAAVWEALL  472 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~ll  472 (654)
                      .|...+....+.|++++|...|+.+.+.+.-.+- ...+-.+...|...|++++|...|+.+    |..| ....+-.++
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg  224 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVG  224 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHH
Confidence            3444443345567888888888888775322110 235666778888888888888888776    2212 255566677


Q ss_pred             HHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          473 GACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       473 ~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ..+...|+.+.|...++++++..|+..
T Consensus       225 ~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        225 VIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            788899999999999999999999874

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.68  E-value=0.19  Score=44.37  Aligned_cols=114  Identities=15%  Similarity=0.111  Sum_probs=50.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCC----CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC---CCCCHHHHHHHHHHHH
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKM----KEVFTWNAMIGGLAMHGRADDAIELFFKMQREK---MRPDRITFACVLSACA  408 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g---~~p~~~t~~~ll~~~~  408 (654)
                      .|..+....|+..+|...|++...    .|....-.+..+....+++..|...++++.+..   -.||  +...+...+.
T Consensus        94 rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~Ll~aR~la  171 (251)
T COG4700          94 RLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GHLLFARTLA  171 (251)
T ss_pred             HHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--chHHHHHHHH
Confidence            344444444444444444444332    233333444444444455555555555444421   1122  2233444455


Q ss_pred             ccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHH
Q 006246          409 HAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEE  454 (654)
Q Consensus       409 ~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  454 (654)
                      -.|...+|...|+....-   -|+...-......+.++|+.++|..
T Consensus       172 a~g~~a~Aesafe~a~~~---ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         172 AQGKYADAESAFEVAISY---YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             hcCCchhHHHHHHHHHHh---CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            555555555555555441   3333333333444555555555443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.61  E-value=0.24  Score=51.96  Aligned_cols=125  Identities=16%  Similarity=0.158  Sum_probs=65.1

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHH
Q 006246          337 LVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRG  416 (654)
Q Consensus       337 li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  416 (654)
                      -..++...|+.++|..+                  ...+|-.+-++++-+++-.    .+..+...+..-+-+...+..|
T Consensus       709 AAEmLiSaGe~~KAi~i------------------~~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLA  766 (1081)
T KOG1538|consen  709 AAEMLISAGEHVKAIEI------------------CGDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLA  766 (1081)
T ss_pred             HHHHhhcccchhhhhhh------------------hhcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchH
Confidence            44556666777776554                  2234444444444443322    1333444444444455556666


Q ss_pred             HHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCC-CCCCHHH-----------HHHHHHHHHHhCChHHH
Q 006246          417 LQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMP-MEPNAAV-----------WEALLGACRKHGEVEFG  484 (654)
Q Consensus       417 ~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~-----------~~~ll~~~~~~g~~~~a  484 (654)
                      .++|.+|-..          ..++++....|++++|..+-++.| ..||+..           +...-.+|.+.|+-.+|
T Consensus       767 aeIF~k~gD~----------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA  836 (1081)
T KOG1538|consen  767 AEIFLKMGDL----------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREA  836 (1081)
T ss_pred             HHHHHHhccH----------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHH
Confidence            6666666432          345666667777777777777664 3333211           11222345555666666


Q ss_pred             HHHHHHHHh
Q 006246          485 ERLGKILLE  493 (654)
Q Consensus       485 ~~~~~~~~~  493 (654)
                      .++++++..
T Consensus       837 ~~vLeQLtn  845 (1081)
T KOG1538|consen  837 VQVLEQLTN  845 (1081)
T ss_pred             HHHHHHhhh
Confidence            666666544

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.61  E-value=0.59  Score=44.80  Aligned_cols=61  Identities=16%  Similarity=0.064  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchH----HHHHHHHHhcCChhHHHHHHHHHHHc
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVL----SCVLAACASLGALDQGIWIHDHVKRN  325 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~----~~ll~~~~~~g~~~~a~~~~~~~~~~  325 (654)
                      .+-.....+.+.|++++|.+.|+++...  .|+....    -.+..++.+.++++.|...++..++.
T Consensus        34 ~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         34 EIYATAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            3334444555666777777777666654  2322111    22334455555666666666555554

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.52  E-value=0.0025  Score=47.35  Aligned_cols=58  Identities=19%  Similarity=0.240  Sum_probs=30.7

Q ss_pred             ccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHH
Q 006246          409 HAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVW  468 (654)
Q Consensus       409 ~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~  468 (654)
                      ..|++++|.++|+.+...  .+-+...+..++.+|.+.|++++|.++++++ ...|+...|
T Consensus         3 ~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~   61 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEY   61 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHH
T ss_pred             hccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHH
Confidence            345666666666666553  1224445555666666666666666666665 233443333

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.51  E-value=0.18  Score=48.29  Aligned_cols=54  Identities=13%  Similarity=0.134  Sum_probs=33.5

Q ss_pred             HHHHhcCCHHHHHHHHHhcCCC--C-Hh---HHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 006246          238 SGFARFGRFEEARKLFNEMNDK--D-EI---TWSAIIDGYTKDGYYKEALEVFNEMQRDK  291 (654)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~~--~-~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g  291 (654)
                      ..+.+.|++++|.+.|+.+...  + ..   ..-.++.+|.+.+++++|...|++..+..
T Consensus        40 ~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         40 QQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            3344456666666666666542  1 11   12345667778888888888888887753

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.48  E-value=0.024  Score=51.52  Aligned_cols=97  Identities=14%  Similarity=0.231  Sum_probs=69.4

Q ss_pred             HHHHHhc--CCCCHhHHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc-------------
Q 006246          250 RKLFNEM--NDKDEITWSAIIDGYTKD-----GYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASL-------------  309 (654)
Q Consensus       250 ~~~~~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~-------------  309 (654)
                      ...|+..  ..+|-.+|..++..|.+.     |..+=....++.|.+-|+.-|..+|+.||..+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3445555  445666777777776653     56666666777777777777777777777766431             


Q ss_pred             ---CChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCC
Q 006246          310 ---GALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGR  346 (654)
Q Consensus       310 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~  346 (654)
                         .+.+-|++++++|...|+-||..++..|++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               2346788899999999999999999999988876654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.47  E-value=0.0083  Score=45.24  Aligned_cols=60  Identities=18%  Similarity=0.224  Sum_probs=51.1

Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          440 VDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       440 i~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      -.+|.+.+++++|.++++++ ...| ++..|......+...|++++|...++++++..|++.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~   63 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDP   63 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcH
Confidence            35688899999999999987 3444 677888899999999999999999999999999874

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.45  E-value=0.15  Score=54.63  Aligned_cols=59  Identities=14%  Similarity=0.101  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          398 ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       398 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      ..|..+.-.....|++++|...++++.+   +.|+...|..+...+...|+.++|.+.+++.
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~---L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A  479 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAID---LEMSWLNYVLLGKVYELKGDNRLAADAYSTA  479 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444443334444556666666655554   2345555555555566666666666555543

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.34  E-value=0.013  Score=43.34  Aligned_cols=54  Identities=28%  Similarity=0.362  Sum_probs=27.4

Q ss_pred             HcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          445 RAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       445 ~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      ..|++++|+++|+++ ...| +..++..+...|.+.|++++|...+++++..+|++
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~   58 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDN   58 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCH
Confidence            445555555555554 1122 44455555555555555555555555555555553

...

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.28  E-value=1.9  Score=49.00  Aligned_cols=159  Identities=23%  Similarity=0.270  Sum_probs=100.4

Q ss_pred             cCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHH
Q 006246          243 FGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV  322 (654)
Q Consensus       243 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  322 (654)
                      .+++++|+.-+.++.   ...|.-.++.--+.|.+.+|+.++        +|+...+..+..+|++.            +
T Consensus       893 L~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~ya~h------------L  949 (1265)
T KOG1920|consen  893 LKRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAYADH------------L  949 (1265)
T ss_pred             HHHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHHHHH------------H
Confidence            366777777776665   234445555556677888888776        67777776666555431            1


Q ss_pred             HHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHH--H
Q 006246          323 KRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRIT--F  400 (654)
Q Consensus       323 ~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t--~  400 (654)
                      .+..      .|+--.-+|.++|+.++|++                  +|...|++.+|+.+-.+|...   -|...  -
T Consensus       950 ~~~~------~~~~Aal~Ye~~GklekAl~------------------a~~~~~dWr~~l~~a~ql~~~---~de~~~~a 1002 (1265)
T KOG1920|consen  950 REEL------MSDEAALMYERCGKLEKALK------------------AYKECGDWREALSLAAQLSEG---KDELVILA 1002 (1265)
T ss_pred             HHhc------cccHHHHHHHHhccHHHHHH------------------HHHHhccHHHHHHHHHhhcCC---HHHHHHHH
Confidence            1111      12233456888888888866                  455678888888887776532   13322  2


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCC
Q 006246          401 ACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMP  460 (654)
Q Consensus       401 ~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  460 (654)
                      ..|..-+...++.-+|-++......+         +.--+..|+++-.+++|..+....+
T Consensus      1003 ~~L~s~L~e~~kh~eAa~il~e~~sd---------~~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLEYLSD---------PEEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHcccchhHHHHHHHHhcC---------HHHHHHHHhhHhHHHHHHHHHHhcc
Confidence            45666777778777777776655432         2345667788888888888777654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.22  E-value=0.0075  Score=46.22  Aligned_cols=60  Identities=17%  Similarity=0.175  Sum_probs=39.5

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-------C-CCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          435 HYGCIVDLLGRAGYLAEAEEVISSM-------P-MEPN-AAVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       435 ~~~~li~~~~~~g~~~~A~~~~~~m-------~-~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      +|+.+...|.+.|++++|++.+++.       + ..|+ ..++..+...+...|++++|++.+++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4555566666666666666666544       1 1122 566778888888888888888888887764

...

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.13  E-value=2.8  Score=45.95  Aligned_cols=177  Identities=14%  Similarity=0.119  Sum_probs=116.2

Q ss_pred             HHHHHhcccccCCChHHHHHHHhcCCCCCcchH----HHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHh
Q 006246           69 GTLVKCHANSRFSNFELALKVFNSVHKPNVFVW----NSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACS  144 (654)
Q Consensus        69 ~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~----~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  144 (654)
                      ..-+++..+  ...++.|..+-..-.- |...-    ......+.+.|++++|..-|-+-... +.|     +.++.-+.
T Consensus       338 e~kL~iL~k--K~ly~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfL  408 (933)
T KOG2114|consen  338 ETKLDILFK--KNLYKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFL  408 (933)
T ss_pred             HHHHHHHHH--hhhHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhc
Confidence            344556666  6677778777765432 22222    22233455789999999988776643 233     23555565


Q ss_pred             ccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChh-hHHHHHHHHHHcCCHHHHHHHHH
Q 006246          145 ITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVI-CWNALIDGYLKCGDIEGAKELFK  223 (654)
Q Consensus       145 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~  223 (654)
                      .......-...++.+.+.|+. +..--..|+.+|.+.++.++-.+..+........ -....+..+.+.+-.++|..+-.
T Consensus       409 daq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~  487 (933)
T KOG2114|consen  409 DAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLAT  487 (933)
T ss_pred             CHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHH
Confidence            666667777788888888864 4455677999999999999999888877632221 24556667777777777776655


Q ss_pred             hcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC
Q 006246          224 STKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDK  259 (654)
Q Consensus       224 ~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  259 (654)
                      .... +......++   -..+++++|.+.+..++-+
T Consensus       488 k~~~-he~vl~ill---e~~~ny~eAl~yi~slp~~  519 (933)
T KOG2114|consen  488 KFKK-HEWVLDILL---EDLHNYEEALRYISSLPIS  519 (933)
T ss_pred             Hhcc-CHHHHHHHH---HHhcCHHHHHHHHhcCCHH
Confidence            5444 333444443   3458899999999998754

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.10  E-value=0.02  Score=41.95  Aligned_cols=55  Identities=16%  Similarity=0.157  Sum_probs=27.5

Q ss_pred             HHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          370 GGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       370 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ..+.+.|++++|++.|++.++.. +-+...+..+..++...|++++|..+|+.+.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34455555555555555555543 11333444555555555555555555555544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.05  E-value=1.3  Score=44.32  Aligned_cols=54  Identities=7%  Similarity=0.035  Sum_probs=29.7

Q ss_pred             HHHHcCChhHHHHHHHHHhhc---CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 006246          371 GLAMHGRADDAIELFFKMQRE---KMRPDRITFACVLSACAHAGMIDRGLQALTYMQ  424 (654)
Q Consensus       371 ~~~~~g~~~~A~~l~~~m~~~---g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~  424 (654)
                      -..+.|++.+|.+.|.+.+..   .++|+...|.....+..+.|+.++|+.--+...
T Consensus       258 ~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al  314 (486)
T KOG0550|consen  258 DAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL  314 (486)
T ss_pred             hHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh
Confidence            344556666666666666542   233444455555555566666666665555444

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=95.99  E-value=0.036  Score=41.13  Aligned_cols=64  Identities=14%  Similarity=0.141  Sum_probs=44.1

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHHHH
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAG-MIDRGLQALTYMQQ  425 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g-~~~~a~~~~~~~~~  425 (654)
                      +..+|..+...+...|++++|+..|++.++.. +-+...|..+..++...| ++++|++.+++..+
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34567777777777777777777777777753 224456666777777777 57777777777665

...

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.98  E-value=1.1  Score=39.86  Aligned_cols=131  Identities=14%  Similarity=0.043  Sum_probs=93.7

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHH
Q 006246          360 KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCI  439 (654)
Q Consensus       360 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~l  439 (654)
                      |++.---.|..++...|+..+|...|++...--+.-|......+..+....++...|...++.+.+...-.-++..--.+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            34445556788889999999999999998875556677888888888889999999999999988742111123345567


Q ss_pred             HHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHhCChHHHHHHHHH
Q 006246          440 VDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALLGACRKHGEVEFGERLGKI  490 (654)
Q Consensus       440 i~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  490 (654)
                      ...|...|+.++|+..|+.. ..-|+...-.-...-+.++|+.+++..-+..
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~  218 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVA  218 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence            78888999999999988876 4455554433344445677766666544433

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.90  E-value=2.2  Score=42.83  Aligned_cols=151  Identities=13%  Similarity=0.029  Sum_probs=82.9

Q ss_pred             HHHhcCCHHHHHHHHHhcCCCCHh-HHHHHHH--HHHhcCChHHHHHHHHHHHhCCCCCCcchHHHH---HH--------
Q 006246          239 GFARFGRFEEARKLFNEMNDKDEI-TWSAIID--GYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCV---LA--------  304 (654)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~li~--~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l---l~--------  304 (654)
                      ++.-.|++++|...--.+.+-|.. .+...++  ++.-.++.+.|...|++.+..+  |+...-..+   ..        
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~  255 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLDATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKER  255 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcccchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhh
Confidence            445567777776665555544332 2222332  2334567777777777766543  443322211   11        


Q ss_pred             --HHHhcCChhHHHHHHHHHHHc---CCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHH-HHHHH--HHHHHHcC
Q 006246          305 --ACASLGALDQGIWIHDHVKRN---SICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVF-TWNAM--IGGLAMHG  376 (654)
Q Consensus       305 --~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~-~~~~l--i~~~~~~g  376 (654)
                        -..+.|++..|.+.|.+.+..   +..++...|-.......+.|+.++|+.--+....-|.. .+..+  ..++...+
T Consensus       256 gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  256 GNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALE  335 (486)
T ss_pred             hhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHH
Confidence              123566777777777776653   23445555555666666777777777766666654432 22222  23344456


Q ss_pred             ChhHHHHHHHHHhhc
Q 006246          377 RADDAIELFFKMQRE  391 (654)
Q Consensus       377 ~~~~A~~l~~~m~~~  391 (654)
                      ++++|++-|++..+.
T Consensus       336 ~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  336 KWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            677777777666553

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.90  E-value=2.1  Score=45.45  Aligned_cols=168  Identities=18%  Similarity=0.182  Sum_probs=107.8

Q ss_pred             HHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCC-C---------hhhHHHHHHHHHH----cCCHHH
Q 006246          152 GVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKS-D---------VICWNALIDGYLK----CGDIEG  217 (654)
Q Consensus       152 a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-~---------~~~~~~li~~~~~----~g~~~~  217 (654)
                      +.-++..++.. +|   .....++....-.|+-+.+.+.+.+.... +         ...|+.++..++.    ....+.
T Consensus       176 G~G~f~L~lSl-LP---p~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~  251 (468)
T PF10300_consen  176 GFGLFNLVLSL-LP---PKVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEE  251 (468)
T ss_pred             HHHHHHHHHHh-CC---HHHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHH
Confidence            34455555543 22   23445566666667777777766654221 1         1234444544443    456788


Q ss_pred             HHHHHHhcCC--CCcchHHHH-HHHHHhcCCHHHHHHHHHhcCCC-------CHhHHHHHHHHHHhcCChHHHHHHHHHH
Q 006246          218 AKELFKSTKD--KNTGSYNAM-ISGFARFGRFEEARKLFNEMNDK-------DEITWSAIIDGYTKDGYYKEALEVFNEM  287 (654)
Q Consensus       218 A~~~~~~m~~--~~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m  287 (654)
                      |.++++.+.+  |+...|... .+.+...|++++|.+.|++....       ....+--+.-.+.-..+|++|.+.|..+
T Consensus       252 a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L  331 (468)
T PF10300_consen  252 AEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRL  331 (468)
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHH
Confidence            9999999887  777666544 45667789999999999976541       2233445556678889999999999999


Q ss_pred             HhCCCCCCcchHHHHHHHH-HhcCCh-------hHHHHHHHHHHH
Q 006246          288 QRDKIKPRKFVLSCVLAAC-ASLGAL-------DQGIWIHDHVKR  324 (654)
Q Consensus       288 ~~~g~~p~~~t~~~ll~~~-~~~g~~-------~~a~~~~~~~~~  324 (654)
                      .+.+ ..+..+|.-+..+| ...++.       ++|.+++.++..
T Consensus       332 ~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  332 LKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             Hhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            9864 44555666555554 456666       777777777644

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.85  E-value=0.018  Score=35.75  Aligned_cols=34  Identities=26%  Similarity=0.268  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          465 AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       465 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      +.+|..++..|...|++++|+..++++++++|++
T Consensus         1 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    1 AEAYYNLGNAYFQLGDYEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH
T ss_pred             CHHHHHHHHHHHHhCCchHHHHHHHHHHHHCcCC
Confidence            3578899999999999999999999999999974

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.82  E-value=1.6  Score=40.69  Aligned_cols=199  Identities=17%  Similarity=0.085  Sum_probs=121.9

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHH-H
Q 006246          297 FVLSCVLAACASLGALDQGIWIHDHVKRN-SICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIG-G  371 (654)
Q Consensus       297 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~-~  371 (654)
                      ..+......+...+.+..+...+...... ........+..+...+...+....+.+.+......   +...+..... .
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHH
Confidence            34444445555555555555555555432 22333444555555566666666776666665541   1122223333 6


Q ss_pred             HHHcCChhHHHHHHHHHhhcCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCC
Q 006246          372 LAMHGRADDAIELFFKMQREKM--RPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGY  448 (654)
Q Consensus       372 ~~~~g~~~~A~~l~~~m~~~g~--~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~  448 (654)
                      +...|+++.|...|.+......  ......+......+...++.+.+...+......  ... ....+..+...+...++
T Consensus       140 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         140 LYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHccc
Confidence            7778888888888888755211  112334444444466778888888888888763  223 35667777788888888


Q ss_pred             HHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          449 LAEAEEVISSM-PMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       449 ~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                      +++|...+... ...|+ ...+..+...+...++.+.+...+++.++..|.
T Consensus       218 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         218 YEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            88888888776 33344 455555666666667788888888888887775

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.78  E-value=1.4  Score=40.95  Aligned_cols=59  Identities=14%  Similarity=0.113  Sum_probs=27.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCC--CcchHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 006246          267 IIDGYTKDGYYKEALEVFNEMQRDKIKP--RKFVLSCVLAACASLGALDQGIWIHDHVKRN  325 (654)
Q Consensus       267 li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  325 (654)
                      ....+.+.|++++|.+.|+.+...-...  -....-.+..++.+.|+++.|...++..++.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555666666666666665541110  1112223344455555555555555555443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.74  E-value=0.029  Score=34.69  Aligned_cols=33  Identities=27%  Similarity=0.304  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          466 AVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       466 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      ..|..+...+...|++++|++.++++++++|++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            468889999999999999999999999999985

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.73  E-value=0.48  Score=44.35  Aligned_cols=135  Identities=10%  Similarity=0.037  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHH---
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIV---  440 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li---  440 (654)
                      .-+.++..+.-+|.+.-.+.++++.++...+-+......|.+.-.+.|+.+.|..+|+...+. .-..+....+.++   
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhh
Confidence            345566666667888888899999988766667778888888888999999999999987765 2233333344333   


Q ss_pred             --HHHHHcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          441 --DLLGRAGYLAEAEEVISSMPM-EP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       441 --~~~~~~g~~~~A~~~~~~m~~-~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                        ..|.-+.++.+|...+++.+. +| |++..|.-.-...-.|+...|.+..+.+++..|...
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence              445567888889888888742 22 455555555555667888889999988888888765

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.70  E-value=0.14  Score=49.43  Aligned_cols=84  Identities=19%  Similarity=0.180  Sum_probs=37.8

Q ss_pred             HcCChhHHHHHHHHHhhcCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCC
Q 006246          374 MHGRADDAIELFFKMQREKMRPDR----ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGY  448 (654)
Q Consensus       374 ~~g~~~~A~~l~~~m~~~g~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~  448 (654)
                      +.|++++|+..|+..++.  .|+.    ..+..+..++...|++++|...|+.+.+.+.-.|. ...+-.+...+...|+
T Consensus       155 ~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~  232 (263)
T PRK10803        155 DKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGD  232 (263)
T ss_pred             hcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCC
Confidence            344555555555555443  2222    23344444555555555555555555543222111 2222333444445555


Q ss_pred             HHHHHHHHHhC
Q 006246          449 LAEAEEVISSM  459 (654)
Q Consensus       449 ~~~A~~~~~~m  459 (654)
                      .++|.+.+++.
T Consensus       233 ~~~A~~~~~~v  243 (263)
T PRK10803        233 TAKAKAVYQQV  243 (263)
T ss_pred             HHHHHHHHHHH
Confidence            55555555544

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.68  E-value=0.45  Score=45.74  Aligned_cols=109  Identities=16%  Similarity=0.152  Sum_probs=77.2

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcC---CHHHHHHHHHhC-CCCC-CHHHHHH
Q 006246          396 DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAG---YLAEAEEVISSM-PMEP-NAAVWEA  470 (654)
Q Consensus       396 ~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m-~~~p-~~~~~~~  470 (654)
                      |...|..|...|...|+.+.|...|.+..+-  -.++...+..+..++..+.   ...+|.++|+++ ..+| |+.+..-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            5667777778888888888888888777663  2334455556665554332   456777888877 4445 5667777


Q ss_pred             HHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHH
Q 006246          471 LLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAK  506 (654)
Q Consensus       471 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~  506 (654)
                      |..++...|++.+|...++.+++..|.+..|....+
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie  268 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            778889999999999999999998888775555443

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.66  E-value=0.042  Score=54.30  Aligned_cols=49  Identities=8%  Similarity=0.122  Sum_probs=28.5

Q ss_pred             HHhCCCchHHHHHHHHhHhCCCCCCcc----cHHHHHHHHhccCCcHHHHHHHH
Q 006246          108 CLEHNEPWRVISLYSEMVGVDSKPNKF----TYPTVFKACSITEADKEGVQVHA  157 (654)
Q Consensus       108 ~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~~ll~~~~~~~~~~~a~~~~~  157 (654)
                      +++.|+....+.+|+..++.|-. |..    .|+.|-++|...+++++|.+.|.
T Consensus        27 Lck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~   79 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHT   79 (639)
T ss_pred             HHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhh
Confidence            56677777777777777766522 332    33444445555566666666554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.63  E-value=0.037  Score=54.62  Aligned_cols=93  Identities=14%  Similarity=0.014  Sum_probs=50.6

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHH----cC-CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-------C--CHH
Q 006246          298 VLSCVLAACASLGALDQGIWIHDHVKR----NS-ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-------K--EVF  363 (654)
Q Consensus       298 t~~~ll~~~~~~g~~~~a~~~~~~~~~----~~-~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-------~--~~~  363 (654)
                      .++.+.+++.-.|+++.|.+.|+....    .| -.......-+|.+.|.-..++++|+..+.+-..       +  ...
T Consensus       237 A~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~R  316 (639)
T KOG1130|consen  237 AHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELR  316 (639)
T ss_pred             hhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            444455555555555555555544322    22 112334445566666666666777666654322       1  234


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhh
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQR  390 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~  390 (654)
                      ++-+|..+|...|..++|+.+.+.-++
T Consensus       317 acwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  317 ACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            555667777777777777766655443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.59  E-value=0.02  Score=38.10  Aligned_cols=34  Identities=35%  Similarity=0.565  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          466 AVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       466 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+|..+..+|...|++++|+++++++++.+|+++
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~   35 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDP   35 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            4678889999999999999999999999999885

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.56  E-value=3.9  Score=43.24  Aligned_cols=167  Identities=14%  Similarity=0.124  Sum_probs=108.4

Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA  406 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  406 (654)
                      +..+|+..++--.+.|+.+.+.-.|++..-+   =...|--.+.-....|+.+-|..++....+--++-...+-..-..-
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            4567777888888889998888888887654   2234544444444458888888777776665444333333333334


Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCCc-chHHHHHHHHHHcCCHHHHH---HHHHhC-CCCCCHHHHHHHHHH-----HH
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPEV-EHYGCIVDLLGRAGYLAEAE---EVISSM-PMEPNAAVWEALLGA-----CR  476 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~---~~~~~m-~~~p~~~~~~~ll~~-----~~  476 (654)
                      +-..|+.+.|..+++.+.+.  . |+. ..-..-+....|.|..+.+.   +++... +.+-+..+...+.--     +.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            55678999999999999885  3 543 23333456677888888888   555443 222233333333322     34


Q ss_pred             HhCChHHHHHHHHHHHhcCCCCC
Q 006246          477 KHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ..++.+.|..++.++.+..|++.
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k  475 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCK  475 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccH
Confidence            45788999999999999988875

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.45  E-value=0.19  Score=42.30  Aligned_cols=49  Identities=14%  Similarity=0.289  Sum_probs=28.8

Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 006246          393 MRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD  441 (654)
Q Consensus       393 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~  441 (654)
                      ..|+..+..+++.+|+..|++..|.++.+...+.|+++-+...|..|+.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            4556666666666666666666666666666665655555555554443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=95.30  E-value=0.18  Score=42.51  Aligned_cols=82  Identities=16%  Similarity=0.193  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHH--------------HHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC----
Q 006246          398 ITFACVLSACAHAGMIDRGLQALTYM--------------QQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM----  459 (654)
Q Consensus       398 ~t~~~ll~~~~~~g~~~~a~~~~~~~--------------~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----  459 (654)
                      .++..++.++++.|+++....+++..              .......|+..+..+++.+|+..|++..|+++++..    
T Consensus         3 ~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y   82 (126)
T PF12921_consen    3 ELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKY   82 (126)
T ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHc
Confidence            34445555555555555444444332              111245577777778888888888888888877765    


Q ss_pred             CCCCCHHHHHHHHHHHHHhC
Q 006246          460 PMEPNAAVWEALLGACRKHG  479 (654)
Q Consensus       460 ~~~p~~~~~~~ll~~~~~~g  479 (654)
                      +++-+..+|..|+.-+...-
T Consensus        83 ~I~i~~~~W~~Ll~W~~v~s  102 (126)
T PF12921_consen   83 PIPIPKEFWRRLLEWAYVLS  102 (126)
T ss_pred             CCCCCHHHHHHHHHHHHHhc
Confidence            45555777877776555443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.18  E-value=0.88  Score=42.31  Aligned_cols=53  Identities=26%  Similarity=0.379  Sum_probs=34.6

Q ss_pred             HHHHhcCCHHHHHHHHHhcCC--C----CHhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006246          238 SGFARFGRFEEARKLFNEMND--K----DEITWSAIIDGYTKDGYYKEALEVFNEMQRD  290 (654)
Q Consensus       238 ~~~~~~g~~~~A~~~~~~~~~--~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  290 (654)
                      ..+...|++++|.+.|+.+..  |    -....-.++.++.+.|++++|...++++.+.
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344556777777777776653  1    1234556777888888888888888888765

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.10  E-value=0.3  Score=46.90  Aligned_cols=95  Identities=15%  Similarity=0.041  Sum_probs=44.2

Q ss_pred             CchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcC---ChhHHHHHHHHHhhcCCCCC-HHHHH
Q 006246          329 VDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHG---RADDAIELFFKMQREKMRPD-RITFA  401 (654)
Q Consensus       329 ~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g---~~~~A~~l~~~m~~~g~~p~-~~t~~  401 (654)
                      .|..-|--|...|...|+.+.|...|.+..+   +|...+..+..++....   ...++..+|++++..  .|+ ..+..
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHHHH
Confidence            3455555555555555555555555554432   34444444444433221   234455555555543  222 22333


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .|...+...|++.+|...|+.|.+
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~  255 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLD  255 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHh
Confidence            333444455555555555555544

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.07  E-value=0.059  Score=41.14  Aligned_cols=26  Identities=12%  Similarity=0.038  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQ  424 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~  424 (654)
                      ++..+...+...|++++|.+++++..
T Consensus        48 ~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen   48 TLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45555555555555555555555544

...

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.04  E-value=1.2  Score=38.48  Aligned_cols=67  Identities=16%  Similarity=0.203  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHc-CCHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 006246          397 RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRA-GYLAEAEEVISSMPMEPNAAVWEALLGAC  475 (654)
Q Consensus       397 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~p~~~~~~~ll~~~  475 (654)
                      ......++..|.+.+.++++..++.++..          |...++.+... ++++.|.+++.+-   .+...|..++..|
T Consensus        69 ~yd~~~~~~~c~~~~l~~~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~~---~~~~lw~~~~~~~  135 (140)
T smart00299       69 HYDIEKVGKLCEKAKLYEEAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVKQ---NNPELWAEVLKAL  135 (140)
T ss_pred             cCCHHHHHHHHHHcCcHHHHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHhC---CCHHHHHHHHHHH
Confidence            33444566667677777666666655422          23334444444 6777777777763   2566777666655


Q ss_pred             H
Q 006246          476 R  476 (654)
Q Consensus       476 ~  476 (654)
                      .
T Consensus       136 l  136 (140)
T smart00299      136 L  136 (140)
T ss_pred             H
Confidence            4

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=95.04  E-value=7.2  Score=43.27  Aligned_cols=200  Identities=10%  Similarity=0.040  Sum_probs=125.6

Q ss_pred             HHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC--CCcchHHHHHHHH
Q 006246           31 QKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK--PNVFVWNSVLRAC  108 (654)
Q Consensus        31 ~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~  108 (654)
                      |..+|......+.|..+.|..+.+.....+.. |..+...|..+|..  .+..++|..+|++...  |+......+--+|
T Consensus        44 ~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d--~~~~d~~~~~Ye~~~~~~P~eell~~lFmay  120 (932)
T KOG2053|consen   44 YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRD--LGKLDEAVHLYERANQKYPSEELLYHLFMAY  120 (932)
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHH--HhhhhHHHHHHHHHHhhCCcHHHHHHHHHHH
Confidence            44444323455788888888887776655544 78899999999999  9999999999999985  4443444455577


Q ss_pred             HhCCCchH----HHHHHHHhHhCCCCCCcccHHHHHHHHhccC-C---------cHHHHHHHHHHHHhC-CCCChhhHHH
Q 006246          109 LEHNEPWR----VISLYSEMVGVDSKPNKFTYPTVFKACSITE-A---------DKEGVQVHAHVVKNG-LCGDVHVKSS  173 (654)
Q Consensus       109 ~~~g~~~~----A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~-~---------~~~a~~~~~~~~~~g-~~~~~~~~~~  173 (654)
                      ++-+.+.+    |++++..     ++-+.+.|-++++...... .         +..|....+.+++.+ ...+..-.--
T Consensus       121 vR~~~yk~qQkaa~~LyK~-----~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~L  195 (932)
T KOG2053|consen  121 VREKSYKKQQKAALQLYKN-----FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIIL  195 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHh-----CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHH
Confidence            77776654    5555542     3345666666666543321 1         234555666666544 1111111222


Q ss_pred             HHHHHHhcCCHHHHHHHHhc-----CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHH
Q 006246          174 GIQMYACFGCVNKARQILDD-----GSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMIS  238 (654)
Q Consensus       174 li~~y~~~g~~~~A~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~  238 (654)
                      -.......|++++|.+++..     ....+...-+--+..+...+++.+..++-.+....+..-|...++
T Consensus       196 yl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~Ddy~~~~~  265 (932)
T KOG2053|consen  196 YLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGNDDYKIYTD  265 (932)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCcchHHHHH
Confidence            23344567889999988843     355566666677777888888888887777776543332444333

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.02  E-value=1.9  Score=45.25  Aligned_cols=154  Identities=12%  Similarity=0.085  Sum_probs=87.9

Q ss_pred             HhcCCHHHHHHHHh--cC-CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHh
Q 006246          179 ACFGCVNKARQILD--DG-SKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNE  255 (654)
Q Consensus       179 ~~~g~~~~A~~~~~--~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  255 (654)
                      .-.++++++.++.+  ++ +.-+..-.+.++.-+-+.|..+.|+.+-..        -..-.+...++|+++.|.++.+.
T Consensus       272 v~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D--------~~~rFeLAl~lg~L~~A~~~a~~  343 (443)
T PF04053_consen  272 VLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTD--------PDHRFELALQLGNLDIALEIAKE  343 (443)
T ss_dssp             HHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS---------HHHHHHHHHHCT-HHHHHHHCCC
T ss_pred             HHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCC--------hHHHhHHHHhcCCHHHHHHHHHh
Confidence            34455666444433  11 111233456666666777777777776322        13344556677888888777655


Q ss_pred             cCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHH
Q 006246          256 MNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGT  335 (654)
Q Consensus       256 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  335 (654)
                      ..  +...|..|.....+.|+++-|.+.|.+...         |..++-.|...|+.+.-.++.......|      -+|
T Consensus       344 ~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n  406 (443)
T PF04053_consen  344 LD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG------DIN  406 (443)
T ss_dssp             CS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HH
T ss_pred             cC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc------CHH
Confidence            54  556788888888888888888888876542         4566666777777777777766666655      233


Q ss_pred             HHHHHHHHcCCHHHHHHHHhhc
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDM  357 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m  357 (654)
                      ....++...|+.++..+++.+.
T Consensus       407 ~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  407 IAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHc
Confidence            4444455567777766665543

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.93  E-value=0.13  Score=52.45  Aligned_cols=58  Identities=9%  Similarity=0.038  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcc----hHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVE----HYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~----~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .++.+..+|.+.|++++|+..|++..+   +.|+..    .|..+..+|...|++++|++.+++.
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444444455555555555555554443   233321    2444444444445544444444443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.93  E-value=0.21  Score=42.54  Aligned_cols=114  Identities=16%  Similarity=0.206  Sum_probs=69.6

Q ss_pred             HHHHcCCHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHhcCC
Q 006246          442 LLGRAGYLAEAEEVISSM----PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKERGI  516 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~~~g~  516 (654)
                      ...+.|++++|.+.|+.+    |..| ....--.|+.+|.+.|++++|...+++.+++.|++++.+-|.=.+....-...
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~   98 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQD   98 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHh
Confidence            345778888888888877    2222 34555668899999999999999999999999999865555443332211100


Q ss_pred             ccCCceeEEEECCEEEEEeeCCCCCcchHHHHHHHHHHHHHHHHcCcccC
Q 006246          517 KTNPGSSMIDVNGVIHEFRTGDGSHPQVKEIYLMLKKIIEKLKMEGYSPN  566 (654)
Q Consensus       517 ~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~~~~~g~~pd  566 (654)
                      .           +.+..|..-+..-....++...+++++++-.+.-|.+|
T Consensus        99 ~-----------~~~~~~~~~drD~~~~~~A~~~f~~lv~~yP~S~ya~d  137 (142)
T PF13512_consen   99 E-----------GSLQSFFRSDRDPTPARQAFRDFEQLVRRYPNSEYAAD  137 (142)
T ss_pred             h-----------hHHhhhcccccCcHHHHHHHHHHHHHHHHCcCChhHHH
Confidence            0           11111111122233456667777777766544445444

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=94.79  E-value=5.5  Score=40.68  Aligned_cols=405  Identities=13%  Similarity=0.092  Sum_probs=219.2

Q ss_pred             CCChHHHHHHHhcCCC---CC------cchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHH--HhccCC
Q 006246           80 FSNFELALKVFNSVHK---PN------VFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKA--CSITEA  148 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~~---~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~--~~~~~~  148 (654)
                      .+++.+|.++|.++-.   .+      .+.-+.+|++|..++ .+.-...+....+.  .| ...|..+..+  +-+.+.
T Consensus        19 q~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~n-ld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~k~   94 (549)
T PF07079_consen   19 QKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNN-LDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQKE   94 (549)
T ss_pred             HhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhh-HHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHhhh
Confidence            7899999999988762   12      234567788887643 33333334444432  34 4456666666  457788


Q ss_pred             cHHHHHHHHHHHHh--CCC------------CChhhHHHHHHHHHhcCCHHHHHHHHhcCC----C----CChhhHHHHH
Q 006246          149 DKEGVQVHAHVVKN--GLC------------GDVHVKSSGIQMYACFGCVNKARQILDDGS----K----SDVICWNALI  206 (654)
Q Consensus       149 ~~~a~~~~~~~~~~--g~~------------~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~----~~~~~~~~li  206 (654)
                      ...|.+.+..-...  +..            +|.+.-+..+......|++.+++.+++++.    +    -++.+||.++
T Consensus        95 ~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~v  174 (549)
T PF07079_consen   95 YRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAV  174 (549)
T ss_pred             HHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHH
Confidence            89998888776654  221            233344667788889999999999888762    2    4777888755


Q ss_pred             HHHHHcCCH---------------HHHHHHHHhcCCCCcchH----------HHHHHHHHh-----cCCHHHHHHHHHhc
Q 006246          207 DGYLKCGDI---------------EGAKELFKSTKDKNTGSY----------NAMISGFAR-----FGRFEEARKLFNEM  256 (654)
Q Consensus       207 ~~~~~~g~~---------------~~A~~~~~~m~~~~~~~~----------~~li~~~~~-----~g~~~~A~~~~~~~  256 (654)
                      -.+.+.=-.               +-++-..++|...|...|          ..++....-     .--+=++.+.++.-
T Consensus       175 lmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~  254 (549)
T PF07079_consen  175 LMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENF  254 (549)
T ss_pred             HHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhh
Confidence            544432111               111111122221121111          111111100     00011111111111


Q ss_pred             C-CCC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC----CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc
Q 006246          257 N-DKD-EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP----RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD  330 (654)
Q Consensus       257 ~-~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  330 (654)
                      - .|+ ......++..+.+  +.+++..+-+.+....+.+    =..+|..++..+.+.++...|.+.+..+.-..  |+
T Consensus       255 yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ld--p~  330 (549)
T PF07079_consen  255 YVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILD--PR  330 (549)
T ss_pred             ccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC--Cc
Confidence            0 111 1112233333333  5666666665555443222    23578888888889999999998888776543  33


Q ss_pred             hhHHH-------HHHHHHHHc----CCHHHHHHHHhhcCCCCHHH---HHHH---HHHHHHcCC-hhHHHHHHHHHhhcC
Q 006246          331 AVLGT-------ALVDMYAKC----GRLDMAWKVFEDMKMKEVFT---WNAM---IGGLAMHGR-ADDAIELFFKMQREK  392 (654)
Q Consensus       331 ~~~~~-------~li~~y~~~----g~~~~A~~~~~~m~~~~~~~---~~~l---i~~~~~~g~-~~~A~~l~~~m~~~g  392 (654)
                      ..+..       .|.++.+.-    -+..+=+.+|+.....|+..   -.-|   ..-+-+.|. -++|+++++..++- 
T Consensus       331 ~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~f-  409 (549)
T PF07079_consen  331 ISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQF-  409 (549)
T ss_pred             chhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHh-
Confidence            22221       222332210    11223344555555443321   1112   233555665 78999999998873 


Q ss_pred             CCCCH-H----HHHHHHHHHHc---cCCHHHHHHHHHHHHHHcCCCCCc----chHHHHHHH--HHHcCCHHHHHHHHHh
Q 006246          393 MRPDR-I----TFACVLSACAH---AGMIDRGLQALTYMQQMYGIDPEV----EHYGCIVDL--LGRAGYLAEAEEVISS  458 (654)
Q Consensus       393 ~~p~~-~----t~~~ll~~~~~---~g~~~~a~~~~~~~~~~~g~~p~~----~~~~~li~~--~~~~g~~~~A~~~~~~  458 (654)
                       .|.. .    ++..+=.+|.+   ...+.+-..+-+-+.+ .|+.|-.    +.-|.|.++  +...|++.++.-.-.-
T Consensus       410 -t~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e-~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~W  487 (549)
T PF07079_consen  410 -TNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITE-VGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSW  487 (549)
T ss_pred             -ccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh-cCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence             3332 2    22222233332   2234444444444444 5887753    345666554  5578888888755444


Q ss_pred             C-CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          459 M-PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       459 m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      . .+.|++.++.-++-....+.++++|..++..   +-|++
T Consensus       488 L~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~---LP~n~  525 (549)
T PF07079_consen  488 LTKIAPSPQAYRLLGLCLMENKRYQEAWEYLQK---LPPNE  525 (549)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhHHHHHHHHHh---CCCch
Confidence            4 5789999999999999999999988777654   45544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.69  E-value=0.24  Score=46.71  Aligned_cols=100  Identities=15%  Similarity=0.183  Sum_probs=78.9

Q ss_pred             HHHHHhhcC--CCCHHHHHHHHHHHHHc-----CChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccC-----------
Q 006246          350 AWKVFEDMK--MKEVFTWNAMIGGLAMH-----GRADDAIELFFKMQREKMRPDRITFACVLSACAHAG-----------  411 (654)
Q Consensus       350 A~~~~~~m~--~~~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g-----------  411 (654)
                      .++.|..+.  ++|-.+|-+++..|...     +..+=....++.|.+-|+.-|..+|..||..+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            345666666  56778888888877654     456666677889999999999999999998765543           


Q ss_pred             -----CHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHH
Q 006246          412 -----MIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLA  450 (654)
Q Consensus       412 -----~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~  450 (654)
                           +-+=++.++++|.. +|+.||.++-..|++++++.|..-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             hhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccccH
Confidence                 23457889999987 799999999999999999988643

>PRK09687 putative lyase; Provisional

Probab=94.67  E-value=4.8  Score=39.46  Aligned_cols=80  Identities=4%  Similarity=-0.075  Sum_probs=36.6

Q ss_pred             CchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCc----hHHHHHHHHhHhCCCCCCcccHHH
Q 006246           63 QDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEP----WRVISLYSEMVGVDSKPNKFTYPT  138 (654)
Q Consensus        63 ~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~g~~p~~~t~~~  138 (654)
                      +|..+.-..+..+..  .|..+-...+..-...+|...-...+.++.+.|+.    .+++..+..+...  .||...-..
T Consensus        35 ~d~~vR~~A~~aL~~--~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~  110 (280)
T PRK09687         35 HNSLKRISSIRVLQL--RGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRAS  110 (280)
T ss_pred             CCHHHHHHHHHHHHh--cCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHH
Confidence            455555555555555  44432222222222244544444455556665543    3455555555332  244444444


Q ss_pred             HHHHHhcc
Q 006246          139 VFKACSIT  146 (654)
Q Consensus       139 ll~~~~~~  146 (654)
                      .+.+++..
T Consensus       111 A~~aLG~~  118 (280)
T PRK09687        111 AINATGHR  118 (280)
T ss_pred             HHHHHhcc
Confidence            44444433

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=94.59  E-value=0.33  Score=42.39  Aligned_cols=68  Identities=19%  Similarity=0.282  Sum_probs=31.0

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH----HcCCCCCcc
Q 006246          366 NAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ----MYGIDPEVE  434 (654)
Q Consensus       366 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~----~~g~~p~~~  434 (654)
                      ..++..+...|++++|+.+.+++.... +-|...|..++.++...|+..+|.+.|+.+.+    ..|+.|+..
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~  137 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPE  137 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHH
Confidence            334444555555555555555555542 22444555555555555555555555554432    235555543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.32  E-value=3.1  Score=35.84  Aligned_cols=27  Identities=19%  Similarity=0.524  Sum_probs=13.9

Q ss_pred             CCHHHHHHHHHhcCCCCHhHHHHHHHHHH
Q 006246          244 GRFEEARKLFNEMNDKDEITWSAIIDGYT  272 (654)
Q Consensus       244 g~~~~A~~~~~~~~~~~~~~~~~li~~~~  272 (654)
                      ++++.|.+.+.+-  .+...|..++..+.
T Consensus       110 ~d~~~a~~~~~~~--~~~~lw~~~~~~~l  136 (140)
T smart00299      110 GNYEKAIEYFVKQ--NNPELWAEVLKALL  136 (140)
T ss_pred             cCHHHHHHHHHhC--CCHHHHHHHHHHHH
Confidence            5566666655542  23445555555443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.14  E-value=9.3  Score=40.57  Aligned_cols=360  Identities=12%  Similarity=0.064  Sum_probs=177.5

Q ss_pred             CChHHHHHHHHHHHHhCCCCchh-HHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHH-hCCCchHHH
Q 006246           44 TSWQHLKQAHAVILKSGHFQDHY-VSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACL-EHNEPWRVI  118 (654)
Q Consensus        44 ~~~~~a~~~~~~~~~~g~~~~~~-~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~-~~g~~~~A~  118 (654)
                      .+...++.++..++..  -|-.+ .|-.....=.+  .|..+.+.++|++..   ..++..|...+..+. ..|+.+...
T Consensus        59 ~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~k--lg~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~n~~~d~~~lr  134 (577)
T KOG1258|consen   59 EDVDALREVYDIFLSK--YPLCYGYWKKFADYEYK--LGNAENSVKVFERGVQAIPLSVDLWLSYLAFLKNNNGDPETLR  134 (577)
T ss_pred             hHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhccCCCHHHHH
Confidence            3455666666666633  23333 33444444445  777888888887765   345556766665444 346667777


Q ss_pred             HHHHHhHhC-CCCC-CcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh-----cCCHHHHHHH-
Q 006246          119 SLYSEMVGV-DSKP-NKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC-----FGCVNKARQI-  190 (654)
Q Consensus       119 ~~~~~m~~~-g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~-----~g~~~~A~~~-  190 (654)
                      ++|+..... |..- ....|...|.--...+++....+++++.++.-...-...+.......-.     ....+++.++ 
T Consensus       135 ~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~  214 (577)
T KOG1258|consen  135 DLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEEKILLSIDELIQLR  214 (577)
T ss_pred             HHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHh
Confidence            777776652 2221 2234555555555666677777777776653211100111111110000     0111111111 


Q ss_pred             ----------------------HhcCCCC-Ch--hhHHHH-------HHHHHHcCCHHHHHHHHHhcCC-----------
Q 006246          191 ----------------------LDDGSKS-DV--ICWNAL-------IDGYLKCGDIEGAKELFKSTKD-----------  227 (654)
Q Consensus       191 ----------------------~~~~~~~-~~--~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~-----------  227 (654)
                                            .+....+ +.  ..-+.+       -..|...-...+....|+.-.+           
T Consensus       215 ~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~  294 (577)
T KOG1258|consen  215 SDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQ  294 (577)
T ss_pred             hhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHHHHHhhhhhccccccccCcccH
Confidence                                  1111111 00  001111       0112222222333333333222           


Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 006246          228 KNTGSYNAMISGFARFGRFEEARKLFNEMNDKD---EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLA  304 (654)
Q Consensus       228 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  304 (654)
                      ++..+|..-++--.+.|+.+.+.-+|++..-|-   ...|-..+.-....|+.+-|-.++....+--++-...+-..-..
T Consensus       295 aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  295 AQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            245577777888888888888888888877652   23455555555555888877777766555433322222222222


Q ss_pred             HHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHH---HHHhhcCC--CCHHHHHHHHHHH-----HH
Q 006246          305 ACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAW---KVFEDMKM--KEVFTWNAMIGGL-----AM  374 (654)
Q Consensus       305 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~---~~~~~m~~--~~~~~~~~li~~~-----~~  374 (654)
                      .+-..|+++.|..+++.+...- +.-+.+-..-+.+..+.|..+.+.   .++.....  .+....+.+..-+     .-
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i  453 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEY-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKI  453 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhC-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHH
Confidence            3455678888888888877654 222333333455566677777766   33333222  1222222222222     22


Q ss_pred             cCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc
Q 006246          375 HGRADDAIELFFKMQREKMRPDRITFACVLSACAH  409 (654)
Q Consensus       375 ~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  409 (654)
                      .++.+.|..++.+|.+. ++++..-|..++.-+..
T Consensus       454 ~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~  487 (577)
T KOG1258|consen  454 REDADLARIILLEANDI-LPDCKVLYLELIRFELI  487 (577)
T ss_pred             hcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHh
Confidence            45666677777666654 34455555555554443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.13  E-value=2.2  Score=36.50  Aligned_cols=115  Identities=11%  Similarity=0.030  Sum_probs=56.1

Q ss_pred             HHHHHHcCChhHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHc
Q 006246          369 IGGLAMHGRADDAIELFFKMQREKMRP--DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRA  446 (654)
Q Consensus       369 i~~~~~~g~~~~A~~l~~~m~~~g~~p--~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~  446 (654)
                      .....+.|++++|.+.|+.+...-.-.  ....-..++.++.+.+++++|...+++.++.+.-.|++ -|...+.+++.-
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~v-dYa~Y~~gL~~~   95 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNV-DYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCc-cHHHHHHHHHHH
Confidence            334445566666666666665531110  12234455556666666666666666666544333432 343333333322


Q ss_pred             CCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          447 GYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       447 g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ...+.+..-+-  ..+-|             .+....|...|+++++..|++.
T Consensus        96 ~~~~~~~~~~~--~~drD-------------~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   96 EQDEGSLQSFF--RSDRD-------------PTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHhhhHHhhhc--ccccC-------------cHHHHHHHHHHHHHHHHCcCCh
Confidence            22111111111  11111             1225678888888888888875

>PRK09687 putative lyase; Provisional

Probab=94.10  E-value=6.4  Score=38.60  Aligned_cols=61  Identities=16%  Similarity=0.127  Sum_probs=27.0

Q ss_pred             CCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCCh----HHHHHHHHHH
Q 006246          227 DKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYY----KEALEVFNEM  287 (654)
Q Consensus       227 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m  287 (654)
                      .+|..+....+..+...|..+-...+..-+..+|...-...+.++.+.|+.    .+++.++..+
T Consensus        34 d~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l   98 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNL   98 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHH
Confidence            344444444444444444433333333323344444444455555555542    3445555444

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=94.09  E-value=0.36  Score=36.07  Aligned_cols=54  Identities=11%  Similarity=0.064  Sum_probs=25.3

Q ss_pred             HHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          371 GLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       371 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .|.+.+++++|++.++++...+ +.+...+......+.+.|++++|.+.|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3444555555555555555432 11333344444444555555555555555543

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.08  E-value=2.1  Score=44.88  Aligned_cols=132  Identities=12%  Similarity=0.143  Sum_probs=72.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCCh
Q 006246          299 LSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRA  378 (654)
Q Consensus       299 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~  378 (654)
                      ...++.-+.+.|-.+.|.++-..         +.   .-.+...++|+++.|.++-++..  +...|..|.....++|+.
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~  363 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNI  363 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCH
Confidence            44455555555555555544322         11   22344556777777777666554  555777777777777777


Q ss_pred             hHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHh
Q 006246          379 DDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISS  458 (654)
Q Consensus       379 ~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  458 (654)
                      +-|.+.|++...         |..|+-.|.-.|+.+.-.++.+..... |      -++.-...+.-.|+.++..+++.+
T Consensus       364 ~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~-~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  364 ELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER-G------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT-T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc-c------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777777776543         445555566667766655555554442 2      134444444555666666666655


Q ss_pred             CC
Q 006246          459 MP  460 (654)
Q Consensus       459 m~  460 (654)
                      .+
T Consensus       428 ~~  429 (443)
T PF04053_consen  428 TG  429 (443)
T ss_dssp             TT
T ss_pred             cC
Confidence            54

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=93.94  E-value=7.6  Score=38.88  Aligned_cols=270  Identities=12%  Similarity=0.057  Sum_probs=135.8

Q ss_pred             CCChHHHHHHHhcCC---CCCcchHHHHHHHH--HhCCCchHHHHHHHHhHhCCCCCCcccHHH----HHHHHhccCCcH
Q 006246           80 FSNFELALKVFNSVH---KPNVFVWNSVLRAC--LEHNEPWRVISLYSEMVGVDSKPNKFTYPT----VFKACSITEADK  150 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~---~~~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~----ll~~~~~~~~~~  150 (654)
                      .|+-..|++.-.+..   ..|....-.++.+-  .-.|+++.|.+-|+.|..     |+.|-..    |.-..-+.|+.+
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGLRgLyleAqr~Gare  171 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGLRGLYLEAQRLGARE  171 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhHHHHHHHHHhcccHH
Confidence            566666666554433   23333333333322  235677777777777764     2222222    222234556666


Q ss_pred             HHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC-----CCCChhh--HHHHHHHHH---HcCCHHHHHH
Q 006246          151 EGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG-----SKSDVIC--WNALIDGYL---KCGDIEGAKE  220 (654)
Q Consensus       151 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~-----~~~~~~~--~~~li~~~~---~~g~~~~A~~  220 (654)
                      .|++.-+..-..- +.-...+.+++...+..|+++.|+++++.-     ..+++.-  -..|+.+-+   -.-+...|..
T Consensus       172 aAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~  250 (531)
T COG3898         172 AARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARD  250 (531)
T ss_pred             HHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHH
Confidence            6666665554432 223456666666777777777777776642     3333321  112222111   1123444444


Q ss_pred             HHHhcCC--CCcch-HHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh-CCCCCCc
Q 006246          221 LFKSTKD--KNTGS-YNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQR-DKIKPRK  296 (654)
Q Consensus       221 ~~~~m~~--~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~  296 (654)
                      .-.+..+  ||... -..-..++.+.|++.++-.+++.+-+.....-  +...|....--+.++.-+++..+ ..++||.
T Consensus       251 ~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~lY~~ar~gdta~dRlkRa~~L~slk~nn  328 (531)
T COG3898         251 DALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IALLYVRARSGDTALDRLKRAKKLESLKPNN  328 (531)
T ss_pred             HHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHHHHHHhcCCCcHHHHHHHHHHHHhcCccc
Confidence            4333332  44332 22334567777777777777777654322221  22233333333444444444433 2244543


Q ss_pred             -chHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH-cCCHHHHHHHHhhcCC
Q 006246          297 -FVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK-CGRLDMAWKVFEDMKM  359 (654)
Q Consensus       297 -~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~-~g~~~~A~~~~~~m~~  359 (654)
                       .....+..+....|++..|..--+.+.+.  .|....|-.|.+.-.. .|+-.++.+.+.+...
T Consensus       329 aes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         329 AESSLAVAEAALDAGEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             hHHHHHHHHHHHhccchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence             44555566666777777776655555443  4555666666655433 4777787777766543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=93.91  E-value=3.3  Score=41.89  Aligned_cols=72  Identities=11%  Similarity=0.132  Sum_probs=44.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhcCCC---C----HhHHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 006246          235 AMISGFARFGRFEEARKLFNEMNDK---D----EITWSAIIDGYTK---DGYYKEALEVFNEMQRDKIKPRKFVLSCVLA  304 (654)
Q Consensus       235 ~li~~~~~~g~~~~A~~~~~~~~~~---~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  304 (654)
                      .++-+|-...+++...++++.+...   +    ...--...-++.+   .|+.++|++++..+....-.++..||..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            3444566667777777777776653   1    1112223344555   7888888888888666555677777777666


Q ss_pred             HH
Q 006246          305 AC  306 (654)
Q Consensus       305 ~~  306 (654)
                      .|
T Consensus       226 Iy  227 (374)
T PF13281_consen  226 IY  227 (374)
T ss_pred             HH
Confidence            55

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=93.84  E-value=7.9  Score=38.76  Aligned_cols=241  Identities=17%  Similarity=0.147  Sum_probs=130.9

Q ss_pred             cCCHHHHHHHHHhcCCC-Ccc--hHHHHHHHHHhcCCHHHHHHHHHhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHH
Q 006246          212 CGDIEGAKELFKSTKDK-NTG--SYNAMISGFARFGRFEEARKLFNEMNDK---DEITWSAIIDGYTKDGYYKEALEVFN  285 (654)
Q Consensus       212 ~g~~~~A~~~~~~m~~~-~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~  285 (654)
                      .|++++|.+-|+.|... ...  -...|.-.-.+.|..+.|.+.-+..-..   -...+.+.+...+..|+|+.|+++.+
T Consensus       133 eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd  212 (531)
T COG3898         133 EGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVD  212 (531)
T ss_pred             cCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHH
Confidence            45555555555555431 111  1111222223456666666666555432   23467778888888888888888887


Q ss_pred             HHHhCC-CCCCcc--hHHHHHHHHHh---cCChhHHHHHHHHHHHcCCCCchhHH-HHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          286 EMQRDK-IKPRKF--VLSCVLAACAS---LGALDQGIWIHDHVKRNSICVDAVLG-TALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       286 ~m~~~g-~~p~~~--t~~~ll~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                      .-+... +.++..  .-..++.+-+.   ..+...|+..-.+..+.  .||..-. -.-..+|.+.|++.++-.+++.+-
T Consensus       213 ~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aW  290 (531)
T COG3898         213 AQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAW  290 (531)
T ss_pred             HHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHH
Confidence            766543 334332  12223332211   12344555554444443  3332211 123456778888888888888776


Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHHhh-cCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchH
Q 006246          359 MKEVFTWNAMIGGLAMHGRADDAIELFFKMQR-EKMRPDR-ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHY  436 (654)
Q Consensus       359 ~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~  436 (654)
                      +.....--.  ..|....-.+.++.-+++..+ ..++||. .....+..+-...|++..|..--+....   ..|....|
T Consensus       291 K~ePHP~ia--~lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r---~~pres~~  365 (531)
T COG3898         291 KAEPHPDIA--LLYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR---EAPRESAY  365 (531)
T ss_pred             hcCCChHHH--HHHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh---hCchhhHH
Confidence            532222112  233333333445544444433 1245544 4566667777777888777766655543   47777777


Q ss_pred             HHHHHHHHH-cCCHHHHHHHHHhC
Q 006246          437 GCIVDLLGR-AGYLAEAEEVISSM  459 (654)
Q Consensus       437 ~~li~~~~~-~g~~~~A~~~~~~m  459 (654)
                      ..|.+.-.. .|+-.++...+-+.
T Consensus       366 lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         366 LLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHhhccCchHHHHHHHHHH
Confidence            777776543 47777777777655

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=93.81  E-value=0.66  Score=46.45  Aligned_cols=110  Identities=15%  Similarity=-0.010  Sum_probs=76.3

Q ss_pred             HHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcC
Q 006246          368 MIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAG  447 (654)
Q Consensus       368 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  447 (654)
                      -...|.+.|++..|...|++....            |. +...-+.++..... .        .-..++..|.-.|.+.+
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~~------------l~-~~~~~~~ee~~~~~-~--------~k~~~~lNlA~c~lKl~  271 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVSF------------LE-YRRSFDEEEQKKAE-A--------LKLACHLNLAACYLKLK  271 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHH------------hh-ccccCCHHHHHHHH-H--------HHHHHhhHHHHHHHhhh
Confidence            356788899999999998887652            00 11111112221111 1        11345677778888999


Q ss_pred             CHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          448 YLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       448 ~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ++.+|++..++. .. ++|.-..--=..+|...|+++.|+..|+++++++|+|.
T Consensus       272 ~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nk  325 (397)
T KOG0543|consen  272 EYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNK  325 (397)
T ss_pred             hHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcH
Confidence            999999888876 33 34677777778899999999999999999999999985

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=93.71  E-value=0.12  Score=31.83  Aligned_cols=33  Identities=21%  Similarity=0.211  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          466 AVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       466 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      .+|..+...|...|++++|...++++++++|++
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~n   34 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALELNPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            467888999999999999999999999999853

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=93.61  E-value=1.1  Score=46.00  Aligned_cols=62  Identities=13%  Similarity=0.022  Sum_probs=39.5

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCc----chHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 006246          197 SDVICWNALIDGYLKCGDIEGAKELFKSTKD--KNT----GSYNAMISGFARFGRFEEARKLFNEMND  258 (654)
Q Consensus       197 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~  258 (654)
                      .+...|+.+..+|.+.|++++|+..|++..+  |+.    .+|..+..+|.+.|+.++|...+++..+
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455666666666777777777777766554  332    2366666677777777777776666654

>PRK15331 chaperone protein SicA; Provisional

Probab=93.50  E-value=0.67  Score=40.56  Aligned_cols=91  Identities=11%  Similarity=-0.107  Sum_probs=50.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCC
Q 006246          267 IIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGR  346 (654)
Q Consensus       267 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~  346 (654)
                      ...-+.+.|++++|..+|+-+...+ .-+..-+..|..++-..+.+++|...|......+. .|+...--....|...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            3444556677777777776665543 11222334444445556666777766666555432 233333345566666666


Q ss_pred             HHHHHHHHhhcCC
Q 006246          347 LDMAWKVFEDMKM  359 (654)
Q Consensus       347 ~~~A~~~~~~m~~  359 (654)
                      .+.|+..|+....
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666665544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.44  E-value=1.7  Score=41.43  Aligned_cols=100  Identities=14%  Similarity=0.135  Sum_probs=68.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHHHHHhC----CCCC-CHHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEEVISSM----PMEP-NAAVWEALL  472 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p-~~~~~~~ll  472 (654)
                      .|+.-+. +.+.|++..|.+.|....+.|.-.+ ....+--|...+...|++++|...|..+    |-.| -+...--|.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            3554443 4456778888888888877532111 1234555778888888888888888766    3233 246667777


Q ss_pred             HHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          473 GACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       473 ~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ......|+.++|...++++++-.|+..
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCCH
Confidence            788888888888888888888888763

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=93.36  E-value=0.41  Score=41.79  Aligned_cols=57  Identities=14%  Similarity=0.204  Sum_probs=28.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHH
Q 006246          265 SAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV  322 (654)
Q Consensus       265 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  322 (654)
                      ..++..+...|++++|+.+.+.+.... +.|...+..++.++...|+...|.++|..+
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            344444555555555555555555543 334455555555555555555555555554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.33  E-value=15  Score=40.19  Aligned_cols=301  Identities=15%  Similarity=0.041  Sum_probs=168.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCC---hhhHHHHHHHHHHcCC--HHHHH-HHHHhcCC--CCcchHHHHHHHHHhcC
Q 006246          173 SGIQMYACFGCVNKARQILDDGSKSD---VICWNALIDGYLKCGD--IEGAK-ELFKSTKD--KNTGSYNAMISGFARFG  244 (654)
Q Consensus       173 ~li~~y~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~--~~~A~-~~~~~m~~--~~~~~~~~li~~~~~~g  244 (654)
                      .+++-+...+.+..|+++-..+..|-   ...+.....-+.+..+  -++++ .+-+++..  -+..+|..+..-...+|
T Consensus       442 ~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~G  521 (829)
T KOG2280|consen  442 VVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQEG  521 (829)
T ss_pred             hhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhcC
Confidence            45677778888999999888876554   3445555555555532  22333 33344444  46677888888888899


Q ss_pred             CHHHHHHHHHhcCCC--------CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCC----------CCCC-cchHHHHHH-
Q 006246          245 RFEEARKLFNEMNDK--------DEITWSAIIDGYTKDGYYKEALEVFNEMQRDK----------IKPR-KFVLSCVLA-  304 (654)
Q Consensus       245 ~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----------~~p~-~~t~~~ll~-  304 (654)
                      +.+-|..+.+.=+..        +..-+...+.-..+.|+.+-...++..+.+.-          ..|. ...|.-++. 
T Consensus       522 R~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~  601 (829)
T KOG2280|consen  522 RFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQFMRH  601 (829)
T ss_pred             cHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHh
Confidence            999999988754431        22335555666777777777777666654421          0111 111111111 


Q ss_pred             --------HHHhcCChhHHHHHHHHH-HH-cCCCCchhHHHHHHHHHHHcCCHHHH----------HHHHhhcCCC----
Q 006246          305 --------ACASLGALDQGIWIHDHV-KR-NSICVDAVLGTALVDMYAKCGRLDMA----------WKVFEDMKMK----  360 (654)
Q Consensus       305 --------~~~~~g~~~~a~~~~~~~-~~-~~~~~~~~~~~~li~~y~~~g~~~~A----------~~~~~~m~~~----  360 (654)
                              .|-...+......++-+- .+ ..+.+-........+.+++.....-.          +++++.+...    
T Consensus       602 ~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~  681 (829)
T KOG2280|consen  602 QDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFGGS  681 (829)
T ss_pred             hchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                    011111111111111111 00 00111111222334444444332111          1112222111    


Q ss_pred             -CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHH
Q 006246          361 -EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCI  439 (654)
Q Consensus       361 -~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~l  439 (654)
                       .--+.+--+.-+...|+..+|.++-.+.+    -||..-|-.-+.+++..+++++-.++-+..+       .+.-|.-.
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk-------sPIGy~PF  750 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK-------SPIGYLPF  750 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC-------CCCCchhH
Confidence             11234444556677788888888766654    5677778778888888888887554443322       25567778


Q ss_pred             HHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHH
Q 006246          440 VDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKI  490 (654)
Q Consensus       440 i~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  490 (654)
                      +..+.++|+.+||.+++.+.+.-+      -...+|.+.|++.+|.+.+-+
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~l~------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGGLQ------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCChH------HHHHHHHHhccHHHHHHHHHH
Confidence            888999999999999988875322      456778888888887766543

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.29  E-value=5.7  Score=37.52  Aligned_cols=226  Identities=14%  Similarity=0.153  Sum_probs=120.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh---CCCC--CCcchHHHHHHHHHhcCChhHHHHHHHHHHHc-----CCCCchh
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQR---DKIK--PRKFVLSCVLAACASLGALDQGIWIHDHVKRN-----SICVDAV  332 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~--p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~  332 (654)
                      ..-.+|..+.+.|++++.++.|++|+.   +.+.  -+..+.++++...+...+.+.-..+|+.-.+.     +-..=-.
T Consensus        67 ALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~m~LLQ~FYeTTL~ALkdAKNeRLWFK  146 (440)
T KOG1464|consen   67 ALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKNMDLLQEFYETTLDALKDAKNERLWFK  146 (440)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhhhcceeeee
Confidence            344556666666777766666666643   1111  12345566666555555555544444432220     0000011


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCCC---------------CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC-CCCC
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKMK---------------EVFTWNAMIGGLAMHGRADDAIELFFKMQREK-MRPD  396 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~~---------------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~  396 (654)
                      +-+-|...|...|++.+-.+++.++...               =...|..-|..|....+-.+-..+|++.+.-. --|.
T Consensus       147 TNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPH  226 (440)
T KOG1464|consen  147 TNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPH  226 (440)
T ss_pred             ccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCc
Confidence            2234566666667776666666665420               12456677788888888777778888776532 2344


Q ss_pred             HHHHHHHHHHHH-----ccCCHHHHHHHHHHHHHHcCCCCCcc-----hHHHHHHHHHHcC----CHHHHHHHHHhCCCC
Q 006246          397 RITFACVLSACA-----HAGMIDRGLQALTYMQQMYGIDPEVE-----HYGCIVDLLGRAG----YLAEAEEVISSMPME  462 (654)
Q Consensus       397 ~~t~~~ll~~~~-----~~g~~~~a~~~~~~~~~~~g~~p~~~-----~~~~li~~~~~~g----~~~~A~~~~~~m~~~  462 (654)
                      +. ...++.-|.     +.|.+++|-.-|-++.+.+.-.-++.     -|-.|.+++.+.|    +-.||.    -.+..
T Consensus       227 Pl-ImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmkS~iNPFDsQEAK----PyKNd  301 (440)
T KOG1464|consen  227 PL-IMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKSGINPFDSQEAK----PYKND  301 (440)
T ss_pred             hH-HHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHHcCCCCCcccccC----CCCCC
Confidence            33 445666664     56778877654444444343322222     2445566666665    112221    01234


Q ss_pred             CCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          463 PNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       463 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      |.......|+.+|..+.     +..|++++..+.++
T Consensus       302 PEIlAMTnlv~aYQ~Nd-----I~eFE~Il~~~~~~  332 (440)
T KOG1464|consen  302 PEILAMTNLVAAYQNND-----IIEFERILKSNRSN  332 (440)
T ss_pred             HHHHHHHHHHHHHhccc-----HHHHHHHHHhhhcc
Confidence            56677788999987764     33456666644444

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=93.04  E-value=0.34  Score=33.53  Aligned_cols=40  Identities=33%  Similarity=0.439  Sum_probs=30.5

Q ss_pred             HHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHH
Q 006246          470 ALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMK  512 (654)
Q Consensus       470 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~  512 (654)
                      .+.-++.+.|+++.|.+..+.+++++|+|   ..|..+.+.+.
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N---~Qa~~L~~~i~   45 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDN---RQAQSLKELIE   45 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS----HHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCc---HHHHHHHHHHH
Confidence            45668899999999999999999999998   45655555443

>PRK15331 chaperone protein SicA; Provisional

Probab=93.02  E-value=3.3  Score=36.34  Aligned_cols=17  Identities=29%  Similarity=0.327  Sum_probs=7.4

Q ss_pred             HcCChhHHHHHHHHHhh
Q 006246          374 MHGRADDAIELFFKMQR  390 (654)
Q Consensus       374 ~~g~~~~A~~l~~~m~~  390 (654)
                      +.|++++|..+|+-+..
T Consensus        49 ~~Gk~~eA~~~F~~L~~   65 (165)
T PRK15331         49 NQGRLDEAETFFRFLCI   65 (165)
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            34444444444444433

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=92.90  E-value=0.66  Score=43.91  Aligned_cols=109  Identities=11%  Similarity=0.127  Sum_probs=74.4

Q ss_pred             HHHHHhcC--CCCHhHHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc-------------
Q 006246          250 RKLFNEMN--DKDEITWSAIIDGYTKD-----GYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASL-------------  309 (654)
Q Consensus       250 ~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~-------------  309 (654)
                      ++.|....  ++|-.+|-+++..|...     +..+-....++.|.+-|+.-|..+|..||+.+-+.             
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            44455555  55667777777766543     45666666677888888888888888888776442             


Q ss_pred             ---CChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCH-HHHHHHHhhcC
Q 006246          310 ---GALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRL-DMAWKVFEDMK  358 (654)
Q Consensus       310 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~-~~A~~~~~~m~  358 (654)
                         .+-+-++.++++|...|+.||-.+-..|++++++.+-. .+..++.-.|+
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence               22356778888888888888888888888888877653 33444444443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=92.90  E-value=18  Score=40.12  Aligned_cols=115  Identities=9%  Similarity=0.051  Sum_probs=51.5

Q ss_pred             CCCChHHHHHHHHHHHHhCCCCch-----hHHHHHHHhcccccCCChHHHHHHHhcCCC----CCcchHHH----H-HHH
Q 006246           42 CHTSWQHLKQAHAVILKSGHFQDH-----YVSGTLVKCHANSRFSNFELALKVFNSVHK----PNVFVWNS----V-LRA  107 (654)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~g~~~~~-----~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~----~~~~~~~~----l-i~~  107 (654)
                      ...+++.|+....+.+...-.++.     .....|+..|.+  .+... |.+..++..+    .....|..    + +..
T Consensus        72 eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~--~~~~~-a~~~l~~~I~~~~~~~~~~w~~~frll~~~l  148 (608)
T PF10345_consen   72 ETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFK--TNPKA-ALKNLDKAIEDSETYGHSAWYYAFRLLKIQL  148 (608)
T ss_pred             HcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHh--cCHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            456677777776655443222211     112344455555  33333 6666655431    11112222    2 222


Q ss_pred             HHhCCCchHHHHHHHHhHhCC---CCCCcccHHHHHHHHh--ccCCcHHHHHHHHHH
Q 006246          108 CLEHNEPWRVISLYSEMVGVD---SKPNKFTYPTVFKACS--ITEADKEGVQVHAHV  159 (654)
Q Consensus       108 ~~~~g~~~~A~~~~~~m~~~g---~~p~~~t~~~ll~~~~--~~~~~~~a~~~~~~~  159 (654)
                      +...+++..|++.++.+....   ..|-...+..++.+..  +.+..+.+.+....+
T Consensus       149 ~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~  205 (608)
T PF10345_consen  149 ALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRA  205 (608)
T ss_pred             HHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHH
Confidence            222367777777776665422   1222333444444432  334344555555544

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.83  E-value=12  Score=38.99  Aligned_cols=98  Identities=10%  Similarity=0.112  Sum_probs=52.5

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCC--CCC--HHHHHHHHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPM--EPN--AAVWEALLGACRK  477 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~p~--~~~~~~ll~~~~~  477 (654)
                      .+..++-+.|+.++|++.|+.+.+.+...........|++.|...+.+.++..++.+-..  -|.  ...|+..+-..+.
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaRa  343 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKARA  343 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHHh
Confidence            344455556666666666666655322222233445566666666666666666665521  122  3334444433333


Q ss_pred             hCCh---------------HHHHHHHHHHHhcCCCCC
Q 006246          478 HGEV---------------EFGERLGKILLEMEPQNR  499 (654)
Q Consensus       478 ~g~~---------------~~a~~~~~~~~~~~p~~~  499 (654)
                      .++.               ..|.++..++.+.+|.-+
T Consensus       344 v~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp  380 (539)
T PF04184_consen  344 VGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVP  380 (539)
T ss_pred             hccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCc
Confidence            3331               235677888888888765

The molecular function of this protein is uncertain.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=92.79  E-value=1.2  Score=44.57  Aligned_cols=78  Identities=18%  Similarity=0.067  Sum_probs=49.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      .+++.+..+|.+.+++.+|++.-.+.+..+ ++|.-.+-.-..++...|.++.|+..|..+++.. +.|-.+-+.|+.+-
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLK  335 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            456677777788888888888777777764 4455555555666777777777777777776654 22333333444333

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.79  E-value=4.9  Score=38.78  Aligned_cols=51  Identities=16%  Similarity=0.210  Sum_probs=26.6

Q ss_pred             HHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 006246          208 GYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND  258 (654)
Q Consensus       208 ~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  258 (654)
                      .....|+..+|..+|+....   .+...--.+...|...|+++.|..++..++.
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~  196 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPL  196 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcc
Confidence            34555566666655555443   2333444455555555555555555555543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.57  E-value=3.4  Score=40.73  Aligned_cols=129  Identities=17%  Similarity=0.072  Sum_probs=79.9

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhcCCCC-----CHHHHHHHHHHHHccCCHHHHHHHHHHHHH---HcCCCCCcchHH
Q 006246          366 NAMIGGLAMHGRADDAIELFFKMQREKMRP-----DRITFACVLSACAHAGMIDRGLQALTYMQQ---MYGIDPEVEHYG  437 (654)
Q Consensus       366 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-----~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~---~~g~~p~~~~~~  437 (654)
                      -+|..++.-.+.++++++.|+...+---..     .-..+..|-+.|.+..++++|.-+..+..+   .+++..-..-|.
T Consensus       126 l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr  205 (518)
T KOG1941|consen  126 LSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYR  205 (518)
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHH
Confidence            345566666677888888887766521111     223577777778888888887766555433   123332222333


Q ss_pred             H-----HHHHHHHcCCHHHHHHHHHhC-------CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          438 C-----IVDLLGRAGYLAEAEEVISSM-------PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       438 ~-----li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      +     |.-+|-..|++.+|.+..++.       +.+| -......+.+.|+..|+.|.|..-|+.+...
T Consensus       206 ~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am~~  275 (518)
T KOG1941|consen  206 AMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAMGT  275 (518)
T ss_pred             HHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHHHH
Confidence            3     334566777777777777654       3222 2444567788899999999988888877663

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=92.57  E-value=14  Score=37.87  Aligned_cols=143  Identities=13%  Similarity=0.127  Sum_probs=99.2

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCC-----CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH-HHHHHH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKM-----KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI-TFACVL  404 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll  404 (654)
                      ..+|..+++.-.+..-++.|+++|-+..+     +++..+++++.-++ .|+..-|..+|+--...  -||.. -....+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            45777788888888888888888887764     47778888888776 46667888888765443  33443 334556


Q ss_pred             HHHHccCCHHHHHHHHHHHHHHcCCCCC--cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHh
Q 006246          405 SACAHAGMIDRGLQALTYMQQMYGIDPE--VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALLGACRKH  478 (654)
Q Consensus       405 ~~~~~~g~~~~a~~~~~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~  478 (654)
                      .-+...++-+.|..+|+...+.  +..+  ...|..+|+-=..-|++..|..+=++| ..-|-..+.....+-|...
T Consensus       474 ~fLi~inde~naraLFetsv~r--~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~Sry~ik  548 (660)
T COG5107         474 LFLIRINDEENARALFETSVER--LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTSRYAIK  548 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH--HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHHHHhhh
Confidence            6667788888999999866653  3333  568999998888899998888777776 2334444444444555443

>PRK11906 transcriptional regulator; Provisional

Probab=92.50  E-value=6.8  Score=40.50  Aligned_cols=109  Identities=15%  Similarity=0.051  Sum_probs=59.0

Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHH
Q 006246          378 ADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVI  456 (654)
Q Consensus       378 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~  456 (654)
                      ..+|.++-++..+.+ +-|......+..+....++.+.|...|++...   +.|+ ...|........-+|+.++|.+.+
T Consensus       320 ~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~---L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i  395 (458)
T PRK11906        320 AQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKI---HSTDIASLYYYRALVHFHNEKIEEARICI  395 (458)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhh---cCCccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            445566666666554 33555555555555666667777777776654   3454 333444444455567777777777


Q ss_pred             Hh-CCCCCC---HHHHHHHHHHHHHhCChHHHHHHHHHH
Q 006246          457 SS-MPMEPN---AAVWEALLGACRKHGEVEFGERLGKIL  491 (654)
Q Consensus       457 ~~-m~~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~  491 (654)
                      ++ +...|.   ..+....++.|..++ ++.|+++|-+-
T Consensus       396 ~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  433 (458)
T PRK11906        396 DKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIKLYYKE  433 (458)
T ss_pred             HHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHHHHhhc
Confidence            66 344443   333333344444444 55555555443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.42  E-value=10  Score=35.97  Aligned_cols=56  Identities=14%  Similarity=0.075  Sum_probs=34.6

Q ss_pred             HHHHHHcCChhHHHHHHHHHhhcCCCCCH---HHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          369 IGGLAMHGRADDAIELFFKMQREKMRPDR---ITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       369 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~---~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ..-|.+.|.+..|..-+++|++. .+-..   ..+-.+..+|...|..++|...-.-+..
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            44577777777777777777775 22122   2344555667777777777666555544

>PRK11906 transcriptional regulator; Provisional

Probab=92.38  E-value=3  Score=43.01  Aligned_cols=119  Identities=11%  Similarity=0.128  Sum_probs=84.5

Q ss_pred             hhHHHHHHHHHhh-cCCCCCHH-HHHHHHHHHH---------ccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHc
Q 006246          378 ADDAIELFFKMQR-EKMRPDRI-TFACVLSACA---------HAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRA  446 (654)
Q Consensus       378 ~~~A~~l~~~m~~-~g~~p~~~-t~~~ll~~~~---------~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~  446 (654)
                      .+.|+.+|.+... +.+.|+.. .|..+..++.         ......+|.++-++..+-  -.-|......+..++.-.
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAvel--d~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDI--TTVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHhh
Confidence            5678888888872 23466544 3333332221         123455666666666652  234566666777777888


Q ss_pred             CCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          447 GYLAEAEEVISSM-PMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       447 g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      |+++.|...|++. ...|| +.+|......+.-.|+.++|.+..+++++++|..
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~  405 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRR  405 (458)
T ss_pred             cchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchh
Confidence            9999999999988 45665 7788888888899999999999999999999984

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=92.36  E-value=0.061  Score=46.90  Aligned_cols=85  Identities=15%  Similarity=0.135  Sum_probs=60.8

Q ss_pred             HHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHH
Q 006246          138 TVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEG  217 (654)
Q Consensus       138 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  217 (654)
                      .++..+.+.+.++.....++.+...+...+....+.++.+|++.++.+...++++....   .-...++..+.+.|.+++
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHH
Confidence            45666777778888888888888777667788889999999998888888888874332   334566677777777777


Q ss_pred             HHHHHHhc
Q 006246          218 AKELFKST  225 (654)
Q Consensus       218 A~~~~~~m  225 (654)
                      |.-++.++
T Consensus        89 a~~Ly~~~   96 (143)
T PF00637_consen   89 AVYLYSKL   96 (143)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHHHc
Confidence            77765544

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.24  E-value=12  Score=36.63  Aligned_cols=20  Identities=10%  Similarity=-0.071  Sum_probs=13.3

Q ss_pred             HHHHHhCChHHHHHHHHHHH
Q 006246          473 GACRKHGEVEFGERLGKILL  492 (654)
Q Consensus       473 ~~~~~~g~~~~a~~~~~~~~  492 (654)
                      ..+.+.++++.|...|+-.+
T Consensus       254 ~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  254 KKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHhhcCHHHHHHHHHHHH
Confidence            34556677777777777554

It is also involved in sporulation [].

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.11  E-value=0.26  Score=30.93  Aligned_cols=28  Identities=18%  Similarity=0.148  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          467 VWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       467 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      +|..|...|.+.|++++|+.++++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4778888999999999999999986654

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=92.08  E-value=3.5  Score=34.52  Aligned_cols=64  Identities=14%  Similarity=0.173  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSI  327 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  327 (654)
                      ..+..+....+.|+-+.-.++++.+.+.+ .+++..+..+..||.+.|+..++.+++.++-+.|+
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            34455666677777777777777666532 55666666677777777777777777777766664

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.93  E-value=1.7  Score=41.43  Aligned_cols=86  Identities=14%  Similarity=0.124  Sum_probs=50.7

Q ss_pred             HcCChhHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCc-chHHHHHHHHHHcCCHH
Q 006246          374 MHGRADDAIELFFKMQREKMRP--DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEV-EHYGCIVDLLGRAGYLA  450 (654)
Q Consensus       374 ~~g~~~~A~~l~~~m~~~g~~p--~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~  450 (654)
                      +.|++.+|..-|..-++....-  ....+..|..++...|++++|..+|..+.+.++-.|.. +..--|.....+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            4555666666666666542110  11234446666666677777777776666665555543 45556666666777777


Q ss_pred             HHHHHHHhC
Q 006246          451 EAEEVISSM  459 (654)
Q Consensus       451 ~A~~~~~~m  459 (654)
                      +|...|++.
T Consensus       233 ~A~atl~qv  241 (262)
T COG1729         233 EACATLQQV  241 (262)
T ss_pred             HHHHHHHHH
Confidence            777666665

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=91.93  E-value=10  Score=35.01  Aligned_cols=184  Identities=22%  Similarity=0.163  Sum_probs=132.6

Q ss_pred             CChhHHHHHHHHHHHcCCC-CchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-----CCHHHHHHHHHHHHHcCChhHHHH
Q 006246          310 GALDQGIWIHDHVKRNSIC-VDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-----KEVFTWNAMIGGLAMHGRADDAIE  383 (654)
Q Consensus       310 g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~A~~  383 (654)
                      +....+...+......... ............+...+.+..+...+.....     .....+......+...+++..+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            3344444444444443322 1356667788888999999999888887652     355677777888888899999999


Q ss_pred             HHHHHhhcCCCCCHHHHHHHHH-HHHccCCHHHHHHHHHHHHHHcCCCC----CcchHHHHHHHHHHcCCHHHHHHHHHh
Q 006246          384 LFFKMQREKMRPDRITFACVLS-ACAHAGMIDRGLQALTYMQQMYGIDP----EVEHYGCIVDLLGRAGYLAEAEEVISS  458 (654)
Q Consensus       384 l~~~m~~~g~~p~~~t~~~ll~-~~~~~g~~~~a~~~~~~~~~~~g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~  458 (654)
                      .+.........+. ........ .+...|+++.+...+.....   ..|    ....+......+...++.++|...+.+
T Consensus       117 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  192 (291)
T COG0457         117 LLEKALALDPDPD-LAEALLALGALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEK  192 (291)
T ss_pred             HHHHHHcCCCCcc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHH
Confidence            9999887544432 22222333 78899999999999999854   233    233444444556788999999999988


Q ss_pred             C-CCCCC--HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          459 M-PMEPN--AAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       459 m-~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                      . ...++  ...+..+...+...++.+.|...+..+++..|.
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  234 (291)
T COG0457         193 ALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD  234 (291)
T ss_pred             HHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc
Confidence            7 33333  678888999999999999999999999998887

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=91.90  E-value=14  Score=36.35  Aligned_cols=58  Identities=12%  Similarity=0.150  Sum_probs=26.7

Q ss_pred             HHHHHHHHHhcCCHHH---HHHHHHhcCC--CC-HhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006246          233 YNAMISGFARFGRFEE---ARKLFNEMND--KD-EITWSAIIDGYTKDGYYKEALEVFNEMQRD  290 (654)
Q Consensus       233 ~~~li~~~~~~g~~~~---A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  290 (654)
                      ...++.+|...+..+.   |.++.+.+..  ++ +..+-.-+..+.+.++.+++.+.+.+|...
T Consensus        87 L~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   87 LRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            4445555555444332   3333333321  12 333334444444455666666666666554

It is also involved in sporulation [].

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=91.89  E-value=6.8  Score=32.86  Aligned_cols=63  Identities=11%  Similarity=0.159  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCC
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGI  429 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~  429 (654)
                      .+.-+..+...|+-++-.+++.++.+. -+|++.....+..||.+.|+..++-+++.++-+. |+
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek-G~  151 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEK-GL  151 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-T-
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh-ch
Confidence            344456667777777777777776643 2566677777777788888877777777777663 54

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.80  E-value=12  Score=35.49  Aligned_cols=157  Identities=16%  Similarity=0.108  Sum_probs=90.6

Q ss_pred             HcCCHHHHHHHHhhcCCC------CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc---c---
Q 006246          343 KCGRLDMAWKVFEDMKMK------EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAH---A---  410 (654)
Q Consensus       343 ~~g~~~~A~~~~~~m~~~------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~---~---  410 (654)
                      +.|++++|.+.|+.+..+      ...+--.++-++-+.+++++|+..+++..+.-..-...-|...|.+.+.   .   
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~~  125 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDDV  125 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCcc
Confidence            457777777777777653      1223344556667777888888877777664322222233333333332   1   


Q ss_pred             -CCH---HHHHHHHHHHHHHcCC---CCCcch------------HHHHHHHHHHcCCHHHHHHHHHhCC-CCC----CHH
Q 006246          411 -GMI---DRGLQALTYMQQMYGI---DPEVEH------------YGCIVDLLGRAGYLAEAEEVISSMP-MEP----NAA  466 (654)
Q Consensus       411 -g~~---~~a~~~~~~~~~~~g~---~p~~~~------------~~~li~~~~~~g~~~~A~~~~~~m~-~~p----~~~  466 (654)
                       .+.   .+|..-|+.+..++.-   .||+..            =..+..-|.+.|.+..|..-+++|- .-|    ...
T Consensus       126 ~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~e  205 (254)
T COG4105         126 TRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLENYPDTSAVRE  205 (254)
T ss_pred             ccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhccccccchHH
Confidence             222   3344444444443211   122111            1234567888899888888887771 112    244


Q ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          467 VWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       467 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+-.+..+|...|-.++|.+..+-+-.-.|++.
T Consensus       206 aL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s~  238 (254)
T COG4105         206 ALARLEEAYYALGLTDEAKKTAKVLGANYPDSQ  238 (254)
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCc
Confidence            566677899999999999888776665556553

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.69  E-value=9.1  Score=33.94  Aligned_cols=36  Identities=11%  Similarity=0.066  Sum_probs=18.5

Q ss_pred             HHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhc
Q 006246          158 HVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDD  193 (654)
Q Consensus       158 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  193 (654)
                      .+.+.+++++...+..+++.+.+.|++..-..++.-
T Consensus        19 Sl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~   54 (167)
T PF07035_consen   19 SLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQY   54 (167)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhh
Confidence            334445555555555555555555555554444444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.66  E-value=6.6  Score=38.84  Aligned_cols=214  Identities=14%  Similarity=0.156  Sum_probs=121.0

Q ss_pred             HcCCHHHHHHHHHhcCCC------CcchHHHHHHHHHhcCCHHHHHHH-------HHhcCCC--CHhHHHHHHHHHHhcC
Q 006246          211 KCGDIEGAKELFKSTKDK------NTGSYNAMISGFARFGRFEEARKL-------FNEMNDK--DEITWSAIIDGYTKDG  275 (654)
Q Consensus       211 ~~g~~~~A~~~~~~m~~~------~~~~~~~li~~~~~~g~~~~A~~~-------~~~~~~~--~~~~~~~li~~~~~~g  275 (654)
                      ...+.++|+..+.+....      -..++..+..+.++.|.+++++..       +....+.  -..+|-.+..++-+.-
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344445555554444331      123455566666666666665432       1111111  1235666666666666


Q ss_pred             ChHHHHHHHHHHHh-CCCCCC---cchHHHHHHHHHhcCChhHHHHHHHHHHHcC-----CCCchhHHHHHHHHHHHcCC
Q 006246          276 YYKEALEVFNEMQR-DKIKPR---KFVLSCVLAACASLGALDQGIWIHDHVKRNS-----ICVDAVLGTALVDMYAKCGR  346 (654)
Q Consensus       276 ~~~~A~~~~~~m~~-~g~~p~---~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~~~~~~~~li~~y~~~g~  346 (654)
                      ++.+++.+-+.-.. .|..|.   .....++..+....+.++++.+.|+.+.+..     ......++.+|...|++..+
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D  177 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKD  177 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHh
Confidence            66666666544333 233331   1233445667777778888888888776632     12245678888888998888


Q ss_pred             HHHHHHHHhhcCC-------CCHH------HHHHHHHHHHHcCChhHHHHHHHHHhh----cCCCCCH-HHHHHHHHHHH
Q 006246          347 LDMAWKVFEDMKM-------KEVF------TWNAMIGGLAMHGRADDAIELFFKMQR----EKMRPDR-ITFACVLSACA  408 (654)
Q Consensus       347 ~~~A~~~~~~m~~-------~~~~------~~~~li~~~~~~g~~~~A~~l~~~m~~----~g~~p~~-~t~~~ll~~~~  408 (654)
                      +++|.-+..+..+       .|..      +.-.|..++...|..-+|.+.-++..+    .|-+|-. .....+...|.
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR  257 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYR  257 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHH
Confidence            8887655443321       2332      233455677778888778777777544    3322211 23445556677


Q ss_pred             ccCCHHHHHHHHHHHH
Q 006246          409 HAGMIDRGLQALTYMQ  424 (654)
Q Consensus       409 ~~g~~~~a~~~~~~~~  424 (654)
                      ..|+.+.|+.-++...
T Consensus       258 ~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  258 SRGDLERAFRRYEQAM  273 (518)
T ss_pred             hcccHhHHHHHHHHHH
Confidence            7788887776666543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.03  E-value=14  Score=39.33  Aligned_cols=79  Identities=14%  Similarity=0.135  Sum_probs=36.8

Q ss_pred             ChhHHHHHHHHHHHcCCCCchhHHH-HHHHHHHHcCCHHHHHHHHhhcCCC-------CHHHHHHHHHHHHHcCChhHHH
Q 006246          311 ALDQGIWIHDHVKRNSICVDAVLGT-ALVDMYAKCGRLDMAWKVFEDMKMK-------EVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~y~~~g~~~~A~~~~~~m~~~-------~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      ..+.+.+++..+.+.=  |+...|. --...+...|++++|.+.|++....       ....+--+.-.+.-.+++++|.
T Consensus       248 ~~~~a~~lL~~~~~~y--P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  248 PLEEAEELLEEMLKRY--PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            4455555555555432  2322222 2234445556666666666643321       1122223333444555566666


Q ss_pred             HHHHHHhhc
Q 006246          383 ELFFKMQRE  391 (654)
Q Consensus       383 ~l~~~m~~~  391 (654)
                      +.|.++.+.
T Consensus       326 ~~f~~L~~~  334 (468)
T PF10300_consen  326 EYFLRLLKE  334 (468)
T ss_pred             HHHHHHHhc
Confidence            666665553

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.93  E-value=29  Score=38.25  Aligned_cols=74  Identities=15%  Similarity=0.251  Sum_probs=46.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhC
Q 006246          400 FACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHG  479 (654)
Q Consensus       400 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g  479 (654)
                      ....+..|.+.|-+++-.-++.+|    |     .++.+|.-..-+.+++++|+++..+   ..|...|..|++-+...-
T Consensus       637 lekA~eiC~q~~~~~E~VYlLgrm----G-----n~k~AL~lII~el~die~AIefvKe---q~D~eLWe~LI~~~ldkP  704 (846)
T KOG2066|consen  637 LEKALEICSQKNFYEELVYLLGRM----G-----NAKEALKLIINELRDIEKAIEFVKE---QDDSELWEDLINYSLDKP  704 (846)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHHhh----c-----chHHHHHHHHHHhhCHHHHHHHHHh---cCCHHHHHHHHHHhhcCc
Confidence            344555666666666666666555    2     2344454455566677777776665   458999999998887765


Q ss_pred             ChHHHH
Q 006246          480 EVEFGE  485 (654)
Q Consensus       480 ~~~~a~  485 (654)
                      .+-.+.
T Consensus       705 e~~~~l  710 (846)
T KOG2066|consen  705 EFIKAL  710 (846)
T ss_pred             HHHHHH
Confidence            444433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.76  E-value=4.3  Score=37.89  Aligned_cols=160  Identities=16%  Similarity=0.153  Sum_probs=76.1

Q ss_pred             HHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCH
Q 006246          105 LRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCV  184 (654)
Q Consensus       105 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~  184 (654)
                      ..+|-...++++|...+.+..+ +.+-|...|.. .++      .+.|..+..++.+.  +--+..++.-..+|..+|..
T Consensus        38 AvafRnAk~feKakdcLlkA~~-~yEnnrslfhA-AKa------yEqaamLake~~kl--sEvvdl~eKAs~lY~E~Gsp  107 (308)
T KOG1585|consen   38 AVAFRNAKKFEKAKDCLLKASK-GYENNRSLFHA-AKA------YEQAAMLAKELSKL--SEVVDLYEKASELYVECGSP  107 (308)
T ss_pred             HHHHHhhccHHHHHHHHHHHHH-HHHhcccHHHH-HHH------HHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHhCCc
Confidence            3455556667777666655542 11222222221 122      23333344444332  11223455666778888887


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC------C---CcchHHHHHHHHHhcCCHHHHHHHHHh
Q 006246          185 NKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD------K---NTGSYNAMISGFARFGRFEEARKLFNE  255 (654)
Q Consensus       185 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~------~---~~~~~~~li~~~~~~g~~~~A~~~~~~  255 (654)
                      +.|-..+++.-.            ..++-++++|+.+|++...      +   -...+...-+.+.+..++++|-..|.+
T Consensus       108 dtAAmaleKAak------------~lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lK  175 (308)
T KOG1585|consen  108 DTAAMALEKAAK------------ALENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLK  175 (308)
T ss_pred             chHHHHHHHHHH------------HhhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHH
Confidence            777666554311            1445566677776655431      1   112244445555666666665555544


Q ss_pred             cCCC--------CH-hHHHHHHHHHHhcCChHHHHHHHHH
Q 006246          256 MNDK--------DE-ITWSAIIDGYTKDGYYKEALEVFNE  286 (654)
Q Consensus       256 ~~~~--------~~-~~~~~li~~~~~~g~~~~A~~~~~~  286 (654)
                      -..-        +. ..|-..|-.|....++..|...++.
T Consensus       176 e~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~  215 (308)
T KOG1585|consen  176 EGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRD  215 (308)
T ss_pred             hhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcc
Confidence            3221        00 1233334444444555555555554

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=90.75  E-value=31  Score=38.28  Aligned_cols=69  Identities=16%  Similarity=0.215  Sum_probs=42.5

Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCc-------HHHHHHHHHHHHhCCCCChh
Q 006246           99 FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEAD-------KEGVQVHAHVVKNGLCGDVH  169 (654)
Q Consensus        99 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~-------~~a~~~~~~~~~~g~~~~~~  169 (654)
                      ..| ++|-.+.|.|++++|.++..+.... .......|...++.+....+-       +....-+++.++.....|++
T Consensus       113 p~W-a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~Dpy  188 (613)
T PF04097_consen  113 PIW-ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPY  188 (613)
T ss_dssp             EHH-HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HH
T ss_pred             ccH-HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChH
Confidence            344 5677888999999999999666543 456667888889988765332       34444555555443322443

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=90.25  E-value=8.5  Score=34.12  Aligned_cols=35  Identities=3%  Similarity=-0.149  Sum_probs=23.3

Q ss_pred             HHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHH
Q 006246          119 SLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGV  153 (654)
Q Consensus       119 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~  153 (654)
                      +.++.+.+.+++|+...+..++..+.+.|....-.
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~   49 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH   49 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            44555556677777777777777777777655433

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.19  E-value=8.5  Score=38.01  Aligned_cols=64  Identities=13%  Similarity=0.206  Sum_probs=38.9

Q ss_pred             hhHHHHHHHHHhhcCCCCCHH--HHHHHHHHHHccCC--HHHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 006246          378 ADDAIELFFKMQREKMRPDRI--TFACVLSACAHAGM--IDRGLQALTYMQQMYGIDPEVEHYGCIVDL  442 (654)
Q Consensus       378 ~~~A~~l~~~m~~~g~~p~~~--t~~~ll~~~~~~g~--~~~a~~~~~~~~~~~g~~p~~~~~~~li~~  442 (654)
                      .+.+..+|+.+.+.|+..+..  ....++..+.....  +.++.++++.+.+. |+++...+|..+.-+
T Consensus       159 ~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~-~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  159 AERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHHHHH
Confidence            356667777777777665433  33333333322222  44677888888874 888888887766543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.14  E-value=24  Score=40.84  Aligned_cols=117  Identities=17%  Similarity=0.124  Sum_probs=77.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM  412 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  412 (654)
                      .|.-.++.--+.|.+.+|+.++..=.++--..|.+-..-+...+.+++|.-.|+..-+         ..--+.+|-..|+
T Consensus       910 ~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~d  980 (1265)
T KOG1920|consen  910 YFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGD  980 (1265)
T ss_pred             ccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhcc
Confidence            3344455555666777777666544433444555555666667788888877765533         1235678888999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCC
Q 006246          413 IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMP  460 (654)
Q Consensus       413 ~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  460 (654)
                      |.+|..+..++..  +-.--..+-..|+.-+..+|+.-||-++..+..
T Consensus       981 Wr~~l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen  981 WREALSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHHHHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHh
Confidence            9999988887754  222222334678888889999999999888774

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.10  E-value=5.3  Score=39.06  Aligned_cols=111  Identities=10%  Similarity=0.012  Sum_probs=66.0

Q ss_pred             hCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHH----HHHHhcCCHH
Q 006246          110 EHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGI----QMYACFGCVN  185 (654)
Q Consensus       110 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li----~~y~~~g~~~  185 (654)
                      .+|+..+|-..++++++. .+.|-..+...=.+|...|+...-+..++.++-. ..+|...|.-+=    -++..+|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            456777777777777764 4556666777777777788877777777776643 134443333322    2334666677


Q ss_pred             HHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHH
Q 006246          186 KARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELF  222 (654)
Q Consensus       186 ~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~  222 (654)
                      +|.+.-++.   .+-|..+-.++...+--+|+..++.++.
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM  232 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFM  232 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHH
Confidence            776666664   2334444445555555556666655553

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=90.01  E-value=2.8  Score=34.92  Aligned_cols=88  Identities=14%  Similarity=0.038  Sum_probs=41.8

Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHHhCC
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM----PMEP--NAAVWEALLGACRKHGE  480 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p--~~~~~~~ll~~~~~~g~  480 (654)
                      .+..|+++.|++.|.+...-  .+.....||.-..++--+|+.++|++=+++.    +-+.  --..|-.-...|+..|+
T Consensus        53 laE~g~Ld~AlE~F~qal~l--~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCL--APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHhccchHHHHHHHHHHHHh--cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            34445555555555555431  2223444555555555555555555544443    1010  01122223344566666


Q ss_pred             hHHHHHHHHHHHhcCC
Q 006246          481 VEFGERLGKILLEMEP  496 (654)
Q Consensus       481 ~~~a~~~~~~~~~~~p  496 (654)
                      .+.|..-|+.+-++..
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            6666666666555443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=89.90  E-value=7  Score=35.31  Aligned_cols=94  Identities=10%  Similarity=0.084  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH--HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC------cch
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI--TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE------VEH  435 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~--t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~------~~~  435 (654)
                      .+..+..-|.+.|+.++|++.|.++.+....|...  .+..++..+...+++..+.....++........|      ...
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            34445555555555555555555555543333322  3344455555555555555555554432111111      111


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          436 YGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      |..|  .+...|++.+|.+.|-..
T Consensus       118 ~~gL--~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  118 YEGL--ANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHH--HHHHhchHHHHHHHHHcc
Confidence            2222  223466777777766655

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=89.53  E-value=2.3  Score=35.45  Aligned_cols=58  Identities=22%  Similarity=0.149  Sum_probs=49.6

Q ss_pred             HHHHHcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          441 DLLGRAGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       441 ~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      -+++..|++++|++.|.+. .+ +.++..||.-..+++-+|+.++|..-+++++++..+.
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~  110 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ  110 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc
Confidence            3678899999999999876 33 3478899999999999999999999999999975443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=88.92  E-value=0.87  Score=28.50  Aligned_cols=26  Identities=19%  Similarity=0.175  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHh
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQ  389 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~  389 (654)
                      +|+.|...|.+.|++++|+++|++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35666667777777777777776643

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.60  E-value=22  Score=33.47  Aligned_cols=138  Identities=12%  Similarity=0.075  Sum_probs=64.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh--CCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCC-----CchhHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQR--DKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSIC-----VDAVLGT  335 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~--~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~  335 (654)
                      .|+--...|.++|.++.|-..+++.-+  .++.|                  +.|.++|++....-..     --...+.
T Consensus        93 l~eKAs~lY~E~GspdtAAmaleKAak~lenv~P------------------d~AlqlYqralavve~~dr~~ma~el~g  154 (308)
T KOG1585|consen   93 LYEKASELYVECGSPDTAAMALEKAAKALENVKP------------------DDALQLYQRALAVVEEDDRDQMAFELYG  154 (308)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCH------------------HHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            344555666677766666655555432  12333                  3444444433221000     0112233


Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCC--------CCH-HHHHHHHHHHHHcCChhHHHHHHHHHhhcC---CCCCHHHHHHH
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKM--------KEV-FTWNAMIGGLAMHGRADDAIELFFKMQREK---MRPDRITFACV  403 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~--------~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~g---~~p~~~t~~~l  403 (654)
                      .+...|.+..++++|-..|.+-..        ++. ..|-+.|-.|....++..|...++.--+.+   -.-+..+...|
T Consensus       155 k~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenL  234 (308)
T KOG1585|consen  155 KCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENL  234 (308)
T ss_pred             HhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHH
Confidence            344455555666666555543321        011 123344445555567777777776643321   11244566666


Q ss_pred             HHHHHccCCHHHHHHH
Q 006246          404 LSACAHAGMIDRGLQA  419 (654)
Q Consensus       404 l~~~~~~g~~~~a~~~  419 (654)
                      |.+| ..|+.++...+
T Consensus       235 L~ay-d~gD~E~~~kv  249 (308)
T KOG1585|consen  235 LTAY-DEGDIEEIKKV  249 (308)
T ss_pred             HHHh-ccCCHHHHHHH
Confidence            6665 34555554433

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=88.48  E-value=15  Score=33.77  Aligned_cols=81  Identities=11%  Similarity=0.080  Sum_probs=50.6

Q ss_pred             CCChHHHHHHHhcCC--CCC-cchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHH--HhccCCcHHHHH
Q 006246           80 FSNFELALKVFNSVH--KPN-VFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKA--CSITEADKEGVQ  154 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~--~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~--~~~~~~~~~a~~  154 (654)
                      .|-+..|+-=|.+..  .|+ +..||-|.--+...|+++.|.+.|+...+....   .-|..+=++  +--.|+++.|.+
T Consensus        78 lGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~---y~Ya~lNRgi~~YY~gR~~LAq~  154 (297)
T COG4785          78 LGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPT---YNYAHLNRGIALYYGGRYKLAQD  154 (297)
T ss_pred             hhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCc---chHHHhccceeeeecCchHhhHH
Confidence            444555555554433  344 346888888888999999999999998875422   223333222  335677888877


Q ss_pred             HHHHHHHhC
Q 006246          155 VHAHVVKNG  163 (654)
Q Consensus       155 ~~~~~~~~g  163 (654)
                      -+...-+.+
T Consensus       155 d~~~fYQ~D  163 (297)
T COG4785         155 DLLAFYQDD  163 (297)
T ss_pred             HHHHHHhcC
Confidence            666665543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=88.37  E-value=3.4  Score=39.99  Aligned_cols=76  Identities=17%  Similarity=0.220  Sum_probs=59.4

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhh-----cCCCCCHHHHHH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQR-----EKMRPDRITFAC  402 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-----~g~~p~~~t~~~  402 (654)
                      ..++..++..+..+|+.+.+...+++....   +...|..++.+|.+.|+...|+..|+++.+     .|+.|-..+...
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            346677888888899999888888887753   667899999999999999999998888765     577777766655


Q ss_pred             HHHH
Q 006246          403 VLSA  406 (654)
Q Consensus       403 ll~~  406 (654)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5544

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.13  E-value=7.2  Score=34.42  Aligned_cols=19  Identities=21%  Similarity=0.403  Sum_probs=8.9

Q ss_pred             HHhcCChHHHHHHHHHHHh
Q 006246          271 YTKDGYYKEALEVFNEMQR  289 (654)
Q Consensus       271 ~~~~g~~~~A~~~~~~m~~  289 (654)
                      ..+.|+...|+..|++.-.
T Consensus       104 ~a~kgdta~AV~aFdeia~  122 (221)
T COG4649         104 LAQKGDTAAAVAAFDEIAA  122 (221)
T ss_pred             HhhcccHHHHHHHHHHHhc
Confidence            3344445555555544443

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.07  E-value=20  Score=32.47  Aligned_cols=115  Identities=13%  Similarity=0.033  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhhcCCCCCHHHH--HHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHH-----HHHHHHHcCCHHHH
Q 006246          380 DAIELFFKMQREKMRPDRITF--ACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGC-----IVDLLGRAGYLAEA  452 (654)
Q Consensus       380 ~A~~l~~~m~~~g~~p~~~t~--~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~-----li~~~~~~g~~~~A  452 (654)
                      +.....+++....-+....++  ..+...+...+++++|...++....    .|..+.+..     |.......|.+|+|
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~----~t~De~lk~l~~lRLArvq~q~~k~D~A  145 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALA----QTKDENLKALAALRLARVQLQQKKADAA  145 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc----cchhHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            555555666554212112222  2334567788999999999887764    233334443     44567789999999


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          453 EEVISSMPMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       453 ~~~~~~m~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      +..++....+. ....-..-++.+...|+.++|+..|+++++.++++
T Consensus       146 L~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s~  192 (207)
T COG2976         146 LKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDASP  192 (207)
T ss_pred             HHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCCh
Confidence            99999864221 23334556678999999999999999999987654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.95  E-value=1.5  Score=42.66  Aligned_cols=95  Identities=14%  Similarity=0.065  Sum_probs=55.0

Q ss_pred             HHHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcC
Q 006246          369 IGGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAG  447 (654)
Q Consensus       369 i~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  447 (654)
                      ..-|.++|++++|+..|.+.+..  .| |.+++..-..+|.+...+..|..-......         .-...+.+|.|.|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia---------Ld~~Y~KAYSRR~  172 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA---------LDKLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH---------hhHHHHHHHHHHH
Confidence            34577777777777777766653  45 677777767777666655544433333322         0112334444433


Q ss_pred             CHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          448 YLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       448 ~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                                               .+-...|+.++|.+-++.+++++|++.
T Consensus       173 -------------------------~AR~~Lg~~~EAKkD~E~vL~LEP~~~  199 (536)
T KOG4648|consen  173 -------------------------QARESLGNNMEAKKDCETVLALEPKNI  199 (536)
T ss_pred             -------------------------HHHHHHhhHHHHHHhHHHHHhhCcccH
Confidence                                     233344566677777777777777764

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=87.93  E-value=1.2  Score=29.32  Aligned_cols=37  Identities=24%  Similarity=0.506  Sum_probs=20.3

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHH
Q 006246          435 HYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEAL  471 (654)
Q Consensus       435 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~l  471 (654)
                      .+..+...|.+.|++++|++++++. ...| |...|..|
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHh
Confidence            3455566666666666666666665 2233 34455443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.74  E-value=7.9  Score=40.99  Aligned_cols=151  Identities=18%  Similarity=0.125  Sum_probs=92.8

Q ss_pred             HhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCC
Q 006246          179 ACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMND  258 (654)
Q Consensus       179 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  258 (654)
                      .-.|+++.|..++..+++   ..-+.++.-+-+.|..++|+.+-     +|..   .-.....+.|+++.|.++..+.  
T Consensus       597 vmrrd~~~a~~vLp~I~k---~~rt~va~Fle~~g~~e~AL~~s-----~D~d---~rFelal~lgrl~iA~~la~e~--  663 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPK---EIRTKVAHFLESQGMKEQALELS-----TDPD---QRFELALKLGRLDIAFDLAVEA--  663 (794)
T ss_pred             hhhccccccccccccCch---hhhhhHHhHhhhccchHhhhhcC-----CChh---hhhhhhhhcCcHHHHHHHHHhh--
Confidence            345666666666655552   33455666667777777777652     1211   1122345667888877765443  


Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHH
Q 006246          259 KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALV  338 (654)
Q Consensus       259 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  338 (654)
                      .+..-|..|..+..+.|++..|.+.|.....         |..|+-.+...|+-+....+-....+.|..      |.-.
T Consensus       664 ~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g~~------N~AF  728 (794)
T KOG0276|consen  664 NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQGKN------NLAF  728 (794)
T ss_pred             cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhccc------chHH
Confidence            3456788888888888888888888876654         445666677777766555555555555521      2233


Q ss_pred             HHHHHcCCHHHHHHHHhhc
Q 006246          339 DMYAKCGRLDMAWKVFEDM  357 (654)
Q Consensus       339 ~~y~~~g~~~~A~~~~~~m  357 (654)
                      .+|...|+++++.+++.+-
T Consensus       729 ~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  729 LAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHcCCHHHHHHHHHhc
Confidence            4456677777777766544

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=87.47  E-value=7.9  Score=30.61  Aligned_cols=61  Identities=20%  Similarity=0.260  Sum_probs=44.0

Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHH
Q 006246          237 ISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLS  300 (654)
Q Consensus       237 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  300 (654)
                      +..+...|++++|..+.+.+.-||...|-++-.  .+.|..+++..-+.+|..+| .|....|.
T Consensus        46 lsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg-~p~lq~Fa  106 (115)
T TIGR02508        46 LSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAASG-DPRLQTFV  106 (115)
T ss_pred             HHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            345677788888888888888888888877654  46677777777777777776 45444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=86.99  E-value=24  Score=34.93  Aligned_cols=126  Identities=12%  Similarity=0.216  Sum_probs=75.8

Q ss_pred             hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh--cC----ChhHHHHHHHHHHHcCC---CCchhHHHHHHHHHHHcCC-
Q 006246          277 YKEALEVFNEMQRDKIKPRKFVLSCVLAACAS--LG----ALDQGIWIHDHVKRNSI---CVDAVLGTALVDMYAKCGR-  346 (654)
Q Consensus       277 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~--~g----~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~y~~~g~-  346 (654)
                      +++.+.+++.|.+.|++-+..+|.+.......  ..    ....+..+|+.|.+...   .++-..+..|+.+  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            34566778888999998888777664444333  22    35678889999988642   2334444444433  2333 


Q ss_pred             ---HHHHHHHHhhcCC-----CCHHHHHHHHHHHHHcC-C--hhHHHHHHHHHhhcCCCCCHHHHHHHH
Q 006246          347 ---LDMAWKVFEDMKM-----KEVFTWNAMIGGLAMHG-R--ADDAIELFFKMQREKMRPDRITFACVL  404 (654)
Q Consensus       347 ---~~~A~~~~~~m~~-----~~~~~~~~li~~~~~~g-~--~~~A~~l~~~m~~~g~~p~~~t~~~ll  404 (654)
                         .+.++.+|+.+..     .|..-+-+-+-++.... .  ...+.++++.+.+.|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence               3455666665554     23333333333333221 2  457889999999999998877765443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=86.94  E-value=21  Score=31.37  Aligned_cols=104  Identities=19%  Similarity=0.111  Sum_probs=68.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHHcCCCCCcc-hHHHHHHHHHHcCCHHHHHHHHHhCC-CCCCHHHHHHHHHHHHHhCCh
Q 006246          404 LSACAHAGMIDRGLQALTYMQQMYGIDPEVE-HYGCIVDLLGRAGYLAEAEEVISSMP-MEPNAAVWEALLGACRKHGEV  481 (654)
Q Consensus       404 l~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~ll~~~~~~g~~  481 (654)
                      ++.-.+.++.+++..++..+.-   +.|... .-..-...+.+.|++.+|+.+|+++. ..|....-.+|+..|.....-
T Consensus        17 ~~~al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            3344566788888888888764   355533 22333456778899999999998883 334555566777777777666


Q ss_pred             HHHHHHHHHHHhcCCCCCCchHHHHHHHHHHhc
Q 006246          482 EFGERLGKILLEMEPQNRRCDDVAKMRKLMKER  514 (654)
Q Consensus       482 ~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~~~  514 (654)
                      ..=....+.+++..|+    +++..+.+.+..+
T Consensus        94 ~~Wr~~A~evle~~~d----~~a~~Lv~~Ll~~  122 (160)
T PF09613_consen   94 PSWRRYADEVLESGAD----PDARALVRALLAR  122 (160)
T ss_pred             hHHHHHHHHHHhcCCC----hHHHHHHHHHHHh
Confidence            6667777888887766    3566655555544

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=86.81  E-value=44  Score=34.98  Aligned_cols=102  Identities=11%  Similarity=0.150  Sum_probs=75.7

Q ss_pred             CCCCHHHH-HHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHH---HHcCCHHHHHHHHHhC--CCCCCHH
Q 006246          393 MRPDRITF-ACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLL---GRAGYLAEAEEVISSM--PMEPNAA  466 (654)
Q Consensus       393 ~~p~~~t~-~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~---~~~g~~~~A~~~~~~m--~~~p~~~  466 (654)
                      ..|+..|+ +.++.-+.+.|-..+|...+..+..  --+|+...|..+|..=   ..+| +..+.++++.|  .+-.|+.
T Consensus       455 ~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~--lpp~sl~l~r~miq~e~~~~sc~-l~~~r~~yd~a~~~fg~d~~  531 (568)
T KOG2396|consen  455 IGADSVTLKSKYLDWAYESGGYKKARKVYKSLQE--LPPFSLDLFRKMIQFEKEQESCN-LANIREYYDRALREFGADSD  531 (568)
T ss_pred             cCCceeehhHHHHHHHHHhcchHHHHHHHHHHHh--CCCccHHHHHHHHHHHhhHhhcC-chHHHHHHHHHHHHhCCChH
Confidence            46676665 4566677788889999999999887  3456777788887653   3344 77788888887  2336888


Q ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHh-cCCC
Q 006246          467 VWEALLGACRKHGEVEFGERLGKILLE-MEPQ  497 (654)
Q Consensus       467 ~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~p~  497 (654)
                      .|...+.--..+|..+-+-.++.++.+ ++|.
T Consensus       532 lw~~y~~~e~~~g~~en~~~~~~ra~ktl~~~  563 (568)
T KOG2396|consen  532 LWMDYMKEELPLGRPENCGQIYWRAMKTLQGE  563 (568)
T ss_pred             HHHHHHHhhccCCCcccccHHHHHHHHhhChh
Confidence            998888888899999888888887766 4443

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=86.61  E-value=33  Score=33.36  Aligned_cols=116  Identities=10%  Similarity=0.097  Sum_probs=67.1

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH----HHHHHHHHHHHHcCChhHH
Q 006246          306 CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV----FTWNAMIGGLAMHGRADDA  381 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~----~~~~~li~~~~~~g~~~~A  381 (654)
                      ....|++.++...++.+...... +..+--.+...|...|+.+.|..++..++....    .....-|..+.+.....+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            34566677777777766665422 244455678888888999999998888875311    1112223334444444444


Q ss_pred             HHHHHHHhhcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          382 IELFFKMQREKMRP-DRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       382 ~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ..+-++.-.   .| |...-..+...+...|+.+.|.+.+-.+.+
T Consensus       223 ~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~  264 (304)
T COG3118         223 QDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLR  264 (304)
T ss_pred             HHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444333333   34 444555566667777777777766555444

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.58  E-value=57  Score=36.10  Aligned_cols=169  Identities=14%  Similarity=0.166  Sum_probs=94.2

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCC--C---ChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHH
Q 006246          174 GIQMYACFGCVNKARQILDDGSK--S---DVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEE  248 (654)
Q Consensus       174 li~~y~~~g~~~~A~~~~~~~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~  248 (654)
                      -++.+.+.+.+++|..+.+....  +   -...+...|..+.-.|++++|-...-.|...+..-|.--+.-+...++..+
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~  441 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTD  441 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccch
Confidence            35556677778888877766421  1   234577778888888888888888888877777777777777766666554


Q ss_pred             HHHHHHhcCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 006246          249 ARKLFNEMND-KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSI  327 (654)
Q Consensus       249 A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  327 (654)
                      ...+.-.-+. -+...|..++..|.. .+.    .-|.+..+. -+++...-..++++            +..+..+.. 
T Consensus       442 Ia~~lPt~~~rL~p~vYemvLve~L~-~~~----~~F~e~i~~-Wp~~Lys~l~iisa------------~~~q~~q~S-  502 (846)
T KOG2066|consen  442 IAPYLPTGPPRLKPLVYEMVLVEFLA-SDV----KGFLELIKE-WPGHLYSVLTIISA------------TEPQIKQNS-  502 (846)
T ss_pred             hhccCCCCCcccCchHHHHHHHHHHH-HHH----HHHHHHHHh-CChhhhhhhHHHhh------------cchHHHhhc-
Confidence            4333222222 144567776666665 222    222222221 11111111111111            111111111 


Q ss_pred             CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH
Q 006246          328 CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV  362 (654)
Q Consensus       328 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~  362 (654)
                       -+..+...|+..|...+++++|...+-....+++
T Consensus       503 -e~~~L~e~La~LYl~d~~Y~~Al~~ylklk~~~v  536 (846)
T KOG2066|consen  503 -ESTALLEVLAHLYLYDNKYEKALPIYLKLQDKDV  536 (846)
T ss_pred             -cchhHHHHHHHHHHHccChHHHHHHHHhccChHH
Confidence             1122334488888888899999888887776544

>smart00028 TPR Tetratricopeptide repeats

Probab=86.33  E-value=1.4  Score=25.77  Aligned_cols=32  Identities=22%  Similarity=0.187  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          466 AVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       466 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                      .+|..+...+...|+++.|...+++.+++.|+
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~   33 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALELDPN   33 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            35667788888889999999999988888775

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.13  E-value=1.5  Score=26.33  Aligned_cols=30  Identities=17%  Similarity=0.114  Sum_probs=25.1

Q ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          469 EALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       469 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      -.+..++.+.|+.++|.+.++++++..|++
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            356677888999999999999999988874

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=85.85  E-value=0.26  Score=42.90  Aligned_cols=46  Identities=15%  Similarity=0.133  Sum_probs=18.0

Q ss_pred             HHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHH
Q 006246          106 RACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKE  151 (654)
Q Consensus       106 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~  151 (654)
                      ..+.+.+.+.....+++.+...+...+....+.++..+++.++.+.
T Consensus        15 ~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~   60 (143)
T PF00637_consen   15 SAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEK   60 (143)
T ss_dssp             HHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCH
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchH
Confidence            3333444444444444444433322233334444444444433333

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.62  E-value=1.9  Score=27.68  Aligned_cols=28  Identities=29%  Similarity=0.239  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          466 AVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       466 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      .+++.|...|...|++++|+.+++++++
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4667777778888888888888777766

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.47  E-value=26  Score=31.11  Aligned_cols=119  Identities=16%  Similarity=0.137  Sum_probs=82.0

Q ss_pred             HHHcCChhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHH-----HHHHHH
Q 006246          372 LAMHGRADDAIELFFKMQREKMRPDRI-TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCI-----VDLLGR  445 (654)
Q Consensus       372 ~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~l-----i~~~~~  445 (654)
                      +++.++.++|+.-|..+.+.|...-.+ .-.-......+.|+...|...|.++-.+   .|.+....-+     ..++..
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d---t~~P~~~rd~ARlraa~lLvD  144 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD---TSIPQIGRDLARLRAAYLLVD  144 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc---CCCcchhhHHHHHHHHHHHhc
Confidence            466778888999998888876543222 2222334456788899999999988765   2322332222     234567


Q ss_pred             cCCHHHHHHHHHhCCCC--C-CHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          446 AGYLAEAEEVISSMPME--P-NAAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       446 ~g~~~~A~~~~~~m~~~--p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      .|.+++...-++-+..+  | ....-.+|.-+-.+.|++..|.+.|+++.+
T Consensus       145 ~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         145 NGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             cccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            88999888888877322  2 345567888888999999999999998876

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.63  E-value=16  Score=35.98  Aligned_cols=153  Identities=11%  Similarity=0.042  Sum_probs=100.1

Q ss_pred             HcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHH----HHHHHHHccCCHHH
Q 006246          343 KCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFA----CVLSACAHAGMIDR  415 (654)
Q Consensus       343 ~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~----~ll~~~~~~g~~~~  415 (654)
                      ..|+.-+|-..++++.+   .|..+|+--=.++...|+...-...++++... ..||...|.    .+..++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            35777777777877775   38888888888999999988888888888764 234443322    23334557888999


Q ss_pred             HHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCCCC-------HHHHHHHHHHHHHhCChHHHHHHH
Q 006246          416 GLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPN-------AAVWEALLGACRKHGEVEFGERLG  488 (654)
Q Consensus       416 a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~-------~~~~~~ll~~~~~~g~~~~a~~~~  488 (654)
                      |.+.-++..+.  -+.|.-.-.++...+--.|++.|+.++..+-...=+       .--|...+ .+...+.++.|+.+|
T Consensus       194 AEk~A~ralqi--N~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al-~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  194 AEKQADRALQI--NRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTAL-FHIEGAEYEKALEIY  270 (491)
T ss_pred             HHHHHHhhccC--CCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHH-hhhcccchhHHHHHH
Confidence            88887776542  123344445667778889999999999887641111       11122222 234558899999998


Q ss_pred             HHHHh--cCCCCC
Q 006246          489 KILLE--MEPQNR  499 (654)
Q Consensus       489 ~~~~~--~~p~~~  499 (654)
                      ++=+-  ++.++.
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            76443  444443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.23  E-value=2.3  Score=25.94  Aligned_cols=28  Identities=11%  Similarity=0.190  Sum_probs=18.6

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhc
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQRE  391 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~  391 (654)
                      +|..+...|...|++++|+..|++.++.
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            5666677777777777777777776653

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=84.20  E-value=8.8  Score=37.22  Aligned_cols=76  Identities=21%  Similarity=0.259  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH----HcCCCCCcchHHH
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ----MYGIDPEVEHYGC  438 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~----~~g~~p~~~~~~~  438 (654)
                      .++..++..+...|+.+.+.+.+++..... +-|...|..++.+|.+.|+...|++.++.+.+    ..|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            456677788888888888888888888764 33777888888888888888888888887765    2355565554443


Q ss_pred             H
Q 006246          439 I  439 (654)
Q Consensus       439 l  439 (654)
                      .
T Consensus       233 y  233 (280)
T COG3629         233 Y  233 (280)
T ss_pred             H
Confidence            3

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=84.05  E-value=28  Score=30.59  Aligned_cols=107  Identities=20%  Similarity=0.108  Sum_probs=53.2

Q ss_pred             HhcCCHHHHHHHHHhcC--CCCH-hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHH
Q 006246          241 ARFGRFEEARKLFNEMN--DKDE-ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIW  317 (654)
Q Consensus       241 ~~~g~~~~A~~~~~~~~--~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  317 (654)
                      .+.++.+++..+++.+.  .|.. ..-..-...+.+.|+|.+|+.+|+++....  |....-..++..|.....-..=..
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D~~Wr~   98 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGDPSWRR   98 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCChHHHH
Confidence            45567777777777664  3322 111222334677888888888888876543  333333344444433332222222


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHH
Q 006246          318 IHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWK  352 (654)
Q Consensus       318 ~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~  352 (654)
                      .-.++.+.+-.|+.   ..|+..+....+...|..
T Consensus        99 ~A~evle~~~d~~a---~~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   99 YADEVLESGADPDA---RALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHHhcCCChHH---HHHHHHHHHhccccchhh
Confidence            23334444433332   235555555444444433

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.74  E-value=20  Score=28.45  Aligned_cols=86  Identities=12%  Similarity=0.109  Sum_probs=57.5

Q ss_pred             hhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhc
Q 006246          312 LDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQRE  391 (654)
Q Consensus       312 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  391 (654)
                      .++|..|-+.+...+-. ...+--.-+..+...|++++|..+.+.+..||+..|-+|-.  .+.|..+++..-+.+|..+
T Consensus        21 HqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        21 HQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            45566666655554422 22232233445677899999999999998899999987754  4667777777777788777


Q ss_pred             CCCCCHHHHH
Q 006246          392 KMRPDRITFA  401 (654)
Q Consensus       392 g~~p~~~t~~  401 (654)
                      | .|...+|.
T Consensus        98 g-~p~lq~Fa  106 (115)
T TIGR02508        98 G-DPRLQTFV  106 (115)
T ss_pred             C-CHHHHHHH
Confidence            6 55555554

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=83.18  E-value=79  Score=34.86  Aligned_cols=123  Identities=20%  Similarity=0.141  Sum_probs=70.3

Q ss_pred             HHHHcCChhHHHHHHHHHhhcCCCCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCC
Q 006246          371 GLAMHGRADDAIELFFKMQREKMRPDR--ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGY  448 (654)
Q Consensus       371 ~~~~~g~~~~A~~l~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  448 (654)
                      ++..-|+-++|..+.++|.... .|-.  .-...+..+|+-.|+.....+++.-...  ...-|+.-+..+.-++.-..+
T Consensus       510 aL~~ygrqe~Ad~lI~el~~dk-dpilR~~Gm~t~alAy~GTgnnkair~lLh~aVs--D~nDDVrRaAVialGFVl~~d  586 (929)
T KOG2062|consen  510 ALVVYGRQEDADPLIKELLRDK-DPILRYGGMYTLALAYVGTGNNKAIRRLLHVAVS--DVNDDVRRAAVIALGFVLFRD  586 (929)
T ss_pred             HHHHhhhhhhhHHHHHHHhcCC-chhhhhhhHHHHHHHHhccCchhhHHHhhccccc--ccchHHHHHHHHHheeeEecC
Confidence            4455667778888888887643 2211  1233455677778877777777666554  334445555555555555666


Q ss_pred             HHHHHHHHHhCC--CCCCH--HHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          449 LAEAEEVISSMP--MEPNA--AVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       449 ~~~A~~~~~~m~--~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      .+....+++-+.  ..|.+  -+--+|.-+|...|+ .+|+.+++-+.+ +|.+
T Consensus       587 p~~~~s~V~lLses~N~HVRyGaA~ALGIaCAGtG~-~eAi~lLepl~~-D~~~  638 (929)
T KOG2062|consen  587 PEQLPSTVSLLSESYNPHVRYGAAMALGIACAGTGL-KEAINLLEPLTS-DPVD  638 (929)
T ss_pred             hhhchHHHHHHhhhcChhhhhhHHHHHhhhhcCCCc-HHHHHHHhhhhc-ChHH
Confidence            666666555552  12221  122345566777774 467777777665 5543

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=82.37  E-value=64  Score=33.23  Aligned_cols=71  Identities=14%  Similarity=0.224  Sum_probs=53.7

Q ss_pred             HHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc
Q 006246          335 TALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAH  409 (654)
Q Consensus       335 ~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  409 (654)
                      ..|+.-|.-.|.+.+|.....++.-|   ..+.+.+++.+.-+.|+-+..+.++++.-..|+    +|-+.+-.+|.+
T Consensus       513 ~~LLeEY~~~GdisEA~~CikeLgmPfFhHEvVkkAlVm~mEkk~d~t~~ldLLk~cf~sgl----IT~nQMtkGf~R  586 (645)
T KOG0403|consen  513 DMLLEEYELSGDISEACHCIKELGMPFFHHEVVKKALVMVMEKKGDSTMILDLLKECFKSGL----ITTNQMTKGFER  586 (645)
T ss_pred             HHHHHHHHhccchHHHHHHHHHhCCCcchHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCc----eeHHHhhhhhhh
Confidence            45788899999999999999988776   567888999988888887777777777766553    445555555543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=82.29  E-value=60  Score=32.88  Aligned_cols=136  Identities=11%  Similarity=-0.016  Sum_probs=73.7

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC---CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC--cch
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP---DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE--VEH  435 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~--~~~  435 (654)
                      ...+|..++..+.+.|+++.|...+.++...+..+   +......-+...-..|+.++|+..++...+. .+..+  ...
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~~  223 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSIS  223 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhcccccc
Confidence            45678888888999999999999888887744221   2233344455566778888888888877762 11111  111


Q ss_pred             HHHHHHHHHHcCCHHHHHHH-HHhCCCCCCHHHHHHHHHHHHHh------CChHHHHHHHHHHHhcCCCCC
Q 006246          436 YGCIVDLLGRAGYLAEAEEV-ISSMPMEPNAAVWEALLGACRKH------GEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~-~~~m~~~p~~~~~~~ll~~~~~~------g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ...+...+..  ..+..... ......+.-..++..+..-+...      ++.+.+...|+.+.++.|+..
T Consensus       224 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  292 (352)
T PF02259_consen  224 NAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWE  292 (352)
T ss_pred             HHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHH
Confidence            1111111100  00000000 00000000123333444444444      788889999999999988754

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.96  E-value=93  Score=34.86  Aligned_cols=177  Identities=12%  Similarity=0.117  Sum_probs=100.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhcCCCCHh---HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 006246          232 SYNAMISGFARFGRFEEARKLFNEMNDKDEI---TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACAS  308 (654)
Q Consensus       232 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  308 (654)
                      ....-++.+.+...++.|..+-+.-..+...   ......+-+.+.|++++|...|-+-... +.|     ..++.-+..
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLd  409 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLD  409 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcC
Confidence            3455677777777788888776654432111   1223334566789999999888776543 233     233444445


Q ss_pred             cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH-HHHHHHHHHHHHcCChhHHHHHHHH
Q 006246          309 LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV-FTWNAMIGGLAMHGRADDAIELFFK  387 (654)
Q Consensus       309 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~-~~~~~li~~~~~~g~~~~A~~l~~~  387 (654)
                      ......-..+++.+.+.|+. +...-+.|+.+|.|.++.++-.++.+....-.. .-....+..+.+.+-.++|..+-.+
T Consensus       410 aq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k  488 (933)
T KOG2114|consen  410 AQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATK  488 (933)
T ss_pred             HHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHH
Confidence            55555566667777777764 334446788899998888888777766552111 1123344444555555555544433


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 006246          388 MQREKMRPDRITFACVLSACAHAGMIDRGLQALTYM  423 (654)
Q Consensus       388 m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  423 (654)
                      ...     +......+   +-..+++++|.+++..+
T Consensus       489 ~~~-----he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  489 FKK-----HEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             hcc-----CHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            321     22222222   23456666666666544

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=81.88  E-value=1.6e+02  Score=37.44  Aligned_cols=157  Identities=13%  Similarity=0.133  Sum_probs=97.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhc----CCC--CcchHHHHHHHHHhcCCHHHHHHHHH-hcCCCCHhHHHHHHHHHHhcCC
Q 006246          204 ALIDGYLKCGDIEGAKELFKST----KDK--NTGSYNAMISGFARFGRFEEARKLFN-EMNDKDEITWSAIIDGYTKDGY  276 (654)
Q Consensus       204 ~li~~~~~~g~~~~A~~~~~~m----~~~--~~~~~~~li~~~~~~g~~~~A~~~~~-~~~~~~~~~~~~li~~~~~~g~  276 (654)
                      ++..+=.+++.+..|+..+++-    .+.  ...-|..+...|+..+++|....+.. +..+++.   ..-|......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~sl---~~qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPSL---YQQILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCccH---HHHHHHHHhhcc
Confidence            4445667888999999999884    222  22234555558888888888777776 3444433   244556677899


Q ss_pred             hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHH-HHHHHHHHHcCCHHHHHHHHh
Q 006246          277 YKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLG-TALVDMYAKCGRLDMAWKVFE  355 (654)
Q Consensus       277 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~y~~~g~~~~A~~~~~  355 (654)
                      +..|...|+++.+.+ ++...+++.++..-...+.++...-..+...... .+....+ +.=+.+--+.++++.......
T Consensus      1465 ~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLESYLS 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhhhhh
Confidence            999999999998874 4446778878877777777776665444443322 2222222 222333456666666655544


Q ss_pred             hcCCCCHHHHHHH
Q 006246          356 DMKMKEVFTWNAM  368 (654)
Q Consensus       356 ~m~~~~~~~~~~l  368 (654)
                         ..+..+|.+.
T Consensus      1543 ---~~n~e~w~~~ 1552 (2382)
T KOG0890|consen 1543 ---DRNIEYWSVE 1552 (2382)
T ss_pred             ---cccccchhHH
Confidence               4455555544

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.82  E-value=14  Score=35.96  Aligned_cols=97  Identities=15%  Similarity=0.186  Sum_probs=68.2

Q ss_pred             CCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-C--------CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC
Q 006246          326 SICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-K--------EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD  396 (654)
Q Consensus       326 ~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-~--------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  396 (654)
                      |.+....+...++..-....+++++...+-++.. +        ..++|--++.    .=++++++.++..=++-|+-||
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll----ky~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL----KYDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH----ccChHHHHHHHhCcchhccccc
Confidence            3444444555566666666778888877766653 1        3344443333    3356788888888888899999


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHH
Q 006246          397 RITFACVLSACAHAGMIDRGLQALTYMQQM  426 (654)
Q Consensus       397 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  426 (654)
                      ..|++.++..+.+.+++.+|.++...|...
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            999999999999999998888887776653

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=81.60  E-value=11  Score=29.93  Aligned_cols=63  Identities=14%  Similarity=0.171  Sum_probs=46.1

Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 006246          378 ADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDL  442 (654)
Q Consensus       378 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~  442 (654)
                      .-+..+-+..+....+-|+.....+.+.+|.+.+++..|.++|+.++.+.|  +....|..+++-
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lqE   88 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQE   88 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHHH
Confidence            335566667777778899999999999999999999999999999988644  444478877653

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=81.44  E-value=1.2e+02  Score=35.66  Aligned_cols=256  Identities=16%  Similarity=0.067  Sum_probs=158.3

Q ss_pred             HHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcch
Q 006246          219 KELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFV  298 (654)
Q Consensus       219 ~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  298 (654)
                      ..+...+..+|+.+-..-+..+.+.+..+....+...+.++|...-...+.++.+.+........+..++..   +|...
T Consensus       624 ~~L~~~L~D~d~~VR~~Av~~L~~~~~~~~~~~L~~aL~D~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~---~d~~V  700 (897)
T PRK13800        624 AELAPYLADPDPGVRRTAVAVLTETTPPGFGPALVAALGDGAAAVRRAAAEGLRELVEVLPPAPALRDHLGS---PDPVV  700 (897)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHhhhcchhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhccCchHHHHHHhcC---CCHHH
Confidence            355555667888888888999988887665556666666677666556666665543322222334344433   45555


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCCh
Q 006246          299 LSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRA  378 (654)
Q Consensus       299 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~  378 (654)
                      -...+.++...+.-+ .. .+-...+   .+|..+-...+.++.+.+..+.   +......++...-...+.++...+..
T Consensus       701 R~~A~~aL~~~~~~~-~~-~l~~~L~---D~d~~VR~~Av~aL~~~~~~~~---l~~~l~D~~~~VR~~aa~aL~~~~~~  772 (897)
T PRK13800        701 RAAALDVLRALRAGD-AA-LFAAALG---DPDHRVRIEAVRALVSVDDVES---VAGAATDENREVRIAVAKGLATLGAG  772 (897)
T ss_pred             HHHHHHHHHhhccCC-HH-HHHHHhc---CCCHHHHHHHHHHHhcccCcHH---HHHHhcCCCHHHHHHHHHHHHHhccc
Confidence            556666666554222 12 2222222   5567777777777777655432   33344556766666777777777754


Q ss_pred             hH-HHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHH
Q 006246          379 DD-AIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVIS  457 (654)
Q Consensus       379 ~~-A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  457 (654)
                      +. +...+.++.+   .+|...-...+.++...|..+.+...+..+.+    .++...-..-+.++++.+. ++|...+.
T Consensus       773 ~~~~~~~L~~ll~---D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~----d~d~~VR~~Aa~aL~~l~~-~~a~~~L~  844 (897)
T PRK13800        773 GAPAGDAVRALTG---DPDPLVRAAALAALAELGCPPDDVAAATAALR----ASAWQVRQGAARALAGAAA-DVAVPALV  844 (897)
T ss_pred             cchhHHHHHHHhc---CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhc----CCChHHHHHHHHHHHhccc-cchHHHHH
Confidence            43 4555556654   45777777888888888876655444544444    3555566667778888776 45556555


Q ss_pred             hCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          458 SMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       458 ~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      .+-..|+..+-...+.++.+.+....+...+.++++
T Consensus       845 ~~L~D~~~~VR~~A~~aL~~~~~~~~a~~~L~~al~  880 (897)
T PRK13800        845 EALTDPHLDVRKAAVLALTRWPGDPAARDALTTALT  880 (897)
T ss_pred             HHhcCCCHHHHHHHHHHHhccCCCHHHHHHHHHHHh
Confidence            554467887777778888776445567777777665

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=80.81  E-value=98  Score=34.37  Aligned_cols=66  Identities=12%  Similarity=0.150  Sum_probs=36.5

Q ss_pred             hHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCC-------chHHHHHHHHhHhCCCCCCcc
Q 006246           66 YVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNE-------PWRVISLYSEMVGVDSKPNKF  134 (654)
Q Consensus        66 ~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~-------~~~A~~~~~~m~~~g~~p~~~  134 (654)
                      .+|. +|--+.|  ||.+++|.++.....   ++....+-..+..|..+.+       -++...-|++..+.....|++
T Consensus       113 p~Wa-~Iyy~LR--~G~~~~A~~~~~~~~~~~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~Dpy  188 (613)
T PF04097_consen  113 PIWA-LIYYCLR--CGDYDEALEVANENRNQFQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPY  188 (613)
T ss_dssp             EHHH-HHHHHHT--TT-HHHHHHHHHHTGGGS-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HH
T ss_pred             ccHH-HHHHHHh--cCCHHHHHHHHHHhhhhhcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChH
Confidence            3443 4444556  999999999993332   3444556677777766532       235555677666543333554

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=80.51  E-value=2.9  Score=25.73  Aligned_cols=24  Identities=21%  Similarity=0.198  Sum_probs=14.1

Q ss_pred             CCchhHHHHHHHHHHHcCCHHHHH
Q 006246          328 CVDAVLGTALVDMYAKCGRLDMAW  351 (654)
Q Consensus       328 ~~~~~~~~~li~~y~~~g~~~~A~  351 (654)
                      +.+...|+.|...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            335556666666666666666654

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=80.13  E-value=6  Score=35.25  Aligned_cols=37  Identities=11%  Similarity=0.234  Sum_probs=23.8

Q ss_pred             hHHHHHHHHHHHhcCCCCC-------CchHHHHHHHHHHhcCCc
Q 006246          481 VEFGERLGKILLEMEPQNR-------RCDDVAKMRKLMKERGIK  517 (654)
Q Consensus       481 ~~~a~~~~~~~~~~~p~~~-------~~~~a~~~~~~m~~~g~~  517 (654)
                      +++|...|+++.+.+|++.       .-+.|-+++..+.+.+..
T Consensus        96 F~kA~~~FqkAv~~~P~ne~Y~ksLe~~~kap~lh~e~~~~~~~  139 (186)
T PF06552_consen   96 FEKATEYFQKAVDEDPNNELYRKSLEMAAKAPELHMEIHKQGLG  139 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHTHHHHHHHHHHSSS-
T ss_pred             HHHHHHHHHHHHhcCCCcHHHHHHHHHHHhhHHHHHHHHHHHhh
Confidence            6777888888888899987       223455666777666653

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=80.13  E-value=17  Score=32.87  Aligned_cols=94  Identities=14%  Similarity=0.032  Sum_probs=64.9

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHhhcCCCC------HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC---CCHHHHHH
Q 006246          332 VLGTALVDMYAKCGRLDMAWKVFEDMKMKE------VFTWNAMIGGLAMHGRADDAIELFFKMQREKMR---PDRITFAC  402 (654)
Q Consensus       332 ~~~~~li~~y~~~g~~~~A~~~~~~m~~~~------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~---p~~~t~~~  402 (654)
                      ..+..+.+-|.+.|+.+.|.+.|.++.+..      +..+-.+|......+++..+.....+....--.   ++...-..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            456678899999999999999999988642      345677888888899999998888877653222   22222222


Q ss_pred             HHHH--HHccCCHHHHHHHHHHHHH
Q 006246          403 VLSA--CAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       403 ll~~--~~~~g~~~~a~~~~~~~~~  425 (654)
                      +..+  +...+++..|-+.|-....
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            2222  3356788888888866544

This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.

---

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	654
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-08
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	6e-06
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	4e-04
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	4e-04
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	7e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 72.2 bits (175), Expect = 3e-13
 Identities = 25/195 (12%), Positives = 62/195 (31%), Gaps = 7/195 (3%)

Query: 278 KEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTAL 337
           + A  + +  ++    P +  L+ +L       +LD          +  +        A 
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 338 VDMYAKCGRLDMAWKVFEDMKMKE-------VFTWNAMIGGLAMHGRADDAIELFFKMQR 390
                   +L +A  +      +        +  +NA++ G A  G   + + + F ++ 
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 391 EKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLA 450
             + PD +++A  L            ++         G+  +      ++    RA  L 
Sbjct: 194 AGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLK 253

Query: 451 EAEEVISSMPMEPNA 465
              +V  +  + P  
Sbjct: 254 AVHKVKPTFSLPPQL 268

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 67.1 bits (162), Expect = 1e-11
 Identities = 22/139 (15%), Positives = 46/139 (33%), Gaps = 12/139 (8%)

Query: 187 ARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDK-------NTGSYNAMISG 239
           + Q              A     L    +  A  L      +           YNA++ G
Sbjct: 115 SGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLG 174

Query: 240 FARFGRFEEARKLFNEMNDK----DEITWSAIIDGYTKDGYYKEALE-VFNEMQRDKIKP 294
           +AR G F+E   +   + D     D ++++A +    +       +E    +M ++ +K 
Sbjct: 175 WARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKL 234

Query: 295 RKFVLSCVLAACASLGALD 313
           +    + +L+       L 
Sbjct: 235 QALFTAVLLSEEDRATVLK 253

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 50.2 bits (118), Expect = 2e-06
 Identities = 17/136 (12%), Positives = 41/136 (30%), Gaps = 8/136 (5%)

Query: 232 SYNAMISGFARFGRFEEARKLFNEMNDK-------DEITWSAIIDGYTKDGYYKEALEVF 284
              A         +   A  L    + +           ++A++ G+ + G +KE + V 
Sbjct: 129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVL 188

Query: 285 NEMQRDKIKPRKFVLSCVLAACASLGALDQGIW-IHDHVKRNSICVDAVLGTALVDMYAK 343
             ++   + P     +  L            I    + + +  + + A+    L+    +
Sbjct: 189 FMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR 248

Query: 344 CGRLDMAWKVFEDMKM 359
              L    KV     +
Sbjct: 249 ATVLKAVHKVKPTFSL 264

>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 = 54.5 bits (130), Expect = 9e-08
 Identities = 99/679 (14%), Positives = 201/679 (29%), Gaps = 172/679 (25%)

Query: 12  HHLKPEEISATNIPTSE--FSQKTILDIL------NTKCHTSWQHLKQAHAVILKSGHFQ 63
           HH+  E        T E  +  K IL +       N  C       K     IL      
Sbjct: 5   HHMDFE--------TGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS----ILSKEEID 52

Query: 64  DHYVSGTLVKCHANSRF------SNFELALKVF-NSVHKPNV-FVWNSVLRACLEHNEPW 115
              +S   V     +        S  E  ++ F   V + N  F+ + +     E  +P 
Sbjct: 53  HIIMSKDAVS---GTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT---EQRQPS 106

Query: 116 RVISLYSEMVGV---DSKP-NKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVK 171
            +  +Y E       D++   K+    +     + +A  E ++   +V+ +G+ G     
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE-LRPAKNVLIDGVLG----- 160

Query: 172 SSGIQMYACFGCVNKARQI-LDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNT 230
            SG    A   C++   Q  +D       I W       L   +    + + +       
Sbjct: 161 -SGKTWVALDVCLSYKVQCKMDFK-----IFW-------LNLKNCNSPETVLEML---QK 204

Query: 231 GSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRD 290
             Y    +  +R       +   + +  +             K   Y+  L V   +Q  
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL--------KSKPYENCLLVLLNVQNA 256

Query: 291 KIKPRKFVLSC-VLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDM 349
           K     F LSC +L                    R     D +       +      LD 
Sbjct: 257 KAW-NAFNLSCKILL-----------------TTRFKQVTDFLSAATTTHI-----SLDH 293

Query: 350 AWKVFEDMKMKEVFTWNAMIGGLAMHGRADD-----------AIELFFKMQREKMRPDRI 398
                   ++K +           +  R  D            + +  +  R+       
Sbjct: 294 HSMTLTPDEVKSLL-------LKYLDCRPQDLPREVLTTNPRRLSIIAESIRD--GLATW 344

Query: 399 TFACVLSACAHAGMIDRGLQALT--YMQQMY---GIDPEVEHYGCI-VDLLGRAGYLAEA 452
                ++      +I+  L  L     ++M+    + P   H   I   LL    +    
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAH---IPTILLSLIWFDVIK 401

Query: 453 EEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMK 512
            +V+  +    N     +L+    K  + E    +  I LE++ +    ++   + + + 
Sbjct: 402 SDVMVVV----NKLHKYSLV---EKQPK-ESTISIPSIYLELKVK---LENEYALHRSIV 450

Query: 513 ER--GIKTNPGSSMID--VNGVIHEFRTGDGSH----------PQVKEIYLMLKKIIEKL 558
           +     KT     +I   ++   +      G H             + ++L  + + +K+
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHI---GHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507

Query: 559 KMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFI-NTDPGATIRV---IKNLRVC 614
           + +  + N+S  + +  ++ K     Y          +I + DP     V   +  L   
Sbjct: 508 RHDSTAWNASGSILNTLQQLK----FYKP--------YICDNDPKYERLVNAILDFLPKI 555

Query: 615 EDCHSATKLISKVFKRDII 633
           E       LI   +  D++
Sbjct: 556 E-----ENLICSKY-TDLL 568

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 45.7 bits (107), Expect = 6e-06
 Identities = 14/55 (25%), Positives = 20/55 (36%), Gaps = 30/55 (54%)

Query: 551 LKKIIEKLKMEGYSPNSSQVLFDIDEEEKETAPKYHSEKLAIAFGFINTDPGATI 605
           LKK+   LK+  Y+ +S              AP       A+A   I     AT+
Sbjct: 22  LKKLQASLKL--YADDS--------------AP-------ALA---IK----ATM 46

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 42.0 bits (98), Expect = 4e-04
 Identities = 27/216 (12%), Positives = 62/216 (28%), Gaps = 16/216 (7%)

Query: 82  NFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFK 141
            + + L        P +            H+    +++     +         T+  +  
Sbjct: 49  KYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAA 108

Query: 142 ACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSD--- 198
           +    + + +      H   +  C  + V     Q+      ++ AR+ L      D   
Sbjct: 109 SIYFYDQNPDAALRTLHQGDSLECMAMTV-----QILLKLDRLDLARKELKKMQDQDEDA 163

Query: 199 VICWNALIDGYLKCGD--IEGAKELFKSTKDKNTGS---YNAMISGFARFGRFEEARKLF 253
            +   A     L  G   ++ A  +F+   DK + +    N   +     GR+E A  + 
Sbjct: 164 TLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVL 223

Query: 254 N---EMNDKDEITWSAIIDGYTKDGYYKEALEVFNE 286
               + +     T   ++      G   E    +  
Sbjct: 224 QEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLS 259

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 41.6 bits (97), Expect = 4e-04
 Identities = 26/216 (12%), Positives = 50/216 (23%), Gaps = 13/216 (6%)

Query: 244 GRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVL 303
            ++          +  +        +           +   +      +         + 
Sbjct: 48  RKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMA 107

Query: 304 AACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK---MK 360
           A+                ++              V +  K  RLD+A K  + M+     
Sbjct: 108 AS-----IYFYDQNPDAALRTLHQGDSLECMAMTVQILLKLDRLDLARKELKKMQDQDED 162

Query: 361 EVFTWNAMIGGLAMHG--RADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQ 418
              T  A        G  +  DA  +F +M  +K  P  +      +     G  +    
Sbjct: 163 ATLTQLATAWVSLAAGGEKLQDAYYIFQEM-ADKCSPTLLLLNGQAACHMAQGRWEAAEG 221

Query: 419 ALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEE 454
            L          PE      +V L    G   E   
Sbjct: 222 VLQEALDKDSGHPET-LINLVV-LSQHLGKPPEVTN 255

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A Length = 368

 Score = 41.6 bits (98), Expect = 7e-04
 Identities = 17/108 (15%), Positives = 40/108 (37%), Gaps = 6/108 (5%)

Query: 185 NKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKST---KDKNTGSYNAMISGFA 241
           +K  Q  ++    D           L+ GD+  A  LF++      K+  ++  + +  A
Sbjct: 50  DKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQA 109

Query: 242 RFGRFEEARKLFN---EMNDKDEITWSAIIDGYTKDGYYKEALEVFNE 286
              +   A        E+   ++    A+   +T +   ++A E+  +
Sbjct: 110 ENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRD 157

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	654
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.88
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.84
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.83
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.78
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.77
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.76
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.76
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.75
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.75
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.74
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.72
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.71
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.71
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.71
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.66
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.65
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.62
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.56
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.54
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.53
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.51
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.49
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.49
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.48
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.48
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.48
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.48
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.47
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.45
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.45
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.44
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.44
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.43
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.42
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.41
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.39
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.39
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.38
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.38
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.38
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.37
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.37
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.37
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.36
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.34
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.34
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.34
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.29
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.26
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.24
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.24
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.21
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.19
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.18
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.16
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.16
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.15
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.12
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.11
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.1
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.08
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.07
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.07
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.04
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.02
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.98
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.98
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.97
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.96
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.96
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.92
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.89
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.83
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.81
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.78
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.78
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.75
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.74
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.72
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.72
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.71
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.68
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.68
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.66
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.65
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.65
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.64
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.64
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.64
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.62
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.62
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.62
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.61
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.61
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.55
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.55
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.53
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.52
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.49
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.49
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.48
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.43
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.42
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.42
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.41
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.39
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.38
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.37
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.35
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.31
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.31
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.3
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.29
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.27
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.25
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.25
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.23
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.22
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.22
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.21
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.19
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.18
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.18
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.17
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.13
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.13
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.13
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.13
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.13
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.12
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.1
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.09
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.08
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.08
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.07
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.05
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.05
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.04
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.04
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.03
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.02
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.01
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.01
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.0
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.99
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.99
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.97
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.94
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.93
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.92
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.92
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.92
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.91
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.89
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.89
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.87
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.83
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.76
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.74
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.73
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.72
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.65
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.64
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.64
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.63
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.62
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.56
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.52
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.48
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.48
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.46
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.44
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.39
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.35
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.35
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.34
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.33
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.27
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.25
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.24
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.16
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.13
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.06
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.05
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.04
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.03
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.02
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.88
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.81
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.76
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.75
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.68
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.62
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.61
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.51
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.51
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.36
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.14
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.07
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.07
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.66
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.53
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	95.41
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.39
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.23
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.02
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.45
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	92.94
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	92.52
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	92.44
1pc2_A	152	Mitochondria fission protein; unknown function; NM	92.29
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.37
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	91.2
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	90.85
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	90.68
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	89.73
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	89.27
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	88.69
2p58_C	116	Putative type III secretion protein YSCG; type III	87.72
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.54
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.42
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	86.83
3mv2_A	325	Coatomer subunit alpha; vesicular membrane coat CO	85.97
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	85.02
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	85.0
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	84.8
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	84.38
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	84.34
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	84.04
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	83.48
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	83.46
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	83.13
2p58_C	116	Putative type III secretion protein YSCG; type III	83.04
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.42
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	82.37
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	81.26
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	80.38
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	80.2

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.8e-39  Score=358.34  Aligned_cols=431  Identities=11%  Similarity=-0.010  Sum_probs=367.6

Q ss_pred             HhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHH
Q 006246           73 KCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEG  152 (654)
Q Consensus        73 ~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  152 (654)
                      ..+.+  .|.+..+...|+.++.+++..|+.++..|.+.|++++|+.+|++|..  ..||..++..+..+|...|++++|
T Consensus        61 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A  136 (597)
T 2xpi_A           61 NNTST--DGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARA  136 (597)
T ss_dssp             -----------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccccc--cCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHH
Confidence            34566  78889999999999989999999999999999999999999999985  467889999999999999999999


Q ss_pred             HHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCC-------------------ChhhHHHHHHHHHHcC
Q 006246          153 VQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKS-------------------DVICWNALIDGYLKCG  213 (654)
Q Consensus       153 ~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~g  213 (654)
                      ..+++.+...  +++..+++.++.+|.++|++++|.++|+++.+.                   ++.+|+.++.+|.+.|
T Consensus       137 ~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  214 (597)
T 2xpi_A          137 KCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLS  214 (597)
T ss_dssp             HHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcC
Confidence            9999988643  678899999999999999999999999975444                   4889999999999999


Q ss_pred             CHHHHHHHHHhcCCCCc---chH--------------------------------------HHHHHHHHhcCCHHHHHHH
Q 006246          214 DIEGAKELFKSTKDKNT---GSY--------------------------------------NAMISGFARFGRFEEARKL  252 (654)
Q Consensus       214 ~~~~A~~~~~~m~~~~~---~~~--------------------------------------~~li~~~~~~g~~~~A~~~  252 (654)
                      ++++|+++|++|.+.++   ..+                                      +.++.+|.+.|++++|.++
T Consensus       215 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  294 (597)
T 2xpi_A          215 NFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDY  294 (597)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHH
Confidence            99999999999975322   222                                      2235567788999999999


Q ss_pred             HHhcCC--CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc
Q 006246          253 FNEMND--KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD  330 (654)
Q Consensus       253 ~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  330 (654)
                      |+++.+  ++..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.++.+.|++++|.+++..+.+.. +.+
T Consensus       295 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~  372 (597)
T 2xpi_A          295 LSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEK  372 (597)
T ss_dssp             HHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTS
T ss_pred             HHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-ccc
Confidence            999987  799999999999999999999999999999875 4478899999999999999999999999999765 567


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSAC  407 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  407 (654)
                      ..+++.++.+|.++|++++|.++|+++.+   .+..+|+.++.+|.+.|++++|+++|++|.+.+ +.+..+|..++.+|
T Consensus       373 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  451 (597)
T 2xpi_A          373 AVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQH  451 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            88999999999999999999999998764   478899999999999999999999999999864 44788999999999


Q ss_pred             HccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC--HHHHHHHHHHHHHh
Q 006246          408 AHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-------PMEPN--AAVWEALLGACRKH  478 (654)
Q Consensus       408 ~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~--~~~~~~ll~~~~~~  478 (654)
                      .+.|++++|.++|+++.+.  .+.+..+|+.++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.
T Consensus       452 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  529 (597)
T 2xpi_A          452 MQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKL  529 (597)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHh
Confidence            9999999999999999884  3446788999999999999999999999987       44777  88999999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCC--------------CchHHHHHHHHHHhc
Q 006246          479 GEVEFGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKER  514 (654)
Q Consensus       479 g~~~~a~~~~~~~~~~~p~~~--------------~~~~a~~~~~~m~~~  514 (654)
                      |++++|++.++++++++|++.              +|++|.+.++.+.+.
T Consensus       530 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          530 KMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             TCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            999999999999999999886              899999998888764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.3e-38  Score=348.18  Aligned_cols=453  Identities=7%  Similarity=-0.052  Sum_probs=338.4

Q ss_pred             hhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC--CCCcchHHHHHHHHHhCCCchH
Q 006246           39 NTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH--KPNVFVWNSVLRACLEHNEPWR  116 (654)
Q Consensus        39 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~  116 (654)
                      .+.+.|+++.|..++..+++..  |+..++..+..+|.+  .|++++|+.+|+.+.  .++..+|+.++.+|.+.|++++
T Consensus        93 ~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  168 (597)
T 2xpi_A           93 DALMQQQYKCAAFVGEKVLDIT--GNPNDAFWLAQVYCC--TGDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQG  168 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHH--TTCHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHccCchHHHHHHHHHHhhC--CCchHHHHHHHHHHH--cCcHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHHH
Confidence            4455555555555555555332  344555555555555  555555555555552  3455555555555555555555


Q ss_pred             HHHHHHHhHhC---------------CCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhc
Q 006246          117 VISLYSEMVGV---------------DSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACF  181 (654)
Q Consensus       117 A~~~~~~m~~~---------------g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  181 (654)
                      |+++|+++...               |.+++..+|..+..++.+.|++++|.++++++++.+ +.+...+..+...+...
T Consensus       169 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  247 (597)
T 2xpi_A          169 ALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYEAFDQLVSNHLLT  247 (597)
T ss_dssp             HHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCSC
T ss_pred             HHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhHHHHHHHHhhccc
Confidence            55555532111               112234455555555555555555555555555543 22333333333333322


Q ss_pred             CCHHHHHH--H-HhcCCC----CChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCcchHHHHHHHHHhcCCHHHHHHH
Q 006246          182 GCVNKARQ--I-LDDGSK----SDVICWNALIDGYLKCGDIEGAKELFKSTKD--KNTGSYNAMISGFARFGRFEEARKL  252 (654)
Q Consensus       182 g~~~~A~~--~-~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~  252 (654)
                      +..+.+..  + ++.+..    .....|+.++..|.+.|++++|.++|+++.+  ++..+|+.++.+|.+.|++++|.++
T Consensus       248 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  327 (597)
T 2xpi_A          248 ADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAI  327 (597)
T ss_dssp             HHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             chhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHH
Confidence            22111110  0 111111    1223345556778889999999999999988  8999999999999999999999999


Q ss_pred             HHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 006246          253 FNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICV  329 (654)
Q Consensus       253 ~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  329 (654)
                      |+++.+   .+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..++..+...|.+.|++++|.++|+.+.+.. +.
T Consensus       328 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  405 (597)
T 2xpi_A          328 TTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQ  405 (597)
T ss_dssp             HHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CC
Confidence            999863   367889999999999999999999999998653 4567889999999999999999999999998865 45


Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA  406 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  406 (654)
                      +..+++.++.+|.+.|++++|.++|+++..   .+..+|+.++.+|.+.|++++|+++|++|.+.. +.+..+|..++..
T Consensus       406 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  484 (597)
T 2xpi_A          406 FGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVV  484 (597)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            688999999999999999999999998764   478899999999999999999999999999864 4478899999999


Q ss_pred             HHccCCHHHHHHHHHHHHHHc---CCCCC--cchHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhC
Q 006246          407 CAHAGMIDRGLQALTYMQQMY---GIDPE--VEHYGCIVDLLGRAGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHG  479 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~---g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g  479 (654)
                      |.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|.++++++ .. +.+..+|..+..+|...|
T Consensus       485 ~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  564 (597)
T 2xpi_A          485 AFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKK  564 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhC
Confidence            999999999999999998743   66787  679999999999999999999999987 23 347999999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCC
Q 006246          480 EVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       480 ~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ++++|.+.++++++++|++.
T Consensus       565 ~~~~A~~~~~~~l~~~p~~~  584 (597)
T 2xpi_A          565 IPGLAITHLHESLAISPNEI  584 (597)
T ss_dssp             CHHHHHHHHHHHHHHCTTCH
T ss_pred             CHHHHHHHHHHHHhcCCCCh
Confidence            99999999999999999974

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=2.2e-27  Score=251.87  Aligned_cols=198  Identities=18%  Similarity=0.264  Sum_probs=174.7

Q ss_pred             HHHHHHHhcCCC-----CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC---------hh
Q 006246          248 EARKLFNEMNDK-----DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGA---------LD  313 (654)
Q Consensus       248 ~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~---------~~  313 (654)
                      .+..+++++.++     ....++.+|++|++.|++++|+++|++|.+.|++||..||+++|.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            344455555543     2346889999999999999999999999999999999999999999987664         67


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC----CCHHHHHHHHHHHHHcCChhHHHHHHHHHh
Q 006246          314 QGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM----KEVFTWNAMIGGLAMHGRADDAIELFFKMQ  389 (654)
Q Consensus       314 ~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  389 (654)
                      .|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|..    ||..+||+||.+|++.|+.++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999999975    699999999999999999999999999999


Q ss_pred             hcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHc
Q 006246          390 REKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRA  446 (654)
Q Consensus       390 ~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~  446 (654)
                      +.|+.||..||+.||.+|++.|++++|.++|++|++. |..|+..+|+.++..|...
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHSH
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999985 9999999999999988763

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=9.5e-25  Score=226.83  Aligned_cols=357  Identities=11%  Similarity=0.032  Sum_probs=208.3

Q ss_pred             HHHHhCCCchHHHHHHHHhHhCCCCCCcc-cHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCH
Q 006246          106 RACLEHNEPWRVISLYSEMVGVDSKPNKF-TYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCV  184 (654)
Q Consensus       106 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~  184 (654)
                      ..+.+.|++++|++.|+++.+.  .|+.. .+..+...+...|++++|...+...++.. +.+...+..+...|.+.|++
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            3445566666666666666553  34333 33333344555666666666666665543 34455555666666555555


Q ss_pred             HHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC-C
Q 006246          185 NKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMNDK-D  260 (654)
Q Consensus       185 ~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~  260 (654)
                      ++|.+.|+++   .+.+..+|..+...+.+.|++++|+..|+++.+.                             .| +
T Consensus        84 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-----------------------------~p~~  134 (388)
T 1w3b_A           84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY-----------------------------NPDL  134 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH-----------------------------CTTC
T ss_pred             HHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----------------------------CCCc
Confidence            5555555543   2333444555555555555555555555544321                             11 2


Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      ...+..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+...
T Consensus       135 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  212 (388)
T 1w3b_A          135 YCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNV  212 (388)
T ss_dssp             THHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHH
Confidence            2334444444444455555555555544431 1123344444445555555555555555555443 2234455556666


Q ss_pred             HHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 006246          341 YAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGL  417 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  417 (654)
                      +...|++++|...|++...   .+..+|..+...|...|++++|++.|+++.+.+ +.+..++..+...+.+.|++++|.
T Consensus       213 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~  291 (388)
T 1w3b_A          213 LKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAE  291 (388)
T ss_dssp             HHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            6666666666666665442   245666777777777777777777777776643 224556777777777777777777


Q ss_pred             HHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          418 QALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       418 ~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      +.|+++.+.  .+.+...+..+..++.+.|++++|.+.++++ ...| +..+|..+...+.+.|++++|...++++++++
T Consensus       292 ~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          292 DCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             HHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            777777763  3445667777777777777777777777766 3333 46777777777777788888888888887777


Q ss_pred             CCCC
Q 006246          496 PQNR  499 (654)
Q Consensus       496 p~~~  499 (654)
                      |++.
T Consensus       370 p~~~  373 (388)
T 1w3b_A          370 PTFA  373 (388)
T ss_dssp             TTCH
T ss_pred             CCCH
Confidence            7754

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=9.1e-25  Score=227.00  Aligned_cols=330  Identities=14%  Similarity=0.099  Sum_probs=264.7

Q ss_pred             HHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHH
Q 006246          178 YACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARK  251 (654)
Q Consensus       178 y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~  251 (654)
                      +.+.|++++|.+.++++   .+.+...+..+...+.+.|++++|...++...+   .+..+|..+...|.+.|++++|..
T Consensus         9 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~~   88 (388)
T 1w3b_A            9 EYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIE   88 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHH
Confidence            33444444444444432   223334444455555666666666666655543   345567777777777777777777


Q ss_pred             HHHhcCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 006246          252 LFNEMND--K-DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRK-FVLSCVLAACASLGALDQGIWIHDHVKRNSI  327 (654)
Q Consensus       252 ~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  327 (654)
                      .|+++..  | +..+|..+..++.+.|++++|++.|+++.+.  .|+. ..+..+...+...|++++|.+.+..+.+.. 
T Consensus        89 ~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-  165 (388)
T 1w3b_A           89 HYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-  165 (388)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-
Confidence            7777653  3 5668999999999999999999999999886  4544 456667788889999999999999999875 


Q ss_pred             CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHH
Q 006246          328 CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVL  404 (654)
Q Consensus       328 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll  404 (654)
                      +.+..++..+...|.+.|++++|...|+++..   .+...|..+...+...|++++|+..|++..+.. +.+..++..+.
T Consensus       166 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~  244 (388)
T 1w3b_A          166 PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLA  244 (388)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHH
Confidence            44678899999999999999999999998874   367789999999999999999999999998863 23577899999


Q ss_pred             HHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHhCChH
Q 006246          405 SACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM--PMEPNAAVWEALLGACRKHGEVE  482 (654)
Q Consensus       405 ~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g~~~  482 (654)
                      ..+...|++++|.+.|+++.+.  -+.+...|..+..+|.+.|++++|.+.++++  ..+++..+|..+...+...|+++
T Consensus       245 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  322 (388)
T 1w3b_A          245 CVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIE  322 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHH
Confidence            9999999999999999999873  2334678999999999999999999999988  23457899999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCC--------------CchHHHHHHHHHHh
Q 006246          483 FGERLGKILLEMEPQNR--------------RCDDVAKMRKLMKE  513 (654)
Q Consensus       483 ~a~~~~~~~~~~~p~~~--------------~~~~a~~~~~~m~~  513 (654)
                      +|...+++++++.|++.              ++++|...++.+.+
T Consensus       323 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          323 EAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999999999999985              88999999988875

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.94  E-value=1.4e-26  Score=245.58  Aligned_cols=201  Identities=11%  Similarity=0.167  Sum_probs=174.2

Q ss_pred             HHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCC---------H
Q 006246          278 KEALEVFNEMQRDKIKPRK-FVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGR---------L  347 (654)
Q Consensus       278 ~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~---------~  347 (654)
                      ..+..+.+++.+.++.+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3455667788877766543 46888999999999999999999999999999999999999999998765         7


Q ss_pred             HHHHHHHhhcCC----CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 006246          348 DMAWKVFEDMKM----KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYM  423 (654)
Q Consensus       348 ~~A~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  423 (654)
                      +.|.++|++|..    ||.++||+||.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|+.|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            889999999974    6999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHHhC
Q 006246          424 QQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM---PMEPNAAVWEALLGACRKHG  479 (654)
Q Consensus       424 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m---~~~p~~~~~~~ll~~~~~~g  479 (654)
                      .+. |+.||..+|++||++|++.|++++|.+++++|   +..|+..||+.++..|...+
T Consensus       167 ~~~-G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          167 VES-EVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHT-TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             Hhc-CCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            985 99999999999999999999999999999999   68899999999999988753

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=9.1e-23  Score=219.96  Aligned_cols=425  Identities=10%  Similarity=-0.016  Sum_probs=297.0

Q ss_pred             HHHHHHHhcccccCCChHHHHHHHhcCC--CCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHh
Q 006246           67 VSGTLVKCHANSRFSNFELALKVFNSVH--KPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACS  144 (654)
Q Consensus        67 ~~~~Li~~y~~~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  144 (654)
                      .+..+...|.+  .|++++|+..|+++.  .||..+|..+..++.+.|++++|+..|+++.+.+ +.+...+..+..++.
T Consensus         8 ~~~~~g~~~~~--~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            8 ALKDKGNQFFR--NKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHH--TSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHH
Confidence            44455556666  677777777776665  3666667777777777777777777777766643 223345666666667


Q ss_pred             ccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCC----CChhhHHHHH---HHHHHcCCHHH
Q 006246          145 ITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSK----SDVICWNALI---DGYLKCGDIEG  217 (654)
Q Consensus       145 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~----~~~~~~~~li---~~~~~~g~~~~  217 (654)
                      ..|++++|...+..+.+.+ +++......++..+........+.+.+..+..    ++...++...   ...........
T Consensus        85 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            7777777777777766655 23333444444444333333333333321100    0000000000   00000111111


Q ss_pred             HHHHHHhcCC---------C-CcchHHHHHHHHHh---cCCHHHHHHHHHhcCC----------------C-CHhHHHHH
Q 006246          218 AKELFKSTKD---------K-NTGSYNAMISGFAR---FGRFEEARKLFNEMND----------------K-DEITWSAI  267 (654)
Q Consensus       218 A~~~~~~m~~---------~-~~~~~~~li~~~~~---~g~~~~A~~~~~~~~~----------------~-~~~~~~~l  267 (654)
                      +...+.....         | +...+..+...+..   .|++++|...|+++.+                + +...|..+
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHH
Confidence            1111111111         1 13344444444444   8999999999988755                2 35578889


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCH
Q 006246          268 IDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRL  347 (654)
Q Consensus       268 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~  347 (654)
                      ...+...|++++|+..|+++.+..  |+...+..+..++...|++++|...+..+.+.. +.+..++..+...|.+.|++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  320 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNY  320 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCH
Confidence            999999999999999999998865  337778888899999999999999999998865 44677888999999999999


Q ss_pred             HHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 006246          348 DMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQ  424 (654)
Q Consensus       348 ~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~  424 (654)
                      ++|...|+++..   .+...|..+...|...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.
T Consensus       321 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          321 DQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             THHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            999999998753   367889999999999999999999999998863 3356788889999999999999999999998


Q ss_pred             HHcCCCCC----cchHHHHHHHHHH---cCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          425 QMYGIDPE----VEHYGCIVDLLGR---AGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       425 ~~~g~~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      +...-.++    ...+..+...|.+   .|++++|.+.++++ .. +.+..+|..+...+...|++++|...++++++++
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  479 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLA  479 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence            75332333    3388999999999   99999999999987 22 3468899999999999999999999999999999


Q ss_pred             CCCC
Q 006246          496 PQNR  499 (654)
Q Consensus       496 p~~~  499 (654)
                      |++.
T Consensus       480 ~~~~  483 (514)
T 2gw1_A          480 RTME  483 (514)
T ss_dssp             SSHH
T ss_pred             cccH
Confidence            9986

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=4.2e-21  Score=203.36  Aligned_cols=299  Identities=11%  Similarity=0.043  Sum_probs=145.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHH
Q 006246          168 VHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFA  241 (654)
Q Consensus       168 ~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~  241 (654)
                      ...+..+...|.+.|++++|..+|+++   .+.+..+|..+...|.+.|++++|+..|+++.+   .+..++..+...|.
T Consensus        26 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  105 (450)
T 2y4t_A           26 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLL  105 (450)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHH
Confidence            344444555555555555555555443   233444555555555555555555555555433   22334455555555


Q ss_pred             hcCCHHHHHHHHHhcCCC---CH---hHHHHH------------HHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHH
Q 006246          242 RFGRFEEARKLFNEMNDK---DE---ITWSAI------------IDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVL  303 (654)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~---~~---~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  303 (654)
                      +.|++++|...|+++.+.   +.   ..|..+            ...+.+.|++++|+..|+++.+.. +.+...+..+.
T Consensus       106 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  184 (450)
T 2y4t_A          106 KQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRA  184 (450)
T ss_dssp             HTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            555555555555554432   11   333333            223555555555555555555432 22334444555


Q ss_pred             HHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHH------------
Q 006246          304 AACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAM------------  368 (654)
Q Consensus       304 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~l------------  368 (654)
                      .++...|++++|.+.+..+.+.. +.+..++..++..|.+.|++++|...|+++..   .+...+..+            
T Consensus       185 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~  263 (450)
T 2y4t_A          185 ECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNKLIES  263 (450)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555432 23344555555555555555555555554432   122333332            


Q ss_pred             HHHHHHcCChhHHHHHHHHHhhcCCCCC-----HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHH
Q 006246          369 IGGLAMHGRADDAIELFFKMQREKMRPD-----RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLL  443 (654)
Q Consensus       369 i~~~~~~g~~~~A~~l~~~m~~~g~~p~-----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~  443 (654)
                      +..+...|++++|+.+|+++.+.  .|+     ...+..+...+.+.|++++|...++.+.+.  .+.+...|..+..+|
T Consensus       264 ~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~  339 (450)
T 2y4t_A          264 AEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAY  339 (450)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            45555555555555555555543  232     224445555555555555555555555542  122344555555555


Q ss_pred             HHcCCHHHHHHHHHhC-CCCC-CHHHHHHHH
Q 006246          444 GRAGYLAEAEEVISSM-PMEP-NAAVWEALL  472 (654)
Q Consensus       444 ~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll  472 (654)
                      ...|++++|.+.++++ ...| +..++..+.
T Consensus       340 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~  370 (450)
T 2y4t_A          340 LIEEMYDEAIQDYETAQEHNENDQQIREGLE  370 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTTSSSCHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            5555555555555554 3333 244444443

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.90  E-value=4.2e-21  Score=208.22  Aligned_cols=423  Identities=9%  Similarity=0.022  Sum_probs=315.4

Q ss_pred             hhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHH
Q 006246           65 HYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFK  141 (654)
Q Consensus        65 ~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  141 (654)
                      ...+..+...|.+  .|++++|+..|+++.   +.+..+|..+..+|.+.|++++|++.|+++.+.+ +.+..++..+..
T Consensus        25 a~~~~~~g~~~~~--~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           25 AVQLKNRGNHFFT--AKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHH--TTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--hccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            4566777777777  888888888888765   3466778888888888888888888888887753 234556777777


Q ss_pred             HHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCC------ChhhHHHHHHHHHHcCCH
Q 006246          142 ACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKS------DVICWNALIDGYLKCGDI  215 (654)
Q Consensus       142 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~  215 (654)
                      ++...|++++|...+. .+..  .|+.  ....+..+...+....|...+++....      ........+..+....+.
T Consensus       102 ~~~~~g~~~~A~~~~~-~~~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLS-VLSL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDS  176 (537)
T ss_dssp             HHHHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCH
T ss_pred             HHHHcCCHHHHHHHHH-HHhc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcCh
Confidence            7788888888888885 3322  2221  222334455555667777777765321      222334555666777777


Q ss_pred             HHHHHHHHhcCCCCcc---hHHHHHHHHHh--------cCCHHHHHHHHHhcCCC---C-------HhHHHHHHHHHHhc
Q 006246          216 EGAKELFKSTKDKNTG---SYNAMISGFAR--------FGRFEEARKLFNEMNDK---D-------EITWSAIIDGYTKD  274 (654)
Q Consensus       216 ~~A~~~~~~m~~~~~~---~~~~li~~~~~--------~g~~~~A~~~~~~~~~~---~-------~~~~~~li~~~~~~  274 (654)
                      +.+...+......+..   ....+...+..        .|++++|..+|+++.+.   +       ..+|..+...+...
T Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~  256 (537)
T 3fp2_A          177 HLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLK  256 (537)
T ss_dssp             HHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhc
Confidence            7777777666665444   34444443332        25889999999998763   2       23577777889999


Q ss_pred             CChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHH
Q 006246          275 GYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVF  354 (654)
Q Consensus       275 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~  354 (654)
                      |++++|+..|+++...  .|+...+..+...+...|+++.|...+..+.+.. +.+..++..+...|...|++++|.+.|
T Consensus       257 ~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  333 (537)
T 3fp2_A          257 NNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDF  333 (537)
T ss_dssp             TCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            9999999999999986  4557788888889999999999999999999876 456788999999999999999999999


Q ss_pred             hhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC
Q 006246          355 EDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP  431 (654)
Q Consensus       355 ~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p  431 (654)
                      +++..   .+...|..+...|...|++++|+..|+++.+.. +.+...+..+...+...|++++|...|+.+.+...-.+
T Consensus       334 ~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~  412 (537)
T 3fp2_A          334 QKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQE  412 (537)
T ss_dssp             HHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcch
Confidence            98764   366889999999999999999999999998864 33566888899999999999999999999887532122


Q ss_pred             Cc----chHHHHHHHHHHc----------CCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          432 EV----EHYGCIVDLLGRA----------GYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       432 ~~----~~~~~li~~~~~~----------g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      +.    ..+..+...|.+.          |++++|...++++ .. +.+..+|..+...+...|++++|...+++++++.
T Consensus       413 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          413 KIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             SCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            21    1244456778888          9999999999987 22 3468899999999999999999999999999999


Q ss_pred             CCCC
Q 006246          496 PQNR  499 (654)
Q Consensus       496 p~~~  499 (654)
                      |++.
T Consensus       493 ~~~~  496 (537)
T 3fp2_A          493 RTMD  496 (537)
T ss_dssp             --CH
T ss_pred             CCcH
Confidence            9986

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=2.5e-21  Score=205.09  Aligned_cols=296  Identities=16%  Similarity=0.100  Sum_probs=256.9

Q ss_pred             CCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHH
Q 006246          196 KSDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIID  269 (654)
Q Consensus       196 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~  269 (654)
                      +.++..|..+...|.+.|++++|+.+|+++.+   .+..++..+..+|.+.|++++|...|+++.+   .+...|..+..
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  102 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGH  102 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence            34677899999999999999999999998875   4678899999999999999999999999874   36788999999


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCc----chHHHH------------HHHHHhcCChhHHHHHHHHHHHcCCCCchhH
Q 006246          270 GYTKDGYYKEALEVFNEMQRDKIKPRK----FVLSCV------------LAACASLGALDQGIWIHDHVKRNSICVDAVL  333 (654)
Q Consensus       270 ~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  333 (654)
                      .|.+.|++++|++.|+++.+..  |+.    ..+..+            ...+...|++++|...+..+.+.. +.+..+
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  179 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAEL  179 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHH
Confidence            9999999999999999998763  433    444444            344889999999999999999875 457888


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH-HHHHH------
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI-TFACV------  403 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~l------  403 (654)
                      +..++.+|.+.|++++|.+.|+++..   .+..+|..++..|...|++++|+..|+++.+.  .|+.. .+..+      
T Consensus       180 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~  257 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKL  257 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHH
Confidence            99999999999999999999998864   47899999999999999999999999999875  44443 44443      


Q ss_pred             ------HHHHHccCCHHHHHHHHHHHHHHcCCCCC-----cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHH
Q 006246          404 ------LSACAHAGMIDRGLQALTYMQQMYGIDPE-----VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEA  470 (654)
Q Consensus       404 ------l~~~~~~g~~~~a~~~~~~~~~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~  470 (654)
                            ...|.+.|++++|..+|+.+.+.   .|+     ..+|..++.++.+.|++++|++.++++ ...| +..+|..
T Consensus       258 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~  334 (450)
T 2y4t_A          258 NKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKD  334 (450)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHH
Confidence                  78899999999999999999874   455     447899999999999999999999987 3334 6899999


Q ss_pred             HHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          471 LLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       471 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ++.+|...|++++|...++++++++|++.
T Consensus       335 l~~~~~~~~~~~~A~~~~~~al~~~p~~~  363 (450)
T 2y4t_A          335 RAEAYLIEEMYDEAIQDYETAQEHNENDQ  363 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTSSSCH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCcchH
Confidence            99999999999999999999999999986

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.88  E-value=9.1e-21  Score=204.24  Aligned_cols=425  Identities=8%  Similarity=-0.093  Sum_probs=314.3

Q ss_pred             hhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCc
Q 006246           38 LNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEP  114 (654)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~  114 (654)
                      ..+...|+++.|...+..+++..  |++.++..+..+|.+  .|++++|...|+++.   +.+..+|..+..+|.+.|++
T Consensus        14 ~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~--~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~   89 (514)
T 2gw1_A           14 NQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVS--VGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKF   89 (514)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHH--HTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHH--HhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhH
Confidence            35667899999999999999986  689999999999999  999999999999876   34567899999999999999


Q ss_pred             hHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHH---HHHHHhcCCHHHHHHHH
Q 006246          115 WRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSG---IQMYACFGCVNKARQIL  191 (654)
Q Consensus       115 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l---i~~y~~~g~~~~A~~~~  191 (654)
                      ++|+..|+++...+ +++......++..+........+.+.+..+...+..++......-   ............+...+
T Consensus        90 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (514)
T 2gw1_A           90 ADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFF  168 (514)
T ss_dssp             HHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHH
Confidence            99999999999875 345556666665555444444444444333222211111111100   00011111111122222


Q ss_pred             hcCC----------CCChhhHHHHHHHHHH---cCCHHHHHHHHHhcCC-----C------------CcchHHHHHHHHH
Q 006246          192 DDGS----------KSDVICWNALIDGYLK---CGDIEGAKELFKSTKD-----K------------NTGSYNAMISGFA  241 (654)
Q Consensus       192 ~~~~----------~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~------------~~~~~~~li~~~~  241 (654)
                      ....          +.+...+......+..   .|++++|+..|+++.+     .            +..++..+...+.
T Consensus       169 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (514)
T 2gw1_A          169 GIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKF  248 (514)
T ss_dssp             TTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHH
Confidence            2211          1234455555555554   8999999999988765     1            3457888899999


Q ss_pred             hcCCHHHHHHHHHhcCC--CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHH
Q 006246          242 RFGRFEEARKLFNEMND--KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIH  319 (654)
Q Consensus       242 ~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  319 (654)
                      ..|++++|...|+++.+  |+...|..+...|...|++++|+..|+++.... +.+...+..+...+...|++++|...+
T Consensus       249 ~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  327 (514)
T 2gw1_A          249 LKNDPLGAHEDIKKAIELFPRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDF  327 (514)
T ss_dssp             HSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            99999999999998753  447788999999999999999999999998764 446678888889999999999999999


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC-C
Q 006246          320 DHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR-P  395 (654)
Q Consensus       320 ~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p  395 (654)
                      ..+.+.. +.+..++..+...|.+.|++++|...|+++..   .+...|..+...|...|++++|+..|+++.+.... |
T Consensus       328 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  406 (514)
T 2gw1_A          328 DKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLD  406 (514)
T ss_dssp             HHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSS
T ss_pred             HHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccc
Confidence            9999875 34677888899999999999999999998764   36778999999999999999999999999874211 1


Q ss_pred             C----HHHHHHHHHHHHc---cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HH
Q 006246          396 D----RITFACVLSACAH---AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AA  466 (654)
Q Consensus       396 ~----~~t~~~ll~~~~~---~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~  466 (654)
                      +    ...+..+...+..   .|++++|...++.+.+.  .+.+...+..+..+|.+.|++++|.+.+++. ...|+ ..
T Consensus       407 ~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~  484 (514)
T 2gw1_A          407 GIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKL--DPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEE  484 (514)
T ss_dssp             SCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHH
T ss_pred             hHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHH
Confidence            1    3378889999999   99999999999999874  2345677889999999999999999999987 34454 44


Q ss_pred             HHHHH
Q 006246          467 VWEAL  471 (654)
Q Consensus       467 ~~~~l  471 (654)
                      .+..+
T Consensus       485 ~~~~~  489 (514)
T 2gw1_A          485 KLQAI  489 (514)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.84  E-value=5.4e-19  Score=191.60  Aligned_cols=410  Identities=10%  Similarity=-0.029  Sum_probs=314.5

Q ss_pred             hhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCCc
Q 006246           38 LNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNEP  114 (654)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~  114 (654)
                      ..+...|+++.|...+..+++.. +.++..+..+..+|.+  .|++++|++.|+++.   +.+..+|..+...+...|++
T Consensus        33 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~--~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~  109 (537)
T 3fp2_A           33 NHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYIS--TGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNF  109 (537)
T ss_dssp             HHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHH--HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHH--cCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCH
Confidence            35667899999999999999986 3478899999999999  999999999999876   34677899999999999999


Q ss_pred             hHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhC--CCCChhhHHHHHHHHHhcCCHHHHHHHHh
Q 006246          115 WRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNG--LCGDVHVKSSGIQMYACFGCVNKARQILD  192 (654)
Q Consensus       115 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~  192 (654)
                      ++|+..|+.+ ..  .|+...  ..+..+...+....|...+..++...  ..+........+..|....+.+.+...+.
T Consensus       110 ~~A~~~~~~~-~~--~~~~~~--~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (537)
T 3fp2_A          110 TDAMFDLSVL-SL--NGDFDG--ASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVN  184 (537)
T ss_dssp             HHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSC
T ss_pred             HHHHHHHHHH-hc--CCCCCh--HHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHh
Confidence            9999999744 32  233221  11223334444567888888776531  11222233455666777888888888888


Q ss_pred             cCCCCChh---hHHHHHHHHHH--------cCCHHHHHHHHHhcCCCCc----------chHHHHHHHHHhcCCHHHHHH
Q 006246          193 DGSKSDVI---CWNALIDGYLK--------CGDIEGAKELFKSTKDKNT----------GSYNAMISGFARFGRFEEARK  251 (654)
Q Consensus       193 ~~~~~~~~---~~~~li~~~~~--------~g~~~~A~~~~~~m~~~~~----------~~~~~li~~~~~~g~~~~A~~  251 (654)
                      .....+..   .+..+...+..        .|++++|+.+|+++.+.++          .++..+...+...|++++|..
T Consensus       185 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~  264 (537)
T 3fp2_A          185 TSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQV  264 (537)
T ss_dssp             CCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            87655544   44444443332        2588999999999877332          256777788899999999999


Q ss_pred             HHHhcCC--CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC
Q 006246          252 LFNEMND--KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICV  329 (654)
Q Consensus       252 ~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  329 (654)
                      .|+++.+  |+...|..+...|...|++++|++.|+++.+.. +.+..++..+...+...|++++|...+..+.+.. +.
T Consensus       265 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~  342 (537)
T 3fp2_A          265 LLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PE  342 (537)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CC
Confidence            9999864  567789999999999999999999999998864 3456788888999999999999999999999876 34


Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC-----CCHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR-----PDRITFA  401 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-----p~~~t~~  401 (654)
                      +...+..+...|.+.|++++|.+.|+++..   .+...|..+...|...|++++|++.|+++.+....     .....+.
T Consensus       343 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  422 (537)
T 3fp2_A          343 NVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLI  422 (537)
T ss_dssp             CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHH
Confidence            567888999999999999999999998764   36778999999999999999999999998764311     1122244


Q ss_pred             HHHHHHHcc----------CCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          402 CVLSACAHA----------GMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       402 ~ll~~~~~~----------g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .....+...          |++++|...|+++.+.  .+.+...+..+..+|.+.|++++|.+.|++.
T Consensus       423 ~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  488 (537)
T 3fp2_A          423 GKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPRSEQAKIGLAQLKLQMEKIDEAIELFEDS  488 (537)
T ss_dssp             HHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            455667777          9999999999999884  2345678899999999999999999999987

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.83  E-value=7.6e-18  Score=171.96  Aligned_cols=295  Identities=14%  Similarity=0.067  Sum_probs=217.8

Q ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHh
Q 006246          200 ICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTK  273 (654)
Q Consensus       200 ~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  273 (654)
                      ..|..+...+.+.|++++|+..|+++.+   .+..++..+...+...|++++|...|+++.+   .+...|..+...|..
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   83 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLK   83 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHH
Confidence            3455555555666666666666665543   2345566666666666666666666666543   245667777777777


Q ss_pred             cCChHHHHHHHHHHHhCCCC--CCcchHHHH------------HHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          274 DGYYKEALEVFNEMQRDKIK--PRKFVLSCV------------LAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       274 ~g~~~~A~~~~~~m~~~g~~--p~~~t~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      .|++++|+..|+++.+....  .+...+..+            ...+...|++++|.+.+..+.+.. +.+..++..+..
T Consensus        84 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~  162 (359)
T 3ieg_A           84 QGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAE  162 (359)
T ss_dssp             HTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            77777777777777654210  122222222            466788889999999998888765 456778888999


Q ss_pred             HHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHH------------HHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFA------------CVL  404 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~------------~ll  404 (654)
                      .|.+.|++++|...|+++..   .+..+|..+...|...|++++|...|++..+.. +.+...+.            .+.
T Consensus       163 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a  241 (359)
T 3ieg_A          163 CFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESA  241 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999988765   367889999999999999999999999998753 22333332            235


Q ss_pred             HHHHccCCHHHHHHHHHHHHHHcCCCCCc-----chHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHH
Q 006246          405 SACAHAGMIDRGLQALTYMQQMYGIDPEV-----EHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRK  477 (654)
Q Consensus       405 ~~~~~~g~~~~a~~~~~~~~~~~g~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~  477 (654)
                      ..+.+.|++++|...++.+.+.   .|+.     ..+..+...+...|++++|.+.+++. ...| +..+|..+...+..
T Consensus       242 ~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (359)
T 3ieg_A          242 EELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLI  318 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            6688999999999999999875   3442     23556788999999999999999987 3334 78899999999999


Q ss_pred             hCChHHHHHHHHHHHhcCCCCC
Q 006246          478 HGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .|++++|...++++++++|++.
T Consensus       319 ~g~~~~A~~~~~~a~~~~p~~~  340 (359)
T 3ieg_A          319 EEMYDEAIQDYEAAQEHNENDQ  340 (359)
T ss_dssp             TTCHHHHHHHHHHHHTTCTTCH
T ss_pred             cCCHHHHHHHHHHHHhcCCCCh
Confidence            9999999999999999999986

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.82  E-value=3.9e-18  Score=172.51  Aligned_cols=366  Identities=14%  Similarity=0.133  Sum_probs=181.9

Q ss_pred             CCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHH
Q 006246           80 FSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHV  159 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  159 (654)
                      .|++++|.+.++++..|+  +|..|+.++.+.|++++|++.|.+.      +|..+|..++.++...|++++|...+...
T Consensus        16 ~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~a   87 (449)
T 1b89_A           16 IGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMA   87 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            888999999999997765  8999999999999999999999753      57889999999999999999999988877


Q ss_pred             HHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHH
Q 006246          160 VKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISG  239 (654)
Q Consensus       160 ~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~  239 (654)
                      .+.  .+++.+.+.++.+|.++|+++++.++++.   |+..+|+.+...|...|.+++|...|..+     ..|..++.+
T Consensus        88 rk~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~LA~~  157 (449)
T 1b89_A           88 RKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLAST  157 (449)
T ss_dssp             -----------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT-----TCHHHHHHH
T ss_pred             HHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHHHHH
Confidence            774  45678899999999999999999998874   67779999999999999999999999988     589999999


Q ss_pred             HHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHH
Q 006246          240 FARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIH  319 (654)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  319 (654)
                      +.+.|++++|.+.+.++  .++.+|..++.+|+..|+++.|......     +..++.-...++..|.+.|.++++..++
T Consensus       158 L~~Lg~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lL  230 (449)
T 1b89_A          158 LVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITML  230 (449)
T ss_dssp             HHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999999999999  3899999999999999999999655443     2233334557888999999999999999


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHHc--CCHHHHHHHHhhcCC--------CCHHHHHHHHHHHHHcCChhHHHHHHHHHh
Q 006246          320 DHVKRNSICVDAVLGTALVDMYAKC--GRLDMAWKVFEDMKM--------KEVFTWNAMIGGLAMHGRADDAIELFFKMQ  389 (654)
Q Consensus       320 ~~~~~~~~~~~~~~~~~li~~y~~~--g~~~~A~~~~~~m~~--------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  389 (654)
                      +...... +-...+|+-|.-+|+|-  +++.+.++.|..-..        .+...|..+.-.|.+.++++.|...   |.
T Consensus       231 e~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~  306 (449)
T 1b89_A          231 EAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MM  306 (449)
T ss_dssp             HHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HH
T ss_pred             HHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HH
Confidence            9988765 55677888888888864  467777777765443        2456799999999999999999874   44


Q ss_pred             hc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCC--------
Q 006246          390 RE-KMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMP--------  460 (654)
Q Consensus       390 ~~-g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~--------  460 (654)
                      +. ...-+...|--   ...+..+.+--.+...-....   .|  ...+.|+.++...=+...+..+|++.+        
T Consensus       307 ~h~~~a~~~~~f~~---~~~kv~n~elyYkai~fyl~~---~p--~~l~~ll~~l~~~ld~~r~v~~~~~~~~l~l~~~y  378 (449)
T 1b89_A          307 NHPTDAWKEGQFKD---IITKVANVELYYRAIQFYLEF---KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPY  378 (449)
T ss_dssp             HSTTTTCCHHHHHH---HHHHCSSTHHHHHHHHHHHHH---CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHH
T ss_pred             hCChhhhhhHHHHH---HHhchhHHHHHHHHHHHHHhc---CH--HHHHHHHHHHHhccCcHHHHHHHHHcCCcHHHHHH
Confidence            42 11223333333   334455544433333333322   23  335666666666666666666666653        


Q ss_pred             -----CCCCHHHHHHHHHHHHHhCChH
Q 006246          461 -----MEPNAAVWEALLGACRKHGEVE  482 (654)
Q Consensus       461 -----~~p~~~~~~~ll~~~~~~g~~~  482 (654)
                           ...+..+-.++-..|....|++
T Consensus       379 l~~v~~~n~~~vnealn~l~ieeed~~  405 (449)
T 1b89_A          379 LRSVQNHNNKSVNESLNNLFITEEDYQ  405 (449)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhhhhHH
Confidence                 2233444455555555555554

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.78  E-value=2e-16  Score=161.40  Aligned_cols=317  Identities=11%  Similarity=0.013  Sum_probs=204.5

Q ss_pred             cHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHH
Q 006246          135 TYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLK  211 (654)
Q Consensus       135 t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~  211 (654)
                      .+..+...+...|++++|...+..+++.. +.+...+..+...|...|++++|...|++.   .+.+...|..+...|.+
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   83 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLK   83 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHH
Confidence            34445555666666666766666666654 334555666666666666666666666553   33344555566666666


Q ss_pred             cCCHHHHHHHHHhcCCCCc------chHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHH
Q 006246          212 CGDIEGAKELFKSTKDKNT------GSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFN  285 (654)
Q Consensus       212 ~g~~~~A~~~~~~m~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  285 (654)
                      .|++++|...|++..+.++      ..+..+...+       .            ...+..+...+...|++++|++.|+
T Consensus        84 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~-------~------------~~~~~~~a~~~~~~~~~~~A~~~~~  144 (359)
T 3ieg_A           84 QGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKAD-------E------------MQRLRSQALDAFDGADYTAAITFLD  144 (359)
T ss_dssp             HTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHH-------H------------HHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHH-------H------------HHHHHHHHHHHHHccCHHHHHHHHH
Confidence            6666666666655544222      1111111000       0            0012223456677777777777777


Q ss_pred             HHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCH
Q 006246          286 EMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEV  362 (654)
Q Consensus       286 ~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~  362 (654)
                      ++.+.. +.+...+..+...+...|++++|...+..+.+.. +.+..++..+...|...|++++|...|++...   .+.
T Consensus       145 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  222 (359)
T 3ieg_A          145 KILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHK  222 (359)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccch
Confidence            776653 3345566666667777777777777777776654 34566677777777777777777777776653   233


Q ss_pred             HHHH------------HHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH-----HHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          363 FTWN------------AMIGGLAMHGRADDAIELFFKMQREKMRPDRI-----TFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       363 ~~~~------------~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-----t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ..|.            .+...+.+.|++++|+..|+++.+..  |+..     .+..+...+...|++++|...++...+
T Consensus       223 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  300 (359)
T 3ieg_A          223 RCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQ  300 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            3332            33667889999999999999998864  3322     344567788999999999999999987


Q ss_pred             HcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHH
Q 006246          426 MYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AAVWEALLGACRK  477 (654)
Q Consensus       426 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~  477 (654)
                      .  .+.+...+..+..+|.+.|++++|.+.++++ ...|+ ...+..+..+...
T Consensus       301 ~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          301 M--EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRL  352 (359)
T ss_dssp             H--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             h--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            4  2336778899999999999999999999987 45564 6667766665544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.77  E-value=3.1e-15  Score=160.05  Aligned_cols=336  Identities=8%  Similarity=-0.055  Sum_probs=248.7

Q ss_pred             cCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh----cCCHHHHHHHHhcC-CCCChhhHHHHHHHHHH----cCCHH
Q 006246          146 TEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC----FGCVNKARQILDDG-SKSDVICWNALIDGYLK----CGDIE  216 (654)
Q Consensus       146 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~~-~~~~~~~~~~li~~~~~----~g~~~  216 (654)
                      .++.++|...+....+.|   +...+..|..+|..    .++.++|.+.|++. ...++..+..|...|..    .++++
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~  132 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKA  132 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHH
Confidence            455555555555555532   34445555555555    55666666666553 22345555556666666    66777


Q ss_pred             HHHHHHHhcCC-CCcchHHHHHHHHHh----cCCHHHHHHHHHhcCC-CCHhHHHHHHHHHHh----cCChHHHHHHHHH
Q 006246          217 GAKELFKSTKD-KNTGSYNAMISGFAR----FGRFEEARKLFNEMND-KDEITWSAIIDGYTK----DGYYKEALEVFNE  286 (654)
Q Consensus       217 ~A~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~  286 (654)
                      +|+..|++..+ .+...+..|...|..    .++.++|.+.|++..+ .+...+..+...|..    .+++++|++.|++
T Consensus       133 ~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~  212 (490)
T 2xm6_A          133 ESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWYRK  212 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHH
Confidence            77777776654 345566777777766    6778888888877654 367778888888887    7888888888888


Q ss_pred             HHhCCCCCCcchHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH----cCCHHHHHHHHhhcC
Q 006246          287 MQRDKIKPRKFVLSCVLAACAS----LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK----CGRLDMAWKVFEDMK  358 (654)
Q Consensus       287 m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~m~  358 (654)
                      ..+.|   +...+..+...+..    .++.++|...+....+.+   +...+..|..+|..    .++.++|...|++..
T Consensus       213 a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~  286 (490)
T 2xm6_A          213 SATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSA  286 (490)
T ss_dssp             HHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHH
T ss_pred             HHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH
Confidence            88765   44566666666665    778888998888888765   45566778888887    889999999998877


Q ss_pred             CC-CHHHHHHHHHHHHHc-----CChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHHHcCC
Q 006246          359 MK-EVFTWNAMIGGLAMH-----GRADDAIELFFKMQREKMRPDRITFACVLSACAHAG---MIDRGLQALTYMQQMYGI  429 (654)
Q Consensus       359 ~~-~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g---~~~~a~~~~~~~~~~~g~  429 (654)
                      +. +...+..+...|...     ++.++|+.+|++..+.|   +...+..+...+...|   +.++|.++|++..+.   
T Consensus       287 ~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~---  360 (490)
T 2xm6_A          287 EQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK---  360 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT---
T ss_pred             HcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC---
Confidence            54 677888888888887     89999999999998875   4556667777777656   788999999999873   


Q ss_pred             CCCcchHHHHHHHHHH----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----hCChHHHHHHHHHHHhcCCC
Q 006246          430 DPEVEHYGCIVDLLGR----AGYLAEAEEVISSMPMEPNAAVWEALLGACRK----HGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       430 ~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~  497 (654)
                       .+...+..|..+|..    .+++++|.+.|++.-...++..+..|...|..    .++.++|...|+++++.+|+
T Consensus       361 -~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          361 -GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             -TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             -CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence             456788889999988    89999999999987333468888899999988    89999999999999998865

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.77  E-value=1.2e-15  Score=164.94  Aligned_cols=418  Identities=10%  Similarity=0.072  Sum_probs=290.7

Q ss_pred             HHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCCC--C-CcchHHHHHHHHHhCCCchHHHHHHHHhHhCCC
Q 006246           53 HAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHK--P-NVFVWNSVLRACLEHNEPWRVISLYSEMVGVDS  129 (654)
Q Consensus        53 ~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  129 (654)
                      ++..++.. +.+...|..++.. .+  .|+++.|+.+|+++..  | +...|..++..+.+.|++++|..+|++....  
T Consensus         2 le~al~~~-P~~~~~w~~l~~~-~~--~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--   75 (530)
T 2ooe_A            2 AEKKLEEN-PYDLDAWSILIRE-AQ--NQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--   75 (530)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHH-HH--SSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--
T ss_pred             hhhHhhhC-CCCHHHHHHHHHH-HH--hCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--
Confidence            34445544 3367789999984 67  8999999999999863  3 5567999999999999999999999999875  


Q ss_pred             CCCcccHHHHHHHH-hccCCcHHHHH----HHHHHHHh-CCCC-ChhhHHHHHHHHHh---------cCCHHHHHHHHhc
Q 006246          130 KPNKFTYPTVFKAC-SITEADKEGVQ----VHAHVVKN-GLCG-DVHVKSSGIQMYAC---------FGCVNKARQILDD  193 (654)
Q Consensus       130 ~p~~~t~~~ll~~~-~~~~~~~~a~~----~~~~~~~~-g~~~-~~~~~~~li~~y~~---------~g~~~~A~~~~~~  193 (654)
                      .|+...|...+... ...|+.+.|++    +++..++. |..+ +...|...+....+         .|+++.|+.+|++
T Consensus        76 ~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~  155 (530)
T 2ooe_A           76 VLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQR  155 (530)
T ss_dssp             CCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHH
Confidence            46766666555432 34577776665    77776654 5544 45677777776654         6778888888887


Q ss_pred             CCC-CC---hhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHh-------cC-----
Q 006246          194 GSK-SD---VICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNE-------MN-----  257 (654)
Q Consensus       194 ~~~-~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~-------~~-----  257 (654)
                      ... |+   ...|..........|. ..+..++.                 .+.++++.|..++..       +.     
T Consensus       156 al~~P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~  217 (530)
T 2ooe_A          156 GCVNPMINIEQLWRDYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPS  217 (530)
T ss_dssp             HTTSCCTTHHHHHHHHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCC
T ss_pred             HHhchhhhHHHHHHHHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhcccccc
Confidence            533 21   1223222211101110 11111111                 022345555554443       11     


Q ss_pred             -CCC--------HhHHHHHHHHHHhc----CCh----HHHHHHHHHHHhCCCCCCcchHHHHHHHHHh-------cCChh
Q 006246          258 -DKD--------EITWSAIIDGYTKD----GYY----KEALEVFNEMQRDKIKPRKFVLSCVLAACAS-------LGALD  313 (654)
Q Consensus       258 -~~~--------~~~~~~li~~~~~~----g~~----~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~-------~g~~~  313 (654)
                       .|+        ...|...+......    ++.    ++|..+|++..... +-+...|......+.+       .|+++
T Consensus       218 ~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~  296 (530)
T 2ooe_A          218 VPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMN  296 (530)
T ss_dssp             CCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCH
T ss_pred             CCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchh
Confidence             111        24566655443332    222    47788899888752 3355566666666664       68887


Q ss_pred             -------HHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C-CH-HHHHHHHHHHHHcCChhHHH
Q 006246          314 -------QGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K-EV-FTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       314 -------~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~-~~~~~li~~~~~~g~~~~A~  382 (654)
                             +|..+++.+++.-.+.+..++..++..+.+.|++++|.++|+++..  + +. ..|...+..+.+.|+.++|.
T Consensus       297 ~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~  376 (530)
T 2ooe_A          297 NAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGR  376 (530)
T ss_dssp             HHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHH
Confidence                   8999999998733355788999999999999999999999998764  3 33 58999999999999999999


Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHH-HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC--
Q 006246          383 ELFFKMQREKMRPDRITFACVLSA-CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM--  459 (654)
Q Consensus       383 ~l~~~m~~~g~~p~~~t~~~ll~~-~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m--  459 (654)
                      ++|++..+.. +.+...|...... +...|+.++|..+|+...+..  +.+...|..+++.+.+.|+.++|..+|++.  
T Consensus       377 ~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~  453 (530)
T 2ooe_A          377 MIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT  453 (530)
T ss_dssp             HHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHh
Confidence            9999998853 2233333332222 336899999999999998853  235678999999999999999999999987  


Q ss_pred             --CCCCC--HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          460 --PMEPN--AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       460 --~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                        +..|+  ...|...+.....+|+.+.+..+.+++.+..|++
T Consensus       454 ~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~~  496 (530)
T 2ooe_A          454 SGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  496 (530)
T ss_dssp             SCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHHH
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCchh
Confidence              23332  5689999999999999999999999999998854

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.76  E-value=3.2e-16  Score=157.99  Aligned_cols=259  Identities=12%  Similarity=0.032  Sum_probs=126.4

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHH
Q 006246          197 SDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDG  270 (654)
Q Consensus       197 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  270 (654)
                      .+...+..+...+...|++++|+.+|+++.+   .+...+..++..+...|++++|...|+++.+   .+...|..+...
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~   99 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCY   99 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHH
Confidence            3455556666666666666666666666543   2333444555555556666666665555542   234455555555


Q ss_pred             HHhcC-ChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHH
Q 006246          271 YTKDG-YYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDM  349 (654)
Q Consensus       271 ~~~~g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~  349 (654)
                      +...| ++++|.+.|++..... +.+...+..+...+...|++++|...+..+.+... .+...+..+...|...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhHHH
Confidence            55555 5566666665555432 22334444555555555555555555555554431 223333444555555555555


Q ss_pred             HHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC--------CCCCHHHHHHHHHHHHccCCHHHHHH
Q 006246          350 AWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREK--------MRPDRITFACVLSACAHAGMIDRGLQ  418 (654)
Q Consensus       350 A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g--------~~p~~~t~~~ll~~~~~~g~~~~a~~  418 (654)
                      |.+.|+++..   .+...|..+...|...|++++|+..|+++.+..        .+.+..++..+...+...|++++|..
T Consensus       178 A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  257 (330)
T 3hym_B          178 AERFFSQALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALD  257 (330)
T ss_dssp             HHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            5555554433   133444445555555555555555555444321        01122344444444444444444444


Q ss_pred             HHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          419 ALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       419 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .++++.+.  .+.+...+..+...|.+.|++++|.+.+++.
T Consensus       258 ~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  296 (330)
T 3hym_B          258 YHRQALVL--IPQNASTYSAIGYIHSLMGNFENAVDYFHTA  296 (330)
T ss_dssp             HHHHHHHH--STTCSHHHHHHHHHHHHHTCHHHHHHHHHTT
T ss_pred             HHHHHHhh--CccchHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            44444432  1122334444444444444444444444443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.76  E-value=7.7e-16  Score=155.14  Aligned_cols=269  Identities=10%  Similarity=-0.047  Sum_probs=221.5

Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHH
Q 006246          228 KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLA  304 (654)
Q Consensus       228 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  304 (654)
                      .+...+..+...+...|++++|.++|+++.+   .+...+..++..+...|++++|+.+++++.+.. +.+...+..+..
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            5677788888889999999999999998764   245667778888899999999999999988763 335667788888


Q ss_pred             HHHhcC-ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhH
Q 006246          305 ACASLG-ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADD  380 (654)
Q Consensus       305 ~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~  380 (654)
                      .+...| ++++|.+.+..+.+.. +.+...+..+...|...|++++|.+.|+++..   .+...|..+...|...|++++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~  177 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKL  177 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHH
Confidence            888999 8999999999988765 34577788899999999999999999988764   345778888899999999999


Q ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcC-------CCCCcchHHHHHHHHHHcCCHHHHH
Q 006246          381 AIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYG-------IDPEVEHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       381 A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g-------~~p~~~~~~~li~~~~~~g~~~~A~  453 (654)
                      |++.|+++.+.. +.+...+..+...+...|++++|...++.+.+...       .+.....+..+..+|.+.|++++|.
T Consensus       178 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  256 (330)
T 3hym_B          178 AERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEAL  256 (330)
T ss_dssp             HHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHH
Confidence            999999998864 33567888888899999999999999998887421       1334568889999999999999999


Q ss_pred             HHHHhC-C-CCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          454 EVISSM-P-MEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       454 ~~~~~m-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +.+++. . .+.+..+|..+...+...|++++|...++++++++|++.
T Consensus       257 ~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  304 (330)
T 3hym_B          257 DYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDT  304 (330)
T ss_dssp             HHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCH
T ss_pred             HHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCch
Confidence            999877 2 233678888999999999999999999999999999875

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.75  E-value=3.3e-15  Score=159.87  Aligned_cols=334  Identities=10%  Similarity=-0.007  Sum_probs=192.4

Q ss_pred             cCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHh----cCCHHHHHHHHhcC-CCCChhhHHHHHHHHHH----cCCHH
Q 006246          146 TEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYAC----FGCVNKARQILDDG-SKSDVICWNALIDGYLK----CGDIE  216 (654)
Q Consensus       146 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~~-~~~~~~~~~~li~~~~~----~g~~~  216 (654)
                      .++.++|...+....+.|   ++..+..|..+|..    .+++++|.+.|++. ...++..+..|...|..    .++.+
T Consensus        92 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~  168 (490)
T 2xm6_A           92 PQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYV  168 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHH
Confidence            344444444444444332   23333344444444    44444444444442 12234444444444444    45555


Q ss_pred             HHHHHHHhcCC-CCcchHHHHHHHHHh----cCCHHHHHHHHHhcCCC-CHhHHHHHHHHHHh----cCChHHHHHHHHH
Q 006246          217 GAKELFKSTKD-KNTGSYNAMISGFAR----FGRFEEARKLFNEMNDK-DEITWSAIIDGYTK----DGYYKEALEVFNE  286 (654)
Q Consensus       217 ~A~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~  286 (654)
                      +|+..|++..+ .+...+..|...|..    .++.++|.+.|++..+. +...+..+...|..    .+++++|+++|++
T Consensus       169 ~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~  248 (490)
T 2xm6_A          169 MAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQ  248 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            55555555433 344455555555555    56666666666655432 45556666666664    5666777777766


Q ss_pred             HHhCCCCCCcchHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHc-----CCHHHHHHHHhhc
Q 006246          287 MQRDKIKPRKFVLSCVLAACAS----LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKC-----GRLDMAWKVFEDM  357 (654)
Q Consensus       287 m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~-----g~~~~A~~~~~~m  357 (654)
                      ..+.|   +...+..+...+..    .++.++|...+..+.+.+   +...+..|..+|...     ++.++|...|++.
T Consensus       249 a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a  322 (490)
T 2xm6_A          249 SAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKS  322 (490)
T ss_dssp             HHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHH
T ss_pred             HHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHH
Confidence            66543   23344444445555    566777777777766554   344555666777666     6777777777766


Q ss_pred             CCC-CHHHHHHHHHHHHHcC---ChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHHcCC
Q 006246          358 KMK-EVFTWNAMIGGLAMHG---RADDAIELFFKMQREKMRPDRITFACVLSACAH----AGMIDRGLQALTYMQQMYGI  429 (654)
Q Consensus       358 ~~~-~~~~~~~li~~~~~~g---~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~g~  429 (654)
                      .+. +...+..+...|...|   +.++|+++|++..+.|   +...+..+...|..    .++.++|..+|++..+. + 
T Consensus       323 ~~~~~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~-~-  397 (490)
T 2xm6_A          323 AEQGDATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQ-G-  397 (490)
T ss_dssp             HHTTCHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T-
T ss_pred             HhcCCHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhC-C-
Confidence            543 5566777777776655   6777888888777754   55666667767766    67788888888877763 3 


Q ss_pred             CCCcchHHHHHHHHHH----cCCHHHHHHHHHhC-CCC---C-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          430 DPEVEHYGCIVDLLGR----AGYLAEAEEVISSM-PME---P-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       430 ~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m-~~~---p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                        +...+..|..+|.+    .+++++|.+.|++. ...   | +...+..+...+.  .+.+.+.+.+++.++..|+
T Consensus       398 --~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~--~~~~~a~~~a~~~~~~~~~  470 (490)
T 2xm6_A          398 --LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTA--KQLQQAELLSQQYIEKYAP  470 (490)
T ss_dssp             --CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCH--HHHHHHHHHHHHHHHHHCH
T ss_pred             --CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCH--hHHHHHHHHHHHHHHHHHH
Confidence              45567777777777    77888888888776 111   2 3344444433333  2345555556666554443

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.75  E-value=4.2e-17  Score=164.99  Aligned_cols=284  Identities=11%  Similarity=0.054  Sum_probs=117.1

Q ss_pred             ccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHh
Q 006246          145 ITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKS  224 (654)
Q Consensus       145 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  224 (654)
                      +.|++++|.+.++++      +++.+|..|+.++.+.|++++|++.|.+.  +|..+|..++.++...|++++|++.++.
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            345566666666655      22236666777777777777777776553  4555777777777777777777776655


Q ss_pred             cCC--CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHH
Q 006246          225 TKD--KNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCV  302 (654)
Q Consensus       225 m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  302 (654)
                      ..+  +++.+.+.++.+|.+.|+++++.++++   .|+..+|+.+...|...|++++|..+|..+         ..|..+
T Consensus        87 ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~L  154 (449)
T 1b89_A           87 ARKKARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRL  154 (449)
T ss_dssp             ----------------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TCHHHH
T ss_pred             HHHhCccchhHHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHH
Confidence            543  345667777777777777777776664   356667777777777777777777777765         367777


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHH
Q 006246          303 LAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       303 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      ..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|++++|+
T Consensus       155 A~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai  227 (449)
T 1b89_A          155 ASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEELI  227 (449)
T ss_dssp             HHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHHH
Confidence            77777777777777777766      256777777778888888888876666544 33333445777788888888888


Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHcc--CCHHHHHHHHHHHHHHcCCCC------CcchHHHHHHHHHHcCCHHHHHH
Q 006246          383 ELFFKMQREKMRPDRITFACVLSACAHA--GMIDRGLQALTYMQQMYGIDP------EVEHYGCIVDLLGRAGYLAEAEE  454 (654)
Q Consensus       383 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~--g~~~~a~~~~~~~~~~~g~~p------~~~~~~~li~~~~~~g~~~~A~~  454 (654)
                      .+++..+... +-....|+-+.-++++-  +++.+.++.|.   +...++|      +...|..++..|...|+++.|..
T Consensus       228 ~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~  303 (449)
T 1b89_A          228 TMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  303 (449)
T ss_dssp             HHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHH
Confidence            8888776543 22334555555555443  33444444333   2223444      46778888889999999998887


Q ss_pred             HHHhC
Q 006246          455 VISSM  459 (654)
Q Consensus       455 ~~~~m  459 (654)
                      ..-+-
T Consensus       304 tm~~h  308 (449)
T 1b89_A          304 TMMNH  308 (449)
T ss_dssp             HHHHS
T ss_pred             HHHhC
Confidence            66554

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.75  E-value=3.8e-14  Score=159.24  Aligned_cols=397  Identities=9%  Similarity=0.034  Sum_probs=283.2

Q ss_pred             hhhcCCCChHHHHHHHHHHHHhC--CCCchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCch
Q 006246           38 LNTKCHTSWQHLKQAHAVILKSG--HFQDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPW  115 (654)
Q Consensus        38 ~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~  115 (654)
                      +++...|.+.++.++++.++-.+  +..+...-+.|+.+..+...++..+...-++   .-+   ...+...+...|.++
T Consensus       993 Kaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd---~~d---~~eIA~Iai~lglyE 1066 (1630)
T 1xi4_A          993 KAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLD---NYD---APDIANIAISNELFE 1066 (1630)
T ss_pred             HHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhh---hcc---HHHHHHHHHhCCCHH
Confidence            56777888888998888887332  1234566677776666622333333333333   222   444667788899999


Q ss_pred             HHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCC
Q 006246          116 RVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGS  195 (654)
Q Consensus       116 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~  195 (654)
                      +|..+|++...     .....+.++.   ..+++++|.++.++.      .++.+|..+..++.+.|++++|.+.|.+. 
T Consensus      1067 EAf~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA- 1131 (1630)
T 1xi4_A         1067 EAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA- 1131 (1630)
T ss_pred             HHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc-
Confidence            99999988521     1112223322   567788888877754      44678889999999999999999999775 


Q ss_pred             CCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHh
Q 006246          196 KSDVICWNALIDGYLKCGDIEGAKELFKSTKD--KNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTK  273 (654)
Q Consensus       196 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  273 (654)
                       .|...|..++..+.+.|++++|++.|....+  +++...+.++.+|++.+++++.....   ..++...|..+...|..
T Consensus      1132 -dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~~~iGd~le~ 1207 (1630)
T 1xi4_A         1132 -DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQVGDRCYD 1207 (1630)
T ss_pred             -CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHHHHHHHHHHh
Confidence             6777888899999999999999999977654  44445556999999999988644443   45566777788899999


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHH
Q 006246          274 DGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKV  353 (654)
Q Consensus       274 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~  353 (654)
                      .|++++|..+|...         ..|..+...+.+.|+++.|.+.+++.      .+..+|..+..++...|++..|...
T Consensus      1208 eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~c 1272 (1630)
T 1xi4_A         1208 EKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMC 1272 (1630)
T ss_pred             cCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHH
Confidence            99999999999884         37888999999999999999998876      3567888888888889999999887


Q ss_pred             HhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHH--ccCCHHHHHHHHHHHHHHcCCCC
Q 006246          354 FEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACA--HAGMIDRGLQALTYMQQMYGIDP  431 (654)
Q Consensus       354 ~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~--~~g~~~~a~~~~~~~~~~~g~~p  431 (654)
                      ... ...+...+..++..|.+.|.+++|+.+++..+... +-....|.-+...++  +-+++.++.++|..-   -.++|
T Consensus      1273 gl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~r---ini~k 1347 (1630)
T 1xi4_A         1273 GLH-IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR---VNIPK 1347 (1630)
T ss_pred             HHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHh---cccch
Confidence            765 33455667788999999999999999998877543 222234544444444  445555666665532   23443


Q ss_pred             ------CcchHHHHHHHHHHcCCHHHHHHHHHhC--------------CCCCCHHHHHHHHHHHHHhC
Q 006246          432 ------EVEHYGCIVDLLGRAGYLAEAEEVISSM--------------PMEPNAAVWEALLGACRKHG  479 (654)
Q Consensus       432 ------~~~~~~~li~~~~~~g~~~~A~~~~~~m--------------~~~p~~~~~~~ll~~~~~~g  479 (654)
                            +...|..++..|.+.|+++.|...+-+-              ....|+..|.-.+.-|..+.
T Consensus      1348 ~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyykai~Fyl~~~ 1415 (1630)
T 1xi4_A         1348 VLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFK 1415 (1630)
T ss_pred             HhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHHHHHHHhhC
Confidence                  4667999999999999999998433222              12346777777777776555

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.74  E-value=1.5e-16  Score=163.19  Aligned_cols=291  Identities=13%  Similarity=0.042  Sum_probs=175.9

Q ss_pred             HHhcCCHHHHHH-HHhcCC---CC----ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCH
Q 006246          178 YACFGCVNKARQ-ILDDGS---KS----DVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRF  246 (654)
Q Consensus       178 y~~~g~~~~A~~-~~~~~~---~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~  246 (654)
                      |...|++++|.+ .|++..   +.    +...|..+...|.+.|++++|+..|+++.+   .+..++..+...|.+.|++
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCH
Confidence            444567777776 666531   11    345566777777777777777777776654   2445666667777777777


Q ss_pred             HHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcCChhHHHHHHHHH
Q 006246          247 EEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKF-VLSCVLAACASLGALDQGIWIHDHV  322 (654)
Q Consensus       247 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~  322 (654)
                      ++|...|+++.+   .+..+|..+...|...|++++|++.|+++....  |+.. .+..+...       ..       .
T Consensus       115 ~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~-------~~-------~  178 (368)
T 1fch_A          115 LLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEG-------AG-------G  178 (368)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC----------------------
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHH-------hh-------h
Confidence            777777776542   355666777777777777777777777766643  2221 11110000       00       0


Q ss_pred             HHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCH
Q 006246          323 KRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDR  397 (654)
Q Consensus       323 ~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  397 (654)
                          ..+ ...+..+...+ ..|++++|...|+++..  |   +..+|..+...|...|++++|+..|+++.+.. +.+.
T Consensus       179 ----~~~-~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~  251 (368)
T 1fch_A          179 ----AGL-GPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDY  251 (368)
T ss_dssp             ------------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             ----hcc-cHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCH
Confidence                000 00011122223 66777777777776653  2   35677777777777777777777777777652 2345


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC------------C
Q 006246          398 ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP------------N  464 (654)
Q Consensus       398 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p------------~  464 (654)
                      .++..+...+...|++++|...|+++.+.  .+.+...+..+..+|.+.|++++|.+.++++ ...|            .
T Consensus       252 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  329 (368)
T 1fch_A          252 LLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMS  329 (368)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchh
Confidence            67777777777888888888888877763  2334566777778888888888888877765 1111            2


Q ss_pred             HHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          465 AAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       465 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      ..+|..+..++...|+.++|..++++.++
T Consensus       330 ~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          330 ENIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             HHHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             hHHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            68899999999999999999888776554

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.73  E-value=2.5e-15  Score=148.63  Aligned_cols=261  Identities=13%  Similarity=0.043  Sum_probs=197.6

Q ss_pred             HHhcCCHHHHHHHHHhcCCCCH----hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHH
Q 006246          240 FARFGRFEEARKLFNEMNDKDE----ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQG  315 (654)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  315 (654)
                      ....|++..|+..++.....+.    .....+..+|...|++++|+..++.   . -+|+..++..+...+...++.+.|
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A   84 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAI   84 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHH
Confidence            3445777777777766654332    2344566777777777777765543   1 244556666777777777778888


Q ss_pred             HHHHHHHHHcCC-CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC
Q 006246          316 IWIHDHVKRNSI-CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR  394 (654)
Q Consensus       316 ~~~~~~~~~~~~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  394 (654)
                      .+.++.+...+. +.+..++..+...|...|++++|.+.|++  ..+...+..++..|.+.|+.++|.+.|+++.+..  
T Consensus        85 ~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--  160 (291)
T 3mkr_A           85 VAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--  160 (291)
T ss_dssp             HHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--
Confidence            888887777654 33566677788899999999999999998  5678899999999999999999999999999863  


Q ss_pred             CCHHHH---HHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHH
Q 006246          395 PDRITF---ACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWE  469 (654)
Q Consensus       395 p~~~t~---~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~  469 (654)
                      |+....   ..++..+...|++++|..+|+++.+.  .+.+...++.+..++.+.|++++|++.+++. ...| ++.+|.
T Consensus       161 p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~  238 (291)
T 3mkr_A          161 EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLI  238 (291)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            554321   12233444568999999999999985  4567788999999999999999999999986 3344 688999


Q ss_pred             HHHHHHHHhCChHH-HHHHHHHHHhcCCCCC---CchHHHHHHHH
Q 006246          470 ALLGACRKHGEVEF-GERLGKILLEMEPQNR---RCDDVAKMRKL  510 (654)
Q Consensus       470 ~ll~~~~~~g~~~~-a~~~~~~~~~~~p~~~---~~~~a~~~~~~  510 (654)
                      .++..+...|+.++ +.++++++++++|+++   ...+....|+.
T Consensus       239 ~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d~~~~~~~fd~  283 (291)
T 3mkr_A          239 NLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKEYRAKENDFDR  283 (291)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHH
Confidence            99999999999976 6789999999999997   33344444443

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.73  E-value=4.2e-16  Score=159.93  Aligned_cols=296  Identities=10%  Similarity=-0.007  Sum_probs=211.1

Q ss_pred             HHhccCCcHHHHH-HHHHHHHhCCC-C--ChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCC
Q 006246          142 ACSITEADKEGVQ-VHAHVVKNGLC-G--DVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGD  214 (654)
Q Consensus       142 ~~~~~~~~~~a~~-~~~~~~~~g~~-~--~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~  214 (654)
                      ++...+++++|.. .+...++.... |  +...+..+...|.+.|++++|...|+++   .+.+..+|..+...|.+.|+
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcC
Confidence            4566788888888 77766544221 1  3456788999999999999999999985   55678899999999999999


Q ss_pred             HHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006246          215 IEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMNDKD---EITWSAIIDGYTKDGYYKEALEVFNEMQ  288 (654)
Q Consensus       215 ~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~  288 (654)
                      +++|+..|+++.+   .+..++..+...|...|++++|...|+++...+   ...+..+...                 .
T Consensus       114 ~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~-----------------~  176 (368)
T 1fch_A          114 ELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEG-----------------A  176 (368)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC-----------------------
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHH-----------------h
Confidence            9999999998865   467789999999999999999999999876432   2222111000                 0


Q ss_pred             hCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-chhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHH
Q 006246          289 RDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICV-DAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFT  364 (654)
Q Consensus       289 ~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~  364 (654)
                      . ...+. ..+..+ ..+...|++++|...+..+.+..... +..++..+...|.+.|++++|...|+++..   .+..+
T Consensus       177 ~-~~~~~-~~~~~~-~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  253 (368)
T 1fch_A          177 G-GAGLG-PSKRIL-GSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLL  253 (368)
T ss_dssp             -----------CTT-HHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             h-hhccc-HHHHHH-HHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHH
Confidence            0 00011 111122 22236777777777777777764322 567788888888888888888888887654   36778


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCC---------CCcch
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGID---------PEVEH  435 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~---------p~~~~  435 (654)
                      |..+...|...|++++|+..|+++.+.. +.+...+..+...+.+.|++++|...|+++.+...-.         .....
T Consensus       254 ~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          254 WNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            8999999999999999999999988763 3356788889999999999999999999887642111         01568


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHh
Q 006246          436 YGCIVDLLGRAGYLAEAEEVISS  458 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~~~~  458 (654)
                      |..+..+|.+.|++++|..++++
T Consensus       333 ~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          333 WSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHHHHHhCChHhHHHhHHH
Confidence            99999999999999999988874

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.72  E-value=1.3e-13  Score=155.06  Aligned_cols=323  Identities=12%  Similarity=0.092  Sum_probs=150.4

Q ss_pred             HHHHHHHhccCCcHHHHHHHHHHHHhC--CCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCC
Q 006246          137 PTVFKACSITEADKEGVQVHAHVVKNG--LCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGD  214 (654)
Q Consensus       137 ~~ll~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~  214 (654)
                      +...+++...|.+.++.++++.++-.+  +..+....+.|+.+..+. +..+..++.++...-+   ...+...+...|.
T Consensus       989 s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai~lgl 1064 (1630)
T 1xi4_A          989 SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAISNEL 1064 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHHhCCC
Confidence            344555666666666666666666221  012233344444443333 2233333333322111   2223444444555


Q ss_pred             HHHHHHHHHhcCC-------------------------CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHH
Q 006246          215 IEGAKELFKSTKD-------------------------KNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIID  269 (654)
Q Consensus       215 ~~~A~~~~~~m~~-------------------------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~  269 (654)
                      +++|..+|++...                         .+..+|..+..++.+.|++++|.+.|.+.  .|...|..++.
T Consensus      1065 yEEAf~IYkKa~~~~~A~~VLie~i~nldrAiE~Aervn~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~eVa~ 1142 (1630)
T 1xi4_A         1065 FEEAFAIFRKFDVNTSAVQVLIEHIGNLDRAYEFAERCNEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQ 1142 (1630)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhHHHHHHHHHhcCCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHHHHHH
Confidence            5555555554421                         23444555555555555555555555443  34444555555


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHH
Q 006246          270 GYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDM  349 (654)
Q Consensus       270 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~  349 (654)
                      .+.+.|++++|++.|...++..  ++....+.+..+|++.++++....+.    +   .++...+..+.+.|...|++++
T Consensus      1143 ~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~Yee 1213 (1630)
T 1xi4_A         1143 AANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDA 1213 (1630)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHH
Confidence            5555555555555555444432  22222223555555555554322221    1   2233334445555555555555


Q ss_pred             HHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCC
Q 006246          350 AWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGI  429 (654)
Q Consensus       350 A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~  429 (654)
                      |..+|...     ..|..+...|.+.|++++|++.+++.      .+..+|..+-.+|...|++..|......      +
T Consensus      1214 A~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~------I 1276 (1630)
T 1xi4_A         1214 AKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH------I 1276 (1630)
T ss_pred             HHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh------h
Confidence            55555553     25555555555555555555555544      1335555555555555555555443322      1


Q ss_pred             CCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHh--CChHHHHHHHHHH
Q 006246          430 DPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKH--GEVEFGERLGKIL  491 (654)
Q Consensus       430 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~--g~~~~a~~~~~~~  491 (654)
                      ..+...+..++..|.+.|.+++|+.+++.. +.+| ....|.-|...+.+.  ++..++.++|..-
T Consensus      1277 iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~r 1342 (1630)
T 1xi4_A         1277 VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSR 1342 (1630)
T ss_pred             hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            223344555555666666666666666544 2222 233444444444433  2333444444433

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.71  E-value=2.3e-14  Score=154.90  Aligned_cols=406  Identities=8%  Similarity=0.013  Sum_probs=226.6

Q ss_pred             CcchHHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC--CCCcchHHHH
Q 006246           27 SEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH--KPNVFVWNSV  104 (654)
Q Consensus        27 ~~~t~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~--~~~~~~~~~l  104 (654)
                      |...+..++.   ....|+++.++.++.++++.- +.+...|..++..+.+  .|++++|+.+|++..  .|++..|...
T Consensus        12 ~~~~w~~l~~---~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~--~~~~~~a~~~~~ral~~~p~~~lw~~~   85 (530)
T 2ooe_A           12 DLDAWSILIR---EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIK--AKNYDKVEKLFQRCLMKVLHIDLWKCY   85 (530)
T ss_dssp             CHHHHHHHHH---HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTCCCHHHHHHH
T ss_pred             CHHHHHHHHH---HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHhcCCChHHHHHH
Confidence            3344555543   355789999999999999864 4467889999999999  999999999999987  4777788887


Q ss_pred             HHH-HHhCCCchHHHH----HHHHhHh-CCCCCCc-ccHHHHHHHHhc---------cCCcHHHHHHHHHHHHhCCCCCh
Q 006246          105 LRA-CLEHNEPWRVIS----LYSEMVG-VDSKPNK-FTYPTVFKACSI---------TEADKEGVQVHAHVVKNGLCGDV  168 (654)
Q Consensus       105 i~~-~~~~g~~~~A~~----~~~~m~~-~g~~p~~-~t~~~ll~~~~~---------~~~~~~a~~~~~~~~~~g~~~~~  168 (654)
                      +.. ....|+.++|.+    +|++... .|..|+. ..|...+.....         .|+++.|+.+++..++.......
T Consensus        86 ~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~  165 (530)
T 2ooe_A           86 LSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIE  165 (530)
T ss_dssp             HHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHH
T ss_pred             HHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHH
Confidence            753 345688887766    7777654 3555543 455555554433         67899999999999873111112


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHh------cCC-------CC------
Q 006246          169 HVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKS------TKD-------KN------  229 (654)
Q Consensus       169 ~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~------m~~-------~~------  229 (654)
                      ..|..........|. ..+..++..                 +.++++.|..++..      ..+       |+      
T Consensus       166 ~~~~~~~~~e~~~~~-~~~~~~l~~-----------------~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~  227 (530)
T 2ooe_A          166 QLWRDYNKYEEGINI-HLAKKMIED-----------------RSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEA  227 (530)
T ss_dssp             HHHHHHHHHHHHHCH-HHHHHHHHT-----------------THHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHH
T ss_pred             HHHHHHHHHHHhhch-hHHHHHHHH-----------------hhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHH
Confidence            333333322111110 001111100                 11223333333322      000       11      


Q ss_pred             --cchHHHHHHHHHhc----CCH----HHHHHHHHhcCC---CCHhHHHHHHHHHHh-------cCChH-------HHHH
Q 006246          230 --TGSYNAMISGFARF----GRF----EEARKLFNEMND---KDEITWSAIIDGYTK-------DGYYK-------EALE  282 (654)
Q Consensus       230 --~~~~~~li~~~~~~----g~~----~~A~~~~~~~~~---~~~~~~~~li~~~~~-------~g~~~-------~A~~  282 (654)
                        ...|...+......    ++.    +.|..+|++...   .+...|..++..+.+       .|+++       +|..
T Consensus       228 ~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~  307 (530)
T 2ooe_A          228 QQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN  307 (530)
T ss_dssp             HHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHH
Confidence              11222222211111    111    244445554442   245556655555554       46654       6666


Q ss_pred             HHHHHHhCCCCC-CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc-hhHHHHHHHHHHHcCCHHHHHHHHhhcCCC
Q 006246          283 VFNEMQRDKIKP-RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD-AVLGTALVDMYAKCGRLDMAWKVFEDMKMK  360 (654)
Q Consensus       283 ~~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~m~~~  360 (654)
                      +|++..+. +.| +...+..++..+.+.|++++|..+|+.+++... .+ ..+|..++..+.+.|++++|+++|++..+.
T Consensus       308 ~~~~Al~~-~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~  385 (530)
T 2ooe_A          308 IYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIED-IDPTLVYIQYMKFARRAEGIKSGRMIFKKARED  385 (530)
T ss_dssp             HHHHHTTT-TCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSS-SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccc-cCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            66666542 123 344455555556666666666666666665421 12 235666666666666677777777665542


Q ss_pred             ---CHHHHHHHHH-HHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC--cc
Q 006246          361 ---EVFTWNAMIG-GLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE--VE  434 (654)
Q Consensus       361 ---~~~~~~~li~-~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~--~~  434 (654)
                         +...|...+. .+...|+.++|..+|++.++.. +-+...+..++..+.+.|+.++|..+|++........|+  ..
T Consensus       386 ~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~  464 (530)
T 2ooe_A          386 ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGE  464 (530)
T ss_dssp             TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHH
T ss_pred             cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHH
Confidence               1112211111 1234677777777777766642 224556666666666777777777777777663222222  22


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          435 HYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       435 ~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .|...+....+.|+.+.+..+.+++
T Consensus       465 lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          465 IWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             HHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5666666666677777777666655

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.71  E-value=4.4e-16  Score=159.76  Aligned_cols=226  Identities=14%  Similarity=0.076  Sum_probs=123.4

Q ss_pred             CChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHH
Q 006246          197 SDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDG  270 (654)
Q Consensus       197 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~  270 (654)
                      .+...|..+...+.+.|++++|+..|+++.+   .+..+|..+...|.+.|++++|...|+++.+   .+..+|..+...
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            3555677888888888888888888887764   3556777777777777888888777777653   356677777778


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCC-c----------chHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC-chhHHHHHH
Q 006246          271 YTKDGYYKEALEVFNEMQRDKIKPR-K----------FVLSCVLAACASLGALDQGIWIHDHVKRNSICV-DAVLGTALV  338 (654)
Q Consensus       271 ~~~~g~~~~A~~~~~~m~~~g~~p~-~----------~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li  338 (654)
                      |...|++++|+..|+++.+..  |+ .          ..+..+...+...|++++|...+..+.+..... +..++..+.
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            888888888888887776642  21 1          111222344445555555555555555443211 344444444


Q ss_pred             HHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHH
Q 006246          339 DMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDR  415 (654)
Q Consensus       339 ~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  415 (654)
                      ..|.+.|++++|.+.|+++..   .+..+|+.+...|...|++++|+..|+++.+.. +.+..++..+..+|...|++++
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            455555555555544444332   233444444444444444444444444444431 1123344444444444444444


Q ss_pred             HHHHHHHHHH
Q 006246          416 GLQALTYMQQ  425 (654)
Q Consensus       416 a~~~~~~~~~  425 (654)
                      |...|+++.+
T Consensus       300 A~~~~~~al~  309 (365)
T 4eqf_A          300 AVSNFLTALS  309 (365)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444433

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.71  E-value=2e-16  Score=162.41  Aligned_cols=259  Identities=9%  Similarity=-0.032  Sum_probs=207.0

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 006246          229 NTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA  305 (654)
Q Consensus       229 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  305 (654)
                      +...+..+...+.+.|++++|...|+++.+   .+..+|..+...|.+.|++++|+..|+++.+.. +.+..++..+..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            455689999999999999999999998864   467889999999999999999999999998864 3456788889999


Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCC---------chhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C---CHHHHHHHHHH
Q 006246          306 CASLGALDQGIWIHDHVKRNSICV---------DAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K---EVFTWNAMIGG  371 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~~~---------~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~---~~~~~~~li~~  371 (654)
                      +...|++++|...+..+.+.....         ...++..+...|.+.|++++|.+.|+++..  |   +..+|..+...
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  222 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVL  222 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHH
Confidence            999999999999999998754211         122334468889999999999999998864  2   67889999999


Q ss_pred             HHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHH
Q 006246          372 LAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAE  451 (654)
Q Consensus       372 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  451 (654)
                      |...|++++|++.|+++.+.. +.+..++..+..++...|++++|...|+++.+.  .+.+...+..+..+|.+.|++++
T Consensus       223 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          223 FHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEI--QPGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHH
Confidence            999999999999999998863 346778999999999999999999999999874  23347788899999999999999


Q ss_pred             HHHHHHhC-CCCC-------------CHHHHHHHHHHHHHhCChHHHHHHHHHH
Q 006246          452 AEEVISSM-PMEP-------------NAAVWEALLGACRKHGEVEFGERLGKIL  491 (654)
Q Consensus       452 A~~~~~~m-~~~p-------------~~~~~~~ll~~~~~~g~~~~a~~~~~~~  491 (654)
                      |.+.++++ ...|             +..+|..+..++...|+.+.+..+.++.
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            99999876 1111             3678999999999999999888776653

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.67  E-value=1.3e-15  Score=153.33  Aligned_cols=272  Identities=12%  Similarity=-0.033  Sum_probs=162.1

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHH
Q 006246          198 DVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGY  271 (654)
Q Consensus       198 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  271 (654)
                      +...|..+...+...|++++|+.+|+++.+   .+...+..+...+.+.|++++|...|+++.+   .+...|..+...|
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   99 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSH   99 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHH
Confidence            455667777778888888888888877654   3455667777777777777777777776653   2556677777777


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHH-HH-HHHHcCCHHH
Q 006246          272 TKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTAL-VD-MYAKCGRLDM  349 (654)
Q Consensus       272 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~-~y~~~g~~~~  349 (654)
                      ...|++++|++.|+++..... .+...+..+...+                      ++......+ .. .+...|++++
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~  156 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQP-QYEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEYRE  156 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTST-TTTTC------------------------------------------CCTTSHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccHHH
Confidence            777777777777777776531 1222222220000                      000000011 11 2444555566


Q ss_pred             HHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHH
Q 006246          350 AWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQM  426 (654)
Q Consensus       350 A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  426 (654)
                      |.+.|+++..   .+...|..+...|...|++++|++.++++.+.. +.+..++..+...+...|++++|...++++.+.
T Consensus       157 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  235 (327)
T 3cv0_A          157 CRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDI  235 (327)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6666555442   245566666666666666666666666666542 224556666666666666777777666666653


Q ss_pred             cCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-------------CHHHHHHHHHHHHHhCChHHHHHHHHHHH
Q 006246          427 YGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-------------NAAVWEALLGACRKHGEVEFGERLGKILL  492 (654)
Q Consensus       427 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-------------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  492 (654)
                        .+.+...+..+...|.+.|++++|.+.++++ ...|             +..+|..+..++...|+.++|..++++++
T Consensus       236 --~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          236 --NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             --CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence              1223455666666777777777777766655 1112             35677777777888888888877777665


Q ss_pred             hcC
Q 006246          493 EME  495 (654)
Q Consensus       493 ~~~  495 (654)
                      +..
T Consensus       314 ~~~  316 (327)
T 3cv0_A          314 EPF  316 (327)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            543

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.67  E-value=1.1e-14  Score=146.46  Aligned_cols=269  Identities=11%  Similarity=-0.040  Sum_probs=200.4

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHH
Q 006246          167 DVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGF  240 (654)
Q Consensus       167 ~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~  240 (654)
                      +...+..+...+...|++++|..+|+++   .+.+...|..+...+.+.|++++|...|+++.+   .+..++..+...|
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   99 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSH   99 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHH
Confidence            3445677888999999999999999986   456788999999999999999999999998865   3667889999999


Q ss_pred             HhcCCHHHHHHHHHhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHH--HHHhcCChhHH
Q 006246          241 ARFGRFEEARKLFNEMNDK---DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLA--ACASLGALDQG  315 (654)
Q Consensus       241 ~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~--~~~~~g~~~~a  315 (654)
                      ...|++++|.+.|+++.+.   +...+..+...                      .|+......+..  .+...|++++|
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~~A  157 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQPQYEQLGSVNLQA----------------------DVDIDDLNVQSEDFFFAAPNEYREC  157 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTTTC------------------------------------------CCTTSHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHH----------------------HHHHHHHHHHHHhHHHHHcccHHHH
Confidence            9999999999999987643   22223222110                      111111112212  24556667777


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC
Q 006246          316 IWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREK  392 (654)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  392 (654)
                      ...+..+.+.. +.+..++..+...|.+.|++++|.+.|+++..   .+..+|..+...|...|++++|+..|+++.+..
T Consensus       158 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  236 (327)
T 3cv0_A          158 RTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN  236 (327)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            77777776654 33567777788888888888888888887653   356788888999999999999999999988763


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC----------CcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          393 MRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP----------EVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       393 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p----------~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                       +.+..++..+...+...|++++|.+.++++.+...-..          +...|..+..+|.+.|++++|.+++++.
T Consensus       237 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          237 -PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             -CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence             33567888888899999999999999998887421100          3567888999999999999999998865

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.66  E-value=8.2e-17  Score=175.25  Aligned_cols=131  Identities=16%  Similarity=0.201  Sum_probs=113.2

Q ss_pred             CCchhHHHHHHHHHHHcCCHHHHHHHHhhcC-------CCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHH
Q 006246          328 CVDAVLGTALVDMYAKCGRLDMAWKVFEDMK-------MKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITF  400 (654)
Q Consensus       328 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~-------~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~  400 (654)
                      ..-..+||+||++|+++|++++|.++|++|.       .||++|||+||.+|++.|+.++|.++|++|.+.|+.||.+||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            3446789999999999999999999997764       479999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHccCC-HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          401 ACVLSACAHAGM-IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       401 ~~ll~~~~~~g~-~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      +++|.++++.|+ .++|.++|++|.+. |+.||..+|++++....|.+-++...++...+
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            999999999997 57899999999996 99999999999998887775555554443333

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.65  E-value=1.5e-14  Score=143.06  Aligned_cols=239  Identities=9%  Similarity=-0.006  Sum_probs=146.3

Q ss_pred             ccCCcHHHHHHHHHHHHhCCCCCh--hhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHH
Q 006246          145 ITEADKEGVQVHAHVVKNGLCGDV--HVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELF  222 (654)
Q Consensus       145 ~~~~~~~a~~~~~~~~~~g~~~~~--~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  222 (654)
                      ..|+.+.|....+....  ..|+.  .....+...|...|+++.|...++...+++..++..+...+...|+.++|++.+
T Consensus        11 ~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l   88 (291)
T 3mkr_A           11 YIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAEL   88 (291)
T ss_dssp             HTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHH
Confidence            34555555544443322  12221  233445667777777777777776665556667777777777777788888877


Q ss_pred             HhcCC----C-CcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcc
Q 006246          223 KSTKD----K-NTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKF  297 (654)
Q Consensus       223 ~~m~~----~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  297 (654)
                      +++..    | +...+..+...|.+.|++++|.+.|++  ..+...+..++..|.+.|++++|.+.|+++.+..  |+..
T Consensus        89 ~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~  164 (291)
T 3mkr_A           89 DREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDAT  164 (291)
T ss_dssp             HHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCH
T ss_pred             HHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcH
Confidence            77642    3 344566666777778888888887777  4466677777788888888888888888877653  4432


Q ss_pred             hHHHHH----HHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHH
Q 006246          298 VLSCVL----AACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIG  370 (654)
Q Consensus       298 t~~~ll----~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~  370 (654)
                       ...+.    ..+...|++++|..+++++.+.. +.+..+++.+..+|.+.|++++|.+.|++...   .+..+|..++.
T Consensus       165 -~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~  242 (291)
T 3mkr_A          165 -LTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVV  242 (291)
T ss_dssp             -HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence             22222    22233466666666666666652 44556666666666666666666666665443   24555666666


Q ss_pred             HHHHcCChhH-HHHHHHHHhhc
Q 006246          371 GLAMHGRADD-AIELFFKMQRE  391 (654)
Q Consensus       371 ~~~~~g~~~~-A~~l~~~m~~~  391 (654)
                      .+...|+.++ +.++++++.+.
T Consensus       243 ~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          243 LSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCHHHHHHHHHHHHHh
Confidence            6666666544 34566665553

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.65  E-value=2.6e-14  Score=152.04  Aligned_cols=373  Identities=7%  Similarity=-0.068  Sum_probs=218.4

Q ss_pred             CcchHHHHHHHHHhCCCchHHHHHHHHhHhC-----C--CCC-CcccHHHHHHHHhccCCcHHHHHHHHHHHHhCC----
Q 006246           97 NVFVWNSVLRACLEHNEPWRVISLYSEMVGV-----D--SKP-NKFTYPTVFKACSITEADKEGVQVHAHVVKNGL----  164 (654)
Q Consensus        97 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g--~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~----  164 (654)
                      .+..||.|...+...|++++|++.|++..+.     +  ..| ...+|..+..++...|++++|...++++++...    
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            3557899999999999999999999987541     1  123 235777888888899999999998888775411    


Q ss_pred             --CC-ChhhHHHHHHHHHh--cCCHHHHHHHHhcC---CCCChhhHHHHHHH---HHHcCCHHHHHHHHHhcCC---CCc
Q 006246          165 --CG-DVHVKSSGIQMYAC--FGCVNKARQILDDG---SKSDVICWNALIDG---YLKCGDIEGAKELFKSTKD---KNT  230 (654)
Q Consensus       165 --~~-~~~~~~~li~~y~~--~g~~~~A~~~~~~~---~~~~~~~~~~li~~---~~~~g~~~~A~~~~~~m~~---~~~  230 (654)
                        .+ ...++..+..++..  .+++++|.+.|++.   .+.++..+..+...   +...++.++|+..|++..+   .+.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~  209 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQ  209 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCH
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcch
Confidence              11 22344444444444  34688888888874   44455555555544   3345666777777776543   234


Q ss_pred             chHHHHHHHHHh----cCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-cchHHHH
Q 006246          231 GSYNAMISGFAR----FGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPR-KFVLSCV  302 (654)
Q Consensus       231 ~~~~~li~~~~~----~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~l  302 (654)
                      .++..+...+..    .|++++|.+.+++...   .+...+..+...|...|++++|++.|++..+.  .|+ ..++..+
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l  287 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHCQI  287 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHHHH
Confidence            455555544444    3456677777776542   35667777777788888888888888777765  333 3334433


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChh
Q 006246          303 LAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRAD  379 (654)
Q Consensus       303 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  379 (654)
                      ..++...+..         .....       ...........+..+.|...|++...   .+..+|..+...|...|+++
T Consensus       288 g~~y~~~~~~---------~~~~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~  351 (472)
T 4g1t_A          288 GCCYRAKVFQ---------VMNLR-------ENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYE  351 (472)
T ss_dssp             HHHHHHHHHH---------HHHC-------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHH---------hhhHH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHH
Confidence            3333211100         00000       00011111112345677777776553   35567888999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCHH--HHHHHHH-HHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHH
Q 006246          380 DAIELFFKMQREKMRPDRI--TFACVLS-ACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVI  456 (654)
Q Consensus       380 ~A~~l~~~m~~~g~~p~~~--t~~~ll~-~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  456 (654)
                      +|++.|++.++....|...  .+..+.. ...+.|+.++|+..|.+..+   +.|+.......         ...+.+++
T Consensus       352 ~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~---------~~~l~~~~  419 (472)
T 4g1t_A          352 EAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKM---------KDKLQKIA  419 (472)
T ss_dssp             HHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHH---------HHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHH---------HHHHHHHH
Confidence            9999999998865443322  2222222 34578999999999998876   45664332222         23333444


Q ss_pred             HhC-C-CCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          457 SSM-P-MEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       457 ~~m-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ++. . .+.++.+|..|+..|...|++++|+..|+++++++|.++
T Consensus       420 ~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p  464 (472)
T 4g1t_A          420 KMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIP  464 (472)
T ss_dssp             HHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC
Confidence            433 1 234678999999999999999999999999999888764

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.62  E-value=3.9e-16  Score=170.03  Aligned_cols=147  Identities=14%  Similarity=0.124  Sum_probs=118.2

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhcC-------CCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHH
Q 006246          230 TGSYNAMISGFARFGRFEEARKLFNEMN-------DKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCV  302 (654)
Q Consensus       230 ~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  302 (654)
                      ..|||+||++|++.|++++|.++|++|.       .||+++||+||.+|++.|++++|.++|++|.+.|+.||.+||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            3478888888888888888888887653       579999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCh-hHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----CHHHHHHHHHHHHHcC
Q 006246          303 LAACASLGAL-DQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----EVFTWNAMIGGLAMHG  376 (654)
Q Consensus       303 l~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----~~~~~~~li~~~~~~g  376 (654)
                      |.++++.|+. +.|.+++++|.+.|+.||..+|++++..+.+.+-++...+++..+..+     .+.+.+.|...|.+.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCC
Confidence            9999999985 788999999999999999999999998887765555555554444321     1233344455555444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=1.1e-13  Score=133.82  Aligned_cols=224  Identities=12%  Similarity=-0.028  Sum_probs=176.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC--c----hhHHH
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICV--D----AVLGT  335 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--~----~~~~~  335 (654)
                      ..|..+...+...|++++|+..|++..+..  .+...+..+..++...|++++|...+..+.+.....  +    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            456777778888888888888888887766  667777788888888888888888888877643211  1    57778


Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHH
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDR  415 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  415 (654)
                      .+...|.+.|++++|...|+++...+..     ...+...|++++|+..++++.... +.+...+..+...+...|++++
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~~~-----~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  157 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEHRT-----ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPN  157 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCch-----hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHH
Confidence            8888888999999999888877652111     234666788899999999988752 2244577788888899999999


Q ss_pred             HHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          416 GLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       416 a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      |...++++.+.  .+.+...+..+...|.+.|++++|++.+++. .. +.+..+|..+...+...|++++|...++++++
T Consensus       158 A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          158 AVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999874  2345678888999999999999999999887 22 33588899999999999999999999999999


Q ss_pred             cC
Q 006246          494 ME  495 (654)
Q Consensus       494 ~~  495 (654)
                      +.
T Consensus       236 ~~  237 (258)
T 3uq3_A          236 KD  237 (258)
T ss_dssp             HH
T ss_pred             hC
Confidence            88

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.56  E-value=3.1e-12  Score=135.87  Aligned_cols=309  Identities=12%  Similarity=0.003  Sum_probs=159.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhcC------------CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHH
Q 006246          168 VHVKSSGIQMYACFGCVNKARQILDDG------------SKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNA  235 (654)
Q Consensus       168 ~~~~~~li~~y~~~g~~~~A~~~~~~~------------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  235 (654)
                      ...||.|...|...|++++|++.|++.            .+...++|+.+...|...|++++|...+++..+        
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~--------  122 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKH--------  122 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH--------
Confidence            445666666666667766666666442            122345566666666666666666666544321        


Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCCC----CHhHHHHHHHHHHhc--CChHHHHHHHHHHHhCCCCCCc-chHHHHHHH---
Q 006246          236 MISGFARFGRFEEARKLFNEMNDK----DEITWSAIIDGYTKD--GYYKEALEVFNEMQRDKIKPRK-FVLSCVLAA---  305 (654)
Q Consensus       236 li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~---  305 (654)
                                      +......+    ...+++.+..++...  +++++|++.|++..+.  .|+. ..+..+..+   
T Consensus       123 ----------------i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~  184 (472)
T 4g1t_A          123 ----------------VCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYR  184 (472)
T ss_dssp             ----------------HHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHH
T ss_pred             ----------------HhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence                            11111111    122333333333322  2345555555555443  2222 122222212   


Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH----cCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCCh
Q 006246          306 CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK----CGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRA  378 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~  378 (654)
                      +...++.++|.+.+..+++.. +.+..++..+...+..    .|+.++|.+.+++...   .+..+|..+...|...|++
T Consensus       185 l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~  263 (472)
T 4g1t_A          185 LDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEP  263 (472)
T ss_dssp             HHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCH
T ss_pred             hcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCch
Confidence            223344445555555544443 2233333333333332    2344455555554332   2444555555555555555


Q ss_pred             hHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHc-------------------cCCHHHHHHHHHHHHHHcCCCCCcchHHH
Q 006246          379 DDAIELFFKMQREKMRP-DRITFACVLSACAH-------------------AGMIDRGLQALTYMQQMYGIDPEVEHYGC  438 (654)
Q Consensus       379 ~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~-------------------~g~~~~a~~~~~~~~~~~g~~p~~~~~~~  438 (654)
                      ++|++.|++..+.  .| +..++..+...+..                   .+..++|...++...+.  -+.+...+..
T Consensus       264 ~~A~~~~~~al~~--~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~  339 (472)
T 4g1t_A          264 DKAIELLKKALEY--IPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEA--NDNLFRVCSI  339 (472)
T ss_dssp             HHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHH--CTTTCCCHHH
T ss_pred             HHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhc--CCchhhhhhh
Confidence            5555555555543  22 22233333322211                   22356788888887763  2345677888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCCCHHH----HHHHHH-HHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHH
Q 006246          439 IVDLLGRAGYLAEAEEVISSM-PMEPNAAV----WEALLG-ACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKM  507 (654)
Q Consensus       439 li~~~~~~g~~~~A~~~~~~m-~~~p~~~~----~~~ll~-~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~  507 (654)
                      +...|.+.|++++|++.|++. ...|+...    +..+.. .....|+.++|+..|++++++.|++..+......
T Consensus       340 lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~  414 (472)
T 4g1t_A          340 LASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDK  414 (472)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHH
Confidence            999999999999999999876 33444322    333333 2346789999999999999999988644444333

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.54  E-value=6.2e-13  Score=129.88  Aligned_cols=230  Identities=13%  Similarity=0.028  Sum_probs=128.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc--hhHHHHHHHHHHH
Q 006246          266 AIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD--AVLGTALVDMYAK  343 (654)
Q Consensus       266 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~y~~  343 (654)
                      .....+...|++++|+..|++..+.. +.+...+..+..++...|++++|...+..+.+....++  ...+..+...|.+
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~   86 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMK   86 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHH
Confidence            33444455555555555555554432 11223444444455555555555555555544221111  1224555555566


Q ss_pred             cCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 006246          344 CGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQAL  420 (654)
Q Consensus       344 ~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  420 (654)
                      .|++++|.+.|++...   .+..+|..+...|...|++++|++.|++..+.. +.+...+..+...+...+++++|.+.|
T Consensus        87 ~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           87 KGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666555443   244556666666666666666666666665541 223334444442333344666666666


Q ss_pred             HHHHHHcCCCCCcchHHHHHHHHHHcCC---HHHHHHHHHhC----CCCCC------HHHHHHHHHHHHHhCChHHHHHH
Q 006246          421 TYMQQMYGIDPEVEHYGCIVDLLGRAGY---LAEAEEVISSM----PMEPN------AAVWEALLGACRKHGEVEFGERL  487 (654)
Q Consensus       421 ~~~~~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m----~~~p~------~~~~~~ll~~~~~~g~~~~a~~~  487 (654)
                      +.+.+.  .+.+...+..+..++...|+   +++|...+++.    ...|+      ..+|..+...|...|++++|...
T Consensus       166 ~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  243 (272)
T 3u4t_A          166 VKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAA  243 (272)
T ss_dssp             HHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            666653  12224455555666666665   55555555544    11122      35778889999999999999999


Q ss_pred             HHHHHhcCCCCC
Q 006246          488 GKILLEMEPQNR  499 (654)
Q Consensus       488 ~~~~~~~~p~~~  499 (654)
                      ++++++++|++.
T Consensus       244 ~~~al~~~p~~~  255 (272)
T 3u4t_A          244 WKNILALDPTNK  255 (272)
T ss_dssp             HHHHHHHCTTCH
T ss_pred             HHHHHhcCccHH
Confidence            999999999984

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.53  E-value=9.3e-13  Score=138.84  Aligned_cols=242  Identities=10%  Similarity=0.064  Sum_probs=120.8

Q ss_pred             hhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCCh---HHHHHHHhcCCCCCcchHHHHHHHHHhCC---
Q 006246           39 NTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNF---ELALKVFNSVHKPNVFVWNSVLRACLEHN---  112 (654)
Q Consensus        39 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~---~~A~~~f~~~~~~~~~~~~~li~~~~~~g---  112 (654)
                      .....|+++.|.+++..+.+.|   ++..+..|-.+|..  .|+.   ++|...|++..+.+..++..|...+...+   
T Consensus        12 ~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~--~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~   86 (452)
T 3e4b_A           12 EALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVG--TRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGAT   86 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC------------------------------CHHHHHHHHHTC--CC
T ss_pred             HHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHc--cCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCC
Confidence            3445789999999999999887   34455667777777  7888   89999999888667778888887666655   


Q ss_pred             --CchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCc---HHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCC----
Q 006246          113 --EPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEAD---KEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGC----  183 (654)
Q Consensus       113 --~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~----  183 (654)
                        ++++|+..|++..+.|.   ...+..+-..+...+..   ..+.+.+......|   ++.....|..+|...+.    
T Consensus        87 ~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~  160 (452)
T 3e4b_A           87 EAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQH  160 (452)
T ss_dssp             HHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGG
T ss_pred             CcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccC
Confidence              67899999999988663   23555555555544432   33444444444444   34556666777766663    


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHHcC---CHHHHHHHHHhcCCC---CcchHHHHHHHHHhc----CCHHHHHHHH
Q 006246          184 VNKARQILDDGSKSDVICWNALIDGYLKCG---DIEGAKELFKSTKDK---NTGSYNAMISGFARF----GRFEEARKLF  253 (654)
Q Consensus       184 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~----g~~~~A~~~~  253 (654)
                      .+.+..+++.....++..+..|...|.+.|   +.++|+..|++..+.   +...+..|..+|...    +++++|...|
T Consensus       161 ~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~  240 (452)
T 3e4b_A          161 LDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALL  240 (452)
T ss_dssp             HHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHH
Confidence            333444444444445556666666666666   555555555554332   112223444444332    3455555555


Q ss_pred             HhcCCCCHhHHHHHHHH-H--HhcCChHHHHHHHHHHHhCC
Q 006246          254 NEMNDKDEITWSAIIDG-Y--TKDGYYKEALEVFNEMQRDK  291 (654)
Q Consensus       254 ~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~g  291 (654)
                      ++....+...+..+... |  ...+++++|++.|++..+.|
T Consensus       241 ~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g  281 (452)
T 3e4b_A          241 EKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD  281 (452)
T ss_dssp             HHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT
T ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC
Confidence            54441133344444443 2  23444455555554444433

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.51  E-value=7.8e-12  Score=122.27  Aligned_cols=226  Identities=11%  Similarity=-0.073  Sum_probs=179.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCchhHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACAS----LGALDQGIWIHDHVKRNSICVDAVLGT  335 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~  335 (654)
                      +..++..+...|...|++++|++.|++..+.+   +...+..+...+..    .+++++|...+....+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            45566677777777788888888887777632   34556666667777    788888888888877765   566777


Q ss_pred             HHHHHHHH----cCCHHHHHHHHhhcCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 006246          336 ALVDMYAK----CGRLDMAWKVFEDMKM-KEVFTWNAMIGGLAM----HGRADDAIELFFKMQREKMRPDRITFACVLSA  406 (654)
Q Consensus       336 ~li~~y~~----~g~~~~A~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  406 (654)
                      .+..+|..    .+++++|.+.|++... .+..++..+...|..    .+++++|++.|++..+.+   +...+..+...
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            78888888    8888888888887765 367788888888888    899999999999998865   55667777777


Q ss_pred             HHc----cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHH----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-
Q 006246          407 CAH----AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGR----AGYLAEAEEVISSMPMEPNAAVWEALLGACRK-  477 (654)
Q Consensus       407 ~~~----~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~-  477 (654)
                      +..    .+++++|...|++..+.    .+...+..+..+|..    .+++++|++.+++.-...+...+..+...|.. 
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNG  231 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcC
Confidence            877    89999999999998873    245678888899999    99999999999887222347788889999998 


Q ss_pred             ---hCChHHHHHHHHHHHhcCCCC
Q 006246          478 ---HGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       478 ---~g~~~~a~~~~~~~~~~~p~~  498 (654)
                         .+++++|...++++++++|++
T Consensus       232 ~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             CCcccCHHHHHHHHHHHHHcCCHH
Confidence               999999999999999998864

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.49  E-value=5.1e-12  Score=121.81  Aligned_cols=167  Identities=12%  Similarity=0.045  Sum_probs=122.9

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHHH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLSA  406 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~  406 (654)
                      ..++..+...|.+.|++++|.+.|+++..   .+...|..+...|...|++++|+++|+++.+.+..| +...+..+...
T Consensus        71 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~  150 (252)
T 2ho1_A           71 ADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLV  150 (252)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHH
Confidence            44555556666666666666666665442   255667777777777888888888888877633344 34567777778


Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHHH
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEFG  484 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~a  484 (654)
                      +...|++++|.++++++.+.  .+.+...+..+...|.+.|++++|.+.++++ .. +.+...|..+...+...|+.++|
T Consensus       151 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A  228 (252)
T 2ho1_A          151 SLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTA  228 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHH
Confidence            88888888888888888764  2334667788888888999999999888876 32 34677888888899999999999


Q ss_pred             HHHHHHHHhcCCCCC
Q 006246          485 ERLGKILLEMEPQNR  499 (654)
Q Consensus       485 ~~~~~~~~~~~p~~~  499 (654)
                      .+.++++++..|++.
T Consensus       229 ~~~~~~~~~~~p~~~  243 (252)
T 2ho1_A          229 ASYGLQLKRLYPGSL  243 (252)
T ss_dssp             HHHHHHHHHHCTTSH
T ss_pred             HHHHHHHHHHCCCCH
Confidence            999999999999874

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.49  E-value=2.2e-12  Score=135.91  Aligned_cols=331  Identities=9%  Similarity=0.017  Sum_probs=169.7

Q ss_pred             CCChHHHHHHHhcCCC-CCcchHHHHHHHHHhCCCc---hHHHHHHHHhHhCCCCCCcccHHHHHHHHhccC-----CcH
Q 006246           80 FSNFELALKVFNSVHK-PNVFVWNSVLRACLEHNEP---WRVISLYSEMVGVDSKPNKFTYPTVFKACSITE-----ADK  150 (654)
Q Consensus        80 ~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~-----~~~  150 (654)
                      .|++++|.+.|++..+ .+..++..|...|...|+.   ++|+..|++..+.    +...+..+-..+...+     +.+
T Consensus        16 ~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~~~~~~~~   91 (452)
T 3e4b_A           16 RGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPGATEAEHH   91 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCTGGGTCC--------------------------------CHHHHHHHHHTC--CCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCCCCCcCHH
Confidence            4566666666655442 2344444454555555555   5666666555532    2333333333222222     445


Q ss_pred             HHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CC
Q 006246          151 EGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD-KN  229 (654)
Q Consensus       151 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~  229 (654)
                      +|...+....+.|.   ...+..|..+|...+..+.+                            .++...+..... .+
T Consensus        92 ~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~----------------------------~~a~~~~~~a~~~g~  140 (452)
T 3e4b_A           92 EAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPN----------------------------VNAQQQISQWQAAGY  140 (452)
T ss_dssp             HHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTT----------------------------CCHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCC----------------------------HHHHHHHHHHHHCCC
Confidence            55555555555432   12444444444433322111                            112222222221 23


Q ss_pred             cchHHHHHHHHHhcC----CHHHHHHHHHhcCCCCHhHHHHHHHHHHhcC---ChHHHHHHHHHHHhCCCCCCcchHHHH
Q 006246          230 TGSYNAMISGFARFG----RFEEARKLFNEMNDKDEITWSAIIDGYTKDG---YYKEALEVFNEMQRDKIKPRKFVLSCV  302 (654)
Q Consensus       230 ~~~~~~li~~~~~~g----~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~~t~~~l  302 (654)
                      ...+..|...|...+    ..+.+..+++.....+...+..+...|...|   +.++|++.|++..+.| .++...+..+
T Consensus       141 ~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~L  219 (452)
T 3e4b_A          141 PEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSV  219 (452)
T ss_dssp             TTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHH
Confidence            445555555555555    3444555566666656667777777777777   7777777777777765 3344433445


Q ss_pred             HHHHHhc----CChhHHHHHHHHHHHcCCCCchhHHHHHHHH-H--HHcCCHHHHHHHHhhcCCC-CHHHHHHHHHHHHH
Q 006246          303 LAACASL----GALDQGIWIHDHVKRNSICVDAVLGTALVDM-Y--AKCGRLDMAWKVFEDMKMK-EVFTWNAMIGGLAM  374 (654)
Q Consensus       303 l~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-y--~~~g~~~~A~~~~~~m~~~-~~~~~~~li~~~~~  374 (654)
                      ...|...    ++.++|...|....    +.++..+..|..+ |  ...+++++|.+.|++..+. +..++..|...|. 
T Consensus       220 g~~y~~g~~~~~d~~~A~~~~~~aa----~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~-  294 (452)
T 3e4b_A          220 ARVLGDATLGTPDEKTAQALLEKIA----PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAADQPRAELLLGKLYY-  294 (452)
T ss_dssp             HHHHTCGGGSSCCHHHHHHHHHHHG----GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-
T ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-
Confidence            5555443    56777777777766    2345556666666 3  3567777777777766543 5666666666666 


Q ss_pred             cC-----ChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHH
Q 006246          375 HG-----RADDAIELFFKMQREKMRPDRITFACVLSACAH----AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGR  445 (654)
Q Consensus       375 ~g-----~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~  445 (654)
                      .|     +.++|+++|++.. .|   +......|...|..    ..+.++|..+|++..+. |   +......|..+|..
T Consensus       295 ~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~~  366 (452)
T 3e4b_A          295 EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN-G---QNSADFAIAQLFSQ  366 (452)
T ss_dssp             HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT-T---CTTHHHHHHHHHHS
T ss_pred             cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh-C---hHHHHHHHHHHHHh
Confidence            44     7777777777766 33   44555555555554    23777777777777652 3   34455566666653


Q ss_pred             ----cCCHHHHHHHHHhC
Q 006246          446 ----AGYLAEAEEVISSM  459 (654)
Q Consensus       446 ----~g~~~~A~~~~~~m  459 (654)
                          ..+.++|...|+..
T Consensus       367 G~g~~~d~~~A~~~~~~A  384 (452)
T 3e4b_A          367 GKGTKPDPLNAYVFSQLA  384 (452)
T ss_dssp             CTTBCCCHHHHHHHHHHH
T ss_pred             CCCCCCCHHHHHHHHHHH
Confidence                34677777777665

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.48  E-value=3.2e-12  Score=124.83  Aligned_cols=220  Identities=13%  Similarity=-0.032  Sum_probs=168.0

Q ss_pred             cCChHHHHHHHHHHHhCCCCC---CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHH
Q 006246          274 DGYYKEALEVFNEMQRDKIKP---RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMA  350 (654)
Q Consensus       274 ~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A  350 (654)
                      .|++++|++.|+++.+.....   +..++..+...+...|++++|...+..+.+.. +.+..++..+...|...|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            466777777777777653211   34456666777777788888888887777764 34577788888888888888888


Q ss_pred             HHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHc
Q 006246          351 WKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMY  427 (654)
Q Consensus       351 ~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~  427 (654)
                      .+.|+++..   .+..+|..+...|...|++++|+..|+++.+.  .|+.......+..+...|++++|...++..... 
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-  173 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK-  173 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            888887764   36778889999999999999999999999885  455555555556667779999999999888774 


Q ss_pred             CCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-----HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          428 GIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-----AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       428 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                       .+++... ..++..+...++.++|.+.+++. ...|+     ..+|..+...+...|++++|...++++++++|++.
T Consensus       174 -~~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  249 (275)
T 1xnf_A          174 -SDKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  249 (275)
T ss_dssp             -SCCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             -CCcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhH
Confidence             2344433 44777788888899999999876 22232     57888999999999999999999999999999864

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.48  E-value=6.4e-12  Score=122.59  Aligned_cols=244  Identities=10%  Similarity=0.001  Sum_probs=184.2

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCc--chHHHHHHH
Q 006246          231 GSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRK--FVLSCVLAA  305 (654)
Q Consensus       231 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~  305 (654)
                      ..+......+.+.|++++|...|++..+   .+...|..+...|...|++++|++.|++....+..|+.  ..|..+...
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            3445566677777888888888877653   24557888888999999999999999998874322222  237778888


Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHH
Q 006246          306 CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      +...|++++|...+..+.+.. +.+..++..+...|.+.|++++|.+.|++...   .+...|..+...+...+++++|+
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999988875 34667888999999999999999999999876   36678888883444456999999


Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHccCC---HHHHHHHHHHHHHHcCCCCCc------chHHHHHHHHHHcCCHHHHH
Q 006246          383 ELFFKMQREKMRPDRITFACVLSACAHAGM---IDRGLQALTYMQQMYGIDPEV------EHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       383 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~---~~~a~~~~~~~~~~~g~~p~~------~~~~~li~~~~~~g~~~~A~  453 (654)
                      +.|+++.+.. +.+...+..+...+...|+   .++|...++++.+...-.|+.      ..|..+...|.+.|++++|.
T Consensus       163 ~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          163 SSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999998863 2346677778888888888   888999999888754334542      57888999999999999999


Q ss_pred             HHHHhC-CCCC-CHHHHHHHHHHHH
Q 006246          454 EVISSM-PMEP-NAAVWEALLGACR  476 (654)
Q Consensus       454 ~~~~~m-~~~p-~~~~~~~ll~~~~  476 (654)
                      +.+++. ...| +...+..+.....
T Consensus       242 ~~~~~al~~~p~~~~a~~~l~~~~~  266 (272)
T 3u4t_A          242 AAWKNILALDPTNKKAIDGLKMKLE  266 (272)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHC----
T ss_pred             HHHHHHHhcCccHHHHHHHhhhhhc
Confidence            999987 3344 5666655544433

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.48  E-value=1.7e-12  Score=132.78  Aligned_cols=245  Identities=10%  Similarity=0.042  Sum_probs=179.1

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC-hhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGA-LDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      ...|+.+...+.+.|++++|++.|++.+... +-+...|..+..++...|+ +++|+..++.+++.. +.+..+|+.+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            3456667777777777777777777777653 2244566666677777775 777777777777765 346677777888


Q ss_pred             HHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc-cCCHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAH-AGMIDR  415 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~-~g~~~~  415 (654)
                      +|.+.|++++|+..|+++..   .+...|..+..++.+.|++++|+..|+++++... -+...|+.+..++.. .|..++
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchH
Confidence            88888888888888887764   4677888888888888888888888888888642 256678888888877 555466


Q ss_pred             H-----HHHHHHHHHHcCCCCC-cchHHHHHHHHHHcC--CHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHhC-------
Q 006246          416 G-----LQALTYMQQMYGIDPE-VEHYGCIVDLLGRAG--YLAEAEEVISSMPMEP-NAAVWEALLGACRKHG-------  479 (654)
Q Consensus       416 a-----~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~p-~~~~~~~ll~~~~~~g-------  479 (654)
                      |     +..+++..+.   .|+ ...|..+..+|...|  ++++|++.++++...| +...+..++..|...|       
T Consensus       254 A~~~~el~~~~~Al~l---~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKL---VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            6     4777777763   444 567788888888887  6888888888775444 5778888888888874       


Q ss_pred             --ChHHHHHHHHHH-HhcCCCCC-CchHHHHHHHHH
Q 006246          480 --EVEFGERLGKIL-LEMEPQNR-RCDDVAKMRKLM  511 (654)
Q Consensus       480 --~~~~a~~~~~~~-~~~~p~~~-~~~~a~~~~~~m  511 (654)
                        .+++|+.+++++ ++++|... .|..-...+..+
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence              258899999999 89999876 565555544444

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.48  E-value=1.7e-12  Score=122.24  Aligned_cols=191  Identities=14%  Similarity=0.030  Sum_probs=85.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      ..|..+...+.+.|++++|+..|++..+.. +.+...+..+..++.+.|++++|...++.+++.. +.+...+..+...|
T Consensus         6 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~   83 (217)
T 2pl2_A            6 QNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAY   83 (217)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            344455555555555555555555555432 2233344444444555555555555555554443 22344444455555


Q ss_pred             HHc-----------CCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 006246          342 AKC-----------GRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSAC  407 (654)
Q Consensus       342 ~~~-----------g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  407 (654)
                      .+.           |++++|...|++..+   .+...|..+...|...|++++|+..|++..+..  .+...+..+..++
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~  161 (217)
T 2pl2_A           84 VALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELY  161 (217)
T ss_dssp             HHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH
T ss_pred             HHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHH
Confidence            444           555555555544432   234445555555555555555555555555443  3444445555555


Q ss_pred             HccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHh
Q 006246          408 AHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISS  458 (654)
Q Consensus       408 ~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  458 (654)
                      ...|++++|+..|++..+.  -+.+...+..+..++.+.|++++|++.+++
T Consensus       162 ~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          162 LSMGRLDEALAQYAKALEQ--APKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTC-------------
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            5555555555555555442  112233444444445555555555544443

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.47  E-value=1.8e-10  Score=125.70  Aligned_cols=425  Identities=10%  Similarity=0.052  Sum_probs=283.2

Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC---CCCcchHHHHHHHHHhCCC---chHHHHHHHH
Q 006246           50 KQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH---KPNVFVWNSVLRACLEHNE---PWRVISLYSE  123 (654)
Q Consensus        50 ~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~---~~~A~~~~~~  123 (654)
                      ...+...+... +.|...|..++..+.+  .+.++.|+.+|+++.   ......|...+..-.+.|+   ++.+..+|++
T Consensus        52 i~~lE~~l~~n-p~d~~~W~~yi~~~~~--~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeR  128 (679)
T 4e6h_A           52 IGKLNDMIEEQ-PTDIFLYVKLLKHHVS--LKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLAR  128 (679)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHC-cCCHHHHHHHHHHHHh--cCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHH
Confidence            33455555555 3588999999999988  899999999999987   3455678888888888888   9999999999


Q ss_pred             hHhCC-CCCCcccHHHHHHHHhccCCc--------HHHHHHHHHHHHh-CC-CCC-hhhHHHHHHHHHh---------cC
Q 006246          124 MVGVD-SKPNKFTYPTVFKACSITEAD--------KEGVQVHAHVVKN-GL-CGD-VHVKSSGIQMYAC---------FG  182 (654)
Q Consensus       124 m~~~g-~~p~~~t~~~ll~~~~~~~~~--------~~a~~~~~~~~~~-g~-~~~-~~~~~~li~~y~~---------~g  182 (654)
                      ..... ..|+...|..-+.-..+.++.        +..+++|+.++.. |. .++ ...|...+.....         .+
T Consensus       129 al~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~  208 (679)
T 4e6h_A          129 CLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQ  208 (679)
T ss_dssp             HTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHh
Confidence            98753 136776776666554444433        3445788877653 66 554 4677777766542         34


Q ss_pred             CHHHHHHHHhcCCCC---Ch-hhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhc--
Q 006246          183 CVNKARQILDDGSKS---DV-ICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEM--  256 (654)
Q Consensus       183 ~~~~A~~~~~~~~~~---~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--  256 (654)
                      +++.++++|++...-   +. ..|.....---..+. ..+.+++.+                 ...+++.|...+.++  
T Consensus       209 ~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e-----------------~~~~y~~Ar~~~~e~~~  270 (679)
T 4e6h_A          209 RVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGE-----------------LSAQYMNARSLYQDWLN  270 (679)
T ss_dssp             HHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH-----------------HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHH-----------------hhHHHHHHHHHHHHHHH
Confidence            567788888875332   11 222221111000010 011111111                 011222233333221  


Q ss_pred             -----CC--------------C--------CHhHHHHHHHHHHhcC-------ChHHHHHHHHHHHhCCCCCCcchHHHH
Q 006246          257 -----ND--------------K--------DEITWSAIIDGYTKDG-------YYKEALEVFNEMQRDKIKPRKFVLSCV  302 (654)
Q Consensus       257 -----~~--------------~--------~~~~~~~li~~~~~~g-------~~~~A~~~~~~m~~~g~~p~~~t~~~l  302 (654)
                           ..              |        ....|...+.---.++       ..+.+..+|++.+..- +-+...|...
T Consensus       271 ~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~y  349 (679)
T 4e6h_A          271 ITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNM  349 (679)
T ss_dssp             HTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHH
T ss_pred             HHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHH
Confidence                 00              0        0234555555433332       1234566788887652 3355666667


Q ss_pred             HHHHHhcCChhHHH-HHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-------------C--------
Q 006246          303 LAACASLGALDQGI-WIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-------------K--------  360 (654)
Q Consensus       303 l~~~~~~g~~~~a~-~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-------------~--------  360 (654)
                      ..-+...|+.+.|. ++++.+.... +.+...+-.++....+.|+++.|.++|+++..             |        
T Consensus       350 a~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~  428 (679)
T 4e6h_A          350 ANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQ  428 (679)
T ss_dssp             HHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhh
Confidence            77777889999996 9999998753 55677788889999999999999999998764             2        


Q ss_pred             ----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHHHHHHcCCCCCcch
Q 006246          361 ----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHA-GMIDRGLQALTYMQQMYGIDPEVEH  435 (654)
Q Consensus       361 ----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~-g~~~~a~~~~~~~~~~~g~~p~~~~  435 (654)
                          ....|-..+....+.|..+.|..+|.++.+.-..+....|...+..-.+. ++.+.|..+|+...+.+  +-+...
T Consensus       429 ~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~  506 (679)
T 4e6h_A          429 LKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEY  506 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHH
T ss_pred             hccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHH
Confidence                12368888888888899999999999998751112233443333323333 45999999999999864  334556


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC----CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          436 YGCIVDLLGRAGYLAEAEEVISSM-PMEP----NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +...++.....|+.+.|..+|++. ...|    ....|...+.--.++|+.+.+..+.+++.+..|++.
T Consensus       507 w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          507 INKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc
Confidence            778889889999999999999987 2223    367899999999999999999999999999999976

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.45  E-value=3.3e-12  Score=120.23  Aligned_cols=194  Identities=13%  Similarity=0.049  Sum_probs=143.9

Q ss_pred             CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHH
Q 006246          293 KPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMI  369 (654)
Q Consensus       293 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li  369 (654)
                      +++...+..+...+.+.|++++|...++.+++.. +.+...+..+...|.+.|++++|...|++...   .+...|..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            4566677778888888999999999998888765 45677888888888999999999998887764   3667888888


Q ss_pred             HHHHHc-----------CChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHH
Q 006246          370 GGLAMH-----------GRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGC  438 (654)
Q Consensus       370 ~~~~~~-----------g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~  438 (654)
                      ..|...           |++++|+..|++..+.. +-+...+..+...+...|++++|+..|++..+. .  .+...+..
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~~~~~~  156 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cchHHHHH
Confidence            888888           88999999998888753 224567778888888889999999999988875 4  66778888


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHH
Q 006246          439 IVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKIL  491 (654)
Q Consensus       439 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~  491 (654)
                      +..+|...|++++|++.|++. ...| +...+..+...+...|++++|+..++++
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            888888999999999888876 2334 5778888888888889888888887765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.45  E-value=5.7e-12  Score=121.61  Aligned_cols=188  Identities=13%  Similarity=0.034  Sum_probs=108.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCC--CCCC----cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDK--IKPR----KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVL  333 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  333 (654)
                      +...|..+...|...|++++|++.|++..+..  ..|+    ...+..+...+...|++++|...+..+.+..  |+   
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~---  111 (258)
T 3uq3_A           37 DITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RT---  111 (258)
T ss_dssp             CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CC---
T ss_pred             cHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--ch---
Confidence            34444555555555555555555555544321  0111    2344444555555555555555555555432  11   


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHcc
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHA  410 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  410 (654)
                          ...+.+.|++++|...++++...   +...|..+...+...|++++|+..|+++.+.. +.+..++..+...+...
T Consensus       112 ----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  186 (258)
T 3uq3_A          112 ----ADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKL  186 (258)
T ss_dssp             ----HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             ----hHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh
Confidence                12344556666666666665432   34556666777777777777777777776653 23456666777777777


Q ss_pred             CCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          411 GMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       411 g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      |++++|...++.+.+.  .+.+...|..+...|.+.|++++|.+.+++.
T Consensus       187 ~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  233 (258)
T 3uq3_A          187 MSFPEAIADCNKAIEK--DPNFVRAYIRKATAQIAVKEYASALETLDAA  233 (258)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            7777777777777663  1233556667777777777777777777665

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.44  E-value=2.6e-12  Score=122.94  Aligned_cols=190  Identities=11%  Similarity=0.063  Sum_probs=127.3

Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHH
Q 006246          306 CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      +...|++++|...+..+.+.. +.+..++..+...|.+.|++++|.+.|+++..   .+...|..+...|...|++++|+
T Consensus        33 ~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  111 (243)
T 2q7f_A           33 GSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAK  111 (243)
T ss_dssp             ---------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHH
Confidence            333344444444444333322 22344455555556666666666666655442   35566777777777777777888


Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-C-
Q 006246          383 ELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-P-  460 (654)
Q Consensus       383 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-  460 (654)
                      +.|+++.+.. +.+...+..+...+...|++++|..+++++.+.  .+.+...+..+...+.+.|++++|.+.++++ . 
T Consensus       112 ~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  188 (243)
T 2q7f_A          112 DMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQ  188 (243)
T ss_dssp             HHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7777777653 335666777777788888888888888887763  2335667778888888888888888888876 2 


Q ss_pred             CCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          461 MEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       461 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+.+..+|..+...+...|++++|...++++++++|++.
T Consensus       189 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~  227 (243)
T 2q7f_A          189 DPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHM  227 (243)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCH
T ss_pred             CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchH
Confidence            234678899999999999999999999999999999874

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.44  E-value=1.5e-11  Score=115.96  Aligned_cols=201  Identities=13%  Similarity=0.025  Sum_probs=132.6

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      ...|..+...+...|++++|++.|+++.+..                                    +.+..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~------------------------------------~~~~~~~~~l~~~   51 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD------------------------------------PKNELAWLVRAEI   51 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC------------------------------------TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC------------------------------------ccchHHHHHHHHH
Confidence            4455555666666666666666666655432                                    1223344455555


Q ss_pred             HHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHc-CChhHHHHHHHHHhhcCCCCC-HHHHHHHHHHHHccCCHHH
Q 006246          341 YAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMH-GRADDAIELFFKMQREKMRPD-RITFACVLSACAHAGMIDR  415 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~  415 (654)
                      |...|++++|.+.|+++..   .+..+|..+...|... |++++|+..|+++.+.+..|+ ...+..+...+...|++++
T Consensus        52 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  131 (225)
T 2vq2_A           52 YQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGL  131 (225)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHH
Confidence            5555566666555555432   2455666677777777 777777777777776322333 4566677777777888888


Q ss_pred             HHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-C-CC-CCHHHHHHHHHHHHHhCChHHHHHHHHHHH
Q 006246          416 GLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-P-ME-PNAAVWEALLGACRKHGEVEFGERLGKILL  492 (654)
Q Consensus       416 a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  492 (654)
                      |...++.+.+.  .+.+...+..+...+.+.|++++|.+.++++ . .+ .+...|..+...+...|+.+.|...++.+.
T Consensus       132 A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  209 (225)
T 2vq2_A          132 AEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQ  209 (225)
T ss_dssp             HHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            88888777763  2233566777778888888888888888776 2 22 456777777778888888998888888888


Q ss_pred             hcCCCCC
Q 006246          493 EMEPQNR  499 (654)
Q Consensus       493 ~~~p~~~  499 (654)
                      +..|+++
T Consensus       210 ~~~p~~~  216 (225)
T 2vq2_A          210 ANFPYSE  216 (225)
T ss_dssp             HHCTTCH
T ss_pred             HhCCCCH
Confidence            8888864

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.43  E-value=2.1e-11  Score=117.44  Aligned_cols=194  Identities=9%  Similarity=-0.074  Sum_probs=146.5

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      ...|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.+..+.+.. +.+..++..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            4566777777778888888888888777653 3345566677777778888888888888777764 3356777778888


Q ss_pred             HHHcCCHHHHHHHHhhcCC----C-CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHH
Q 006246          341 YAKCGRLDMAWKVFEDMKM----K-EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDR  415 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~----~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  415 (654)
                      |...|++++|.+.|+++..    + +...|..+...|...|++++|++.|+++.+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            8888888888888887765    2 45677788888888888888888888887753 2356677788888888888888


Q ss_pred             HHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          416 GLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       416 a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      |..+++.+.+  ..+.+...+..+...+.+.|++++|.+.++++
T Consensus       194 A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~  235 (252)
T 2ho1_A          194 ARQYYDLFAQ--GGGQNARSLLLGIRLAKVFEDRDTAASYGLQL  235 (252)
T ss_dssp             HHHHHHHHHT--TSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCcCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            8888888775  23345566777888888888888888888876

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.42  E-value=5.3e-12  Score=123.25  Aligned_cols=212  Identities=14%  Similarity=-0.022  Sum_probs=125.4

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhc
Q 006246          201 CWNALIDGYLKCGDIEGAKELFKSTKD---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKD  274 (654)
Q Consensus       201 ~~~~li~~~~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  274 (654)
                      .|..+...|...|++++|+..|++..+   .+..++..+...|...|++++|...|++..+   .+...|..+...|.+.
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~  124 (275)
T 1xnf_A           45 LLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYG  124 (275)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCccccHHHHHHHHHHHHh
Confidence            344445555555555555555555443   2345556666666666666666666665543   2566777777778888


Q ss_pred             CChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHH
Q 006246          275 GYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVF  354 (654)
Q Consensus       275 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~  354 (654)
                      |++++|+..|+++.+.  .|+.......+..+...|++++|...+....... +++...+ .++..+...++.++|.+.+
T Consensus       125 g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~  200 (275)
T 1xnf_A          125 GRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLGNISEQTLMERL  200 (275)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHH
Confidence            8888888888777764  3444444445555566677777777777666654 2333333 3566666667777777777


Q ss_pred             hhcCCCC-------HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 006246          355 EDMKMKE-------VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQAL  420 (654)
Q Consensus       355 ~~m~~~~-------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  420 (654)
                      ++....+       ...|..+...|...|++++|...|+++.+.  .|+.  +.....++...|++++|++.+
T Consensus       201 ~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          201 KADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            7666532       356666777777777777777777777664  2322  112233444555555555444

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.41  E-value=6.9e-11  Score=115.47  Aligned_cols=219  Identities=11%  Similarity=-0.027  Sum_probs=104.6

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC-CcchHHHHHHHHHh----cCCHHHHHHHHHhcCCC-CHhHHHHHHHHH
Q 006246          198 DVICWNALIDGYLKCGDIEGAKELFKSTKDK-NTGSYNAMISGFAR----FGRFEEARKLFNEMNDK-DEITWSAIIDGY  271 (654)
Q Consensus       198 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~li~~~  271 (654)
                      ++.++..+...|...|++++|+..|++..++ +...+..+...|..    .+++++|...|++..+. +...+..+...|
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~   84 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLY   84 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            4455555666666666666666666555443 23344555555555    55555555555554332 344455555555


Q ss_pred             Hh----cCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH
Q 006246          272 TK----DGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACAS----LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK  343 (654)
Q Consensus       272 ~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~  343 (654)
                      ..    .+++++|++.|++..+.+   +...+..+...+..    .+++++|...+..+.+.+   +...+..+...|..
T Consensus        85 ~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~  158 (273)
T 1ouv_A           85 YSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDA  158 (273)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             hCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHc
Confidence            55    555555555555555443   33344444444444    455555555555544433   23334444444444


Q ss_pred             ----cCCHHHHHHHHhhcCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc----c
Q 006246          344 ----CGRLDMAWKVFEDMKM-KEVFTWNAMIGGLAM----HGRADDAIELFFKMQREKMRPDRITFACVLSACAH----A  410 (654)
Q Consensus       344 ----~g~~~~A~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~----~  410 (654)
                          .+++++|...|++..+ .+..++..+...|..    .+++++|++.|++..+.+   +...+..+...+.+    .
T Consensus       159 ~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~  235 (273)
T 1ouv_A          159 GRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVT  235 (273)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSS
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcc
Confidence                4444444444444332 233444444444444    444444444444444432   12333334444444    4


Q ss_pred             CCHHHHHHHHHHHHH
Q 006246          411 GMIDRGLQALTYMQQ  425 (654)
Q Consensus       411 g~~~~a~~~~~~~~~  425 (654)
                      +++++|.++|++..+
T Consensus       236 ~~~~~A~~~~~~a~~  250 (273)
T 1ouv_A          236 RNEKQAIENFKKGCK  250 (273)
T ss_dssp             CCSTTHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            444444444444443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.39  E-value=3.3e-11  Score=113.51  Aligned_cols=196  Identities=12%  Similarity=0.022  Sum_probs=138.7

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 006246          229 NTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA  305 (654)
Q Consensus       229 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  305 (654)
                      +...+..+...+...|++++|...|+++.+   .+...|..+...|...|++++|++.|+++.... +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            456788899999999999999999998764   367789999999999999999999999998763 3355566777777


Q ss_pred             HHhc-CChhHHHHHHHHHHHcCCCC-chhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhH
Q 006246          306 CASL-GALDQGIWIHDHVKRNSICV-DAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADD  380 (654)
Q Consensus       306 ~~~~-g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~  380 (654)
                      +... |++++|...+..+.+.+..| +..++..+...|.+.|++++|...|+++..   .+...|..+...+...|++++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            7777 88888888887777622222 345566666777777777777777766543   245566666666666677777


Q ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          381 AIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       381 A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      |...|+++.+.....+...+..+...+...|+.+.+..+++.+.+
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            777666666543213444555555555666666666666666654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.39  E-value=4.1e-12  Score=132.26  Aligned_cols=266  Identities=12%  Similarity=0.036  Sum_probs=168.4

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC--CC-c----chHHHHHHHHHhcCCHHHHHHHHHhcCCC---------CHhHH
Q 006246          201 CWNALIDGYLKCGDIEGAKELFKSTKD--KN-T----GSYNAMISGFARFGRFEEARKLFNEMNDK---------DEITW  264 (654)
Q Consensus       201 ~~~~li~~~~~~g~~~~A~~~~~~m~~--~~-~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~---------~~~~~  264 (654)
                      .+..+...+...|++++|+..|++..+  |+ .    ..+..+...|...|++++|...|++..+.         ....|
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            344555666777777777777766553  22 1    24555555666666666666655554321         12345


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcC-CCCchhHHHHHHHHHHH
Q 006246          265 SAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNS-ICVDAVLGTALVDMYAK  343 (654)
Q Consensus       265 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~y~~  343 (654)
                      ..+...|...|++++|+..|++......                               +.+ .+....++..+...|..
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~-------------------------------~~~~~~~~~~~~~~l~~~~~~  178 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLAR-------------------------------QLGDRLSEGRALYNLGNVYHA  178 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH-------------------------------HHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHH-------------------------------HhhchHHHHHHHHHHHHHHHH
Confidence            5555555555555555555555433100                               000 01123345556666666


Q ss_pred             cCC-----------------HHHHHHHHhhcCC-------C--CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC-CC
Q 006246          344 CGR-----------------LDMAWKVFEDMKM-------K--EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR-PD  396 (654)
Q Consensus       344 ~g~-----------------~~~A~~~~~~m~~-------~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~  396 (654)
                      .|+                 +++|.+.|++...       +  ...+|..+...|...|++++|+..|++..+.... ++
T Consensus       179 ~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  258 (411)
T 4a1s_A          179 KGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGD  258 (411)
T ss_dssp             HHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCC
Confidence            666                 6666666655432       1  2346777888888888888888888887653110 11


Q ss_pred             ----HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhCC----CCCC
Q 006246          397 ----RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSMP----MEPN  464 (654)
Q Consensus       397 ----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~p~  464 (654)
                          ..++..+...+...|++++|...+++..+...-..+    ...+..+..+|.+.|++++|.+.+++.-    ..++
T Consensus       259 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  338 (411)
T 4a1s_A          259 RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGD  338 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC
Confidence                226777888888899999999988887764211111    4567788888999999999999988761    1112


Q ss_pred             ----HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          465 ----AAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       465 ----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                          ..++..+...|...|++++|...+++++++.+.
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  375 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXX  375 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCH
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhh
Confidence                457888999999999999999999999998765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.38  E-value=1.5e-10  Score=115.41  Aligned_cols=218  Identities=9%  Similarity=0.055  Sum_probs=170.3

Q ss_pred             HHHHHHHHHHHhCCCCCCcchHHHHHHHHH-------hcCCh-------hHHHHHHHHHHHcCCCCchhHHHHHHHHHHH
Q 006246          278 KEALEVFNEMQRDKIKPRKFVLSCVLAACA-------SLGAL-------DQGIWIHDHVKRNSICVDAVLGTALVDMYAK  343 (654)
Q Consensus       278 ~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~-------~~g~~-------~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~  343 (654)
                      ++|+.+|++..... +-+...|..+...+.       ..|++       ++|..+++++++.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            57777888777642 234445555555544       35775       8888899888874224466788889999999


Q ss_pred             cCCHHHHHHHHhhcCC--C-CHH-HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHH-ccCCHHHHHH
Q 006246          344 CGRLDMAWKVFEDMKM--K-EVF-TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACA-HAGMIDRGLQ  418 (654)
Q Consensus       344 ~g~~~~A~~~~~~m~~--~-~~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~-~~g~~~~a~~  418 (654)
                      .|++++|.++|+++..  | +.. .|..++..+.+.|++++|..+|++..+.. +++...|........ ..|+.++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9999999999998875  2 343 89999999999999999999999998864 234445544433322 3799999999


Q ss_pred             HHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-C---CCC--CHHHHHHHHHHHHHhCChHHHHHHHHHHH
Q 006246          419 ALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-P---MEP--NAAVWEALLGACRKHGEVEFGERLGKILL  492 (654)
Q Consensus       419 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~---~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  492 (654)
                      +|+...+..  +.+...|..++..+.+.|++++|..+|++. .   ..|  ....|..++......|+.+.|..++++++
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999998853  335678899999999999999999999987 2   355  47799999999999999999999999999


Q ss_pred             hcCCCCC
Q 006246          493 EMEPQNR  499 (654)
Q Consensus       493 ~~~p~~~  499 (654)
                      +..|++.
T Consensus       269 ~~~p~~~  275 (308)
T 2ond_A          269 TAFREEY  275 (308)
T ss_dssp             HHTTTTT
T ss_pred             HHccccc
Confidence            9999876

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.38  E-value=3.4e-11  Score=123.02  Aligned_cols=239  Identities=12%  Similarity=0.066  Sum_probs=142.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCC-hHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh
Q 006246          233 YNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGY-YKEALEVFNEMQRDKIKPRKFVLSCVLAACAS  308 (654)
Q Consensus       233 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  308 (654)
                      |..+...+.+.|++++|+..|+++..   .+...|+.+...+...|+ +++|+..|++.+... +-+...|..+..++..
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~  178 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEW  178 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            34444444444555555555554432   244556666666666664 666666666665543 2234455555556666


Q ss_pred             cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHH-cCChhHH---
Q 006246          309 LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAM-HGRADDA---  381 (654)
Q Consensus       309 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~-~g~~~~A---  381 (654)
                      .|++++|+..++.+++.. +.+...|..+..+|.+.|++++|++.|+++..   .+...|+.+...+.. .|..++|   
T Consensus       179 ~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~~~~a~~~lg~~l~~l~~~~~eA~~~  257 (382)
T 2h6f_A          179 LRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLE  257 (382)
T ss_dssp             HTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCcchHHHHH
Confidence            666666666666666554 33556666666666677777777777766654   355667777777777 4544666   


Q ss_pred             --HHHHHHHhhcCCCCCHHHHHHHHHHHHccC--CHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcC---------C
Q 006246          382 --IELFFKMQREKMRPDRITFACVLSACAHAG--MIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAG---------Y  448 (654)
Q Consensus       382 --~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g--~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g---------~  448 (654)
                        ++.|++.++.. +-+...|..+...+...|  ++++|.+.+..+ +  ....+...+..++++|.+.|         .
T Consensus       258 ~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~--~~p~~~~al~~La~~~~~~~~~~~~~~~~~  333 (382)
T 2h6f_A          258 REVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-Q--PSHSSPYLIAFLVDIYEDMLENQCDNKEDI  333 (382)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-T--TTCCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             HHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-c--cCCCCHHHHHHHHHHHHHHhcccccchHHH
Confidence              47777777643 224456666777777766  567777777666 2  22334556677777777764         2


Q ss_pred             HHHHHHHHHhC--CCCCC-HHHHHHHHHHHHH
Q 006246          449 LAEAEEVISSM--PMEPN-AAVWEALLGACRK  477 (654)
Q Consensus       449 ~~~A~~~~~~m--~~~p~-~~~~~~ll~~~~~  477 (654)
                      +++|+++++++  ...|. ...|..+...+..
T Consensus       334 ~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          334 LNKALELCEILAKEKDTIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHH
Confidence            57888888876  45553 5666666655543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.38  E-value=6.2e-12  Score=130.34  Aligned_cols=197  Identities=9%  Similarity=-0.052  Sum_probs=96.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----cchHHHHHHHHHhcCC--------------------hhHHH
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKI-KPR----KFVLSCVLAACASLGA--------------------LDQGI  316 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~--------------------~~~a~  316 (654)
                      ..|..+...|...|++++|+..+++...... .++    ..++..+...+...|+                    ++.|.
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            3455566666666666666666665543210 011    1234444445555555                    55555


Q ss_pred             HHHHHHHHc----CC-CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-----CC----HHHHHHHHHHHHHcCChhHHH
Q 006246          317 WIHDHVKRN----SI-CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-----KE----VFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       317 ~~~~~~~~~----~~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~A~  382 (654)
                      ..+....+.    +. +....++..+...|...|++++|...|++...     ++    ..+|..+...|...|++++|+
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            555444331    10 11123445555556666666666665555432     11    125555566666666666666


Q ss_pred             HHHHHHhhcCCC-CC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHH
Q 006246          383 ELFFKMQREKMR-PD----RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       383 ~l~~~m~~~g~~-p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~  453 (654)
                      ..+++..+.... ++    ..++..+...+...|++++|...++...+...-.++    ...+..+...|.+.|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            666655432100 01    234455555555666666666666555442111111    234445555555555555555


Q ss_pred             HHHHh
Q 006246          454 EVISS  458 (654)
Q Consensus       454 ~~~~~  458 (654)
                      +.+++
T Consensus       328 ~~~~~  332 (406)
T 3sf4_A          328 HFAEK  332 (406)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.37  E-value=2e-11  Score=111.42  Aligned_cols=167  Identities=16%  Similarity=0.075  Sum_probs=143.0

Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA  406 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  406 (654)
                      ++.+|..+...|.+.|++++|.+.|++..+   .+..+|..+...|.+.|++++|+..+.+..... +.+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            567888899999999999999999998764   477889999999999999999999999988764 3356677777888


Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHH
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFG  484 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a  484 (654)
                      +...++++.+...+.+..+.  .+.+...+..+..+|.+.|++++|++.|++. ...| +..+|..+...+...|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            89999999999999998874  3345677888999999999999999999987 3334 688999999999999999999


Q ss_pred             HHHHHHHHhcCCCCC
Q 006246          485 ERLGKILLEMEPQNR  499 (654)
Q Consensus       485 ~~~~~~~~~~~p~~~  499 (654)
                      +..++++++++|+++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999999999753

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.37  E-value=1.1e-11  Score=118.42  Aligned_cols=193  Identities=13%  Similarity=0.051  Sum_probs=103.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      ..|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|...+..+.+.. +.+..++..+...|
T Consensus        24 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  101 (243)
T 2q7f_A           24 MTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVY  101 (243)
T ss_dssp             ------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHH
Confidence            345555555555556666666555555432 2234445555555555666666666665555543 23455555666666


Q ss_pred             HHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 006246          342 AKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQ  418 (654)
Q Consensus       342 ~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  418 (654)
                      .+.|++++|.+.|+++..   .+...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|..
T Consensus       102 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  180 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALS  180 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHH
Confidence            666666666666665542   345566666666666666777776666666542 2245566666666666677777777


Q ss_pred             HHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          419 ALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       419 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .++.+.+.  .+.+...+..+..+|.+.|++++|.+.++++
T Consensus       181 ~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~  219 (243)
T 2q7f_A          181 QFAAVTEQ--DPGHADAFYNAGVTYAYKENREKALEMLDKA  219 (243)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHTTCTTHHHHHHHHH
T ss_pred             HHHHHHHh--CcccHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            77666653  2233555666666777777777777766665

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.37  E-value=1.1e-11  Score=124.63  Aligned_cols=266  Identities=11%  Similarity=0.046  Sum_probs=158.8

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC--CC-----cchHHHHHHHHHhcCCHHHHHHHHHhcCCC---------CHhHH
Q 006246          201 CWNALIDGYLKCGDIEGAKELFKSTKD--KN-----TGSYNAMISGFARFGRFEEARKLFNEMNDK---------DEITW  264 (654)
Q Consensus       201 ~~~~li~~~~~~g~~~~A~~~~~~m~~--~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---------~~~~~  264 (654)
                      .+......+...|++++|+..|++..+  |+     ...+..+...|...|++++|...|++..+.         ....+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            344445556666777777766666543  21     134455555555556665555555543310         12344


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH
Q 006246          265 SAIIDGYTKDGYYKEALEVFNEMQRDKIK-PRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK  343 (654)
Q Consensus       265 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~  343 (654)
                      ..+...|...|++++|+..+++....... ++.                               .....++..+...|..
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~~l~~~~~~  135 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDK-------------------------------VGEARALYNLGNVYHA  135 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH-------------------------------HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCc-------------------------------hHHHHHHHHHHHHHHH
Confidence            44555555555555555555554331100 000                               0012244455555666


Q ss_pred             cCC--------------------HHHHHHHHhhcCC-----C----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC-
Q 006246          344 CGR--------------------LDMAWKVFEDMKM-----K----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKM-  393 (654)
Q Consensus       344 ~g~--------------------~~~A~~~~~~m~~-----~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-  393 (654)
                      .|+                    +++|.+.+++...     .    ...++..+...|...|++++|+..+++..+... 
T Consensus       136 ~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  215 (338)
T 3ro2_A          136 KGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  215 (338)
T ss_dssp             HHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             cCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            666                    6666665554432     1    234667777778888888888888877764210 


Q ss_pred             CCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC----CC
Q 006246          394 RPD----RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM----PM  461 (654)
Q Consensus       394 ~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~  461 (654)
                      .++    ..++..+...+...|++++|..++++..+...-.++    ...+..+...|...|++++|.+.+++.    +.
T Consensus       216 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  295 (338)
T 3ro2_A          216 FGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  295 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh
Confidence            011    226677777888888888888888877653221122    446777888888999999999888876    11


Q ss_pred             CCC----HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          462 EPN----AAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       462 ~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                      .++    ..++..+...+...|++++|...+++++++.++
T Consensus       296 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          296 LKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             cCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            112    557888999999999999999999999987664

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.36  E-value=1.6e-11  Score=127.32  Aligned_cols=266  Identities=13%  Similarity=0.028  Sum_probs=197.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC--C-C----HhHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CcchHH
Q 006246          233 YNAMISGFARFGRFEEARKLFNEMND--K-D----EITWSAIIDGYTKDGYYKEALEVFNEMQRD----KIKP-RKFVLS  300 (654)
Q Consensus       233 ~~~li~~~~~~g~~~~A~~~~~~~~~--~-~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~t~~  300 (654)
                      +......+.+.|++++|...|++..+  + +    ...|..+...|...|++++|+..|++....    +-.| ....+.
T Consensus        12 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   91 (406)
T 3sf4_A           12 LALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   91 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            34445555566666666666665542  2 2    346777888888889999988888876542    2122 234667


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCC-----CCchhHHHHHHHHHHHcCC--------------------HHHHHHHHh
Q 006246          301 CVLAACASLGALDQGIWIHDHVKRNSI-----CVDAVLGTALVDMYAKCGR--------------------LDMAWKVFE  355 (654)
Q Consensus       301 ~ll~~~~~~g~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~y~~~g~--------------------~~~A~~~~~  355 (654)
                      .+...+...|++++|...+..+.+...     .....++..+...|...|+                    +++|...|+
T Consensus        92 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  171 (406)
T 3sf4_A           92 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYE  171 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHH
Confidence            778889999999999999998876321     1124577888999999999                    999998888


Q ss_pred             hcCC-----C----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC-CCC----HHHHHHHHHHHHccCCHHHHHHHHH
Q 006246          356 DMKM-----K----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKM-RPD----RITFACVLSACAHAGMIDRGLQALT  421 (654)
Q Consensus       356 ~m~~-----~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~~~~a~~~~~  421 (654)
                      +...     .    ...+|..+...|...|++++|+..|++..+... .++    ..++..+...+...|++++|..+++
T Consensus       172 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  251 (406)
T 3sf4_A          172 ENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYK  251 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            7643     1    235788899999999999999999999875311 112    2378888889999999999999999


Q ss_pred             HHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC----HHHHHHHHHHHHHhCChHHHHHHHH
Q 006246          422 YMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM----PMEPN----AAVWEALLGACRKHGEVEFGERLGK  489 (654)
Q Consensus       422 ~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~  489 (654)
                      +..+...-.++    ...+..+...|...|++++|.+.+++.    +..++    ..++..+...+...|++++|...++
T Consensus       252 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  331 (406)
T 3sf4_A          252 KTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAE  331 (406)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            98764221222    457788899999999999999999876    11122    6678899999999999999999999


Q ss_pred             HHHhcCCCC
Q 006246          490 ILLEMEPQN  498 (654)
Q Consensus       490 ~~~~~~p~~  498 (654)
                      +++++.+..
T Consensus       332 ~al~~~~~~  340 (406)
T 3sf4_A          332 KHLEISREV  340 (406)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999875544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.34  E-value=1.1e-11  Score=128.97  Aligned_cols=261  Identities=12%  Similarity=0.063  Sum_probs=173.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhcC---CCCCh----hhHHHHHHHHHHcCCHHHHHHHHHhcCC---------CCcch
Q 006246          169 HVKSSGIQMYACFGCVNKARQILDDG---SKSDV----ICWNALIDGYLKCGDIEGAKELFKSTKD---------KNTGS  232 (654)
Q Consensus       169 ~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~---------~~~~~  232 (654)
                      ..+..+...+...|++++|...|++.   .+.+.    ..|..+...|...|++++|+..|++..+         ....+
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            34556777889999999999999885   33343    4788899999999999999999988754         13457


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCCC---------CHhHHHHHHHHHHhcCC-----------------hHHHHHHHHH
Q 006246          233 YNAMISGFARFGRFEEARKLFNEMNDK---------DEITWSAIIDGYTKDGY-----------------YKEALEVFNE  286 (654)
Q Consensus       233 ~~~li~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~-----------------~~~A~~~~~~  286 (654)
                      +..+...|...|++++|...|++..+.         ....|..+...|...|+                 +++|++.+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            888999999999999999999886531         23467778888888888                 6777776666


Q ss_pred             HHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----C
Q 006246          287 MQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----E  361 (654)
Q Consensus       287 m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----~  361 (654)
                      .....               ...++               ......++..+...|...|++++|.+.|++....     +
T Consensus       209 al~~~---------------~~~~~---------------~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  258 (411)
T 4a1s_A          209 NLKLM---------------RDLGD---------------RGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGD  258 (411)
T ss_dssp             HHHHH---------------HHHTC---------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHH---------------HHcCC---------------HHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCC
Confidence            54310               00000               0011234455556666666666666666555431     1


Q ss_pred             ----HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC--C---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC
Q 006246          362 ----VFTWNAMIGGLAMHGRADDAIELFFKMQREKM--R---PDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE  432 (654)
Q Consensus       362 ----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~---p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~  432 (654)
                          ..+|..+...|...|++++|+..|++..+...  .   ....++..+...+...|++++|..++++..+...-.++
T Consensus       259 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  338 (411)
T 4a1s_A          259 RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGD  338 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC
Confidence                22566667777777777777777776654211  0   01345666677777777777777777776653111111


Q ss_pred             ----cchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          433 ----VEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       433 ----~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                          ...+..+..+|.+.|++++|.+.+++.
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  369 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQH  369 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence                335667778888888888888887765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.34  E-value=2.1e-11  Score=122.43  Aligned_cols=260  Identities=12%  Similarity=0.051  Sum_probs=170.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhcC---CCCC----hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-----C----CcchH
Q 006246          170 VKSSGIQMYACFGCVNKARQILDDG---SKSD----VICWNALIDGYLKCGDIEGAKELFKSTKD-----K----NTGSY  233 (654)
Q Consensus       170 ~~~~li~~y~~~g~~~~A~~~~~~~---~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~----~~~~~  233 (654)
                      .+......+...|++++|...|++.   .+.+    ...|..+...|...|++++|...+++..+     +    ...++
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            3455667788999999999999885   3334    35788899999999999999999988753     1    24578


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCC-----CC----HhHHHHHHHHHHhcCC--------------------hHHHHHHH
Q 006246          234 NAMISGFARFGRFEEARKLFNEMND-----KD----EITWSAIIDGYTKDGY--------------------YKEALEVF  284 (654)
Q Consensus       234 ~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~  284 (654)
                      ..+...|...|++++|...|++..+     .+    ..++..+...|...|+                    +++|++.+
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  166 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLY  166 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHH
Confidence            8889999999999999999988653     22    3367788888888888                    77777777


Q ss_pred             HHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC----
Q 006246          285 NEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK----  360 (654)
Q Consensus       285 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~----  360 (654)
                      ++.....               ...++               ......++..+...|...|++++|.+.|++....    
T Consensus       167 ~~a~~~~---------------~~~~~---------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~  216 (338)
T 3ro2_A          167 EENLSLV---------------TALGD---------------RAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEF  216 (338)
T ss_dssp             HHHHHHH---------------HHHTC---------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH---------------HhcCC---------------HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhc
Confidence            6654310               00000               0001224444555555666666666665554321    


Q ss_pred             -----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC-CC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCC
Q 006246          361 -----EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR-PD----RITFACVLSACAHAGMIDRGLQALTYMQQMYGID  430 (654)
Q Consensus       361 -----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~  430 (654)
                           ...+|..+...|...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+...-.
T Consensus       217 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  296 (338)
T 3ro2_A          217 GDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  296 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhc
Confidence                 1235666666777777777777777666542100 11    3355666667777777777777777665431111


Q ss_pred             CC----cchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          431 PE----VEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       431 p~----~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+    ...+..+...|.+.|++++|.+.+++.
T Consensus       297 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  329 (338)
T 3ro2_A          297 KDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  329 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            11    335666777777888888888777764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.34  E-value=2.3e-11  Score=125.38  Aligned_cols=230  Identities=8%  Similarity=-0.051  Sum_probs=168.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCC-CCC----cchHHHHHHHHHhcCChhHHHHHHHHHHHcC--C----CCchhHHH
Q 006246          267 IIDGYTKDGYYKEALEVFNEMQRDKI-KPR----KFVLSCVLAACASLGALDQGIWIHDHVKRNS--I----CVDAVLGT  335 (654)
Q Consensus       267 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~--~----~~~~~~~~  335 (654)
                      ....+...|++++|+..|++....-. .++    ..++..+...+...|+++.|...+..+.+..  .    .....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            44556677777777777777765310 122    2456666667777777777777777766531  1    11245677


Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCC-----CC----HHHHHHHHHHHHHcCChhHHHHHHHHHhhc----CCCC-CHHHHH
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKM-----KE----VFTWNAMIGGLAMHGRADDAIELFFKMQRE----KMRP-DRITFA  401 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~t~~  401 (654)
                      .+...|...|++++|.+.|++...     .+    ..++..+...|...|++++|++.|++..+.    +..| ...++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            788889999999999888887653     11    247888999999999999999999998772    3323 345788


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHHcCCCCC---cchHHHHHHHHHHcCC---HHHHHHHHHhCCCCCC-HHHHHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQMYGIDPE---VEHYGCIVDLLGRAGY---LAEAEEVISSMPMEPN-AAVWEALLGA  474 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~---~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~p~-~~~~~~ll~~  474 (654)
                      .+...+...|++++|...+++..+...-.++   ...+..+...|...|+   +++|+.++++.+..|+ ...+..+...
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            8899999999999999999988764211112   2235678888889999   9999999999865443 4577889999


Q ss_pred             HHHhCChHHHHHHHHHHHhcCC
Q 006246          475 CRKHGEVEFGERLGKILLEMEP  496 (654)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~p  496 (654)
                      |...|++++|...+++++++..
T Consensus       349 y~~~g~~~~A~~~~~~al~~~~  370 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQVRQ  370 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999988543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.29  E-value=4.4e-11  Score=118.92  Aligned_cols=235  Identities=13%  Similarity=0.069  Sum_probs=133.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHc------C-CC
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRD-------KIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRN------S-IC  328 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-------g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~------~-~~  328 (654)
                      +|..+...|...|++++|+.+|+++.+.       ..+.....+..+...+...|++++|...+..+.+.      + .+
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  108 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHP  108 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            4445555555555555555555555431       11112233444445555555555555555555442      1 12


Q ss_pred             CchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----------CHHHHHHHHHHHHHcCChhHHHHHHHHHhhc------
Q 006246          329 VDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----------EVFTWNAMIGGLAMHGRADDAIELFFKMQRE------  391 (654)
Q Consensus       329 ~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------  391 (654)
                      ....++..+...|...|++++|...|+++...           ...+|..+...|...|++++|+++|+++.+.      
T Consensus       109 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~  188 (311)
T 3nf1_A          109 AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLG  188 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhC
Confidence            23445566666777777777777766655421           2346777777788888888888888877653      


Q ss_pred             CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHHHc------CCCCCcchHHH-------HHHHHHHcCCHHHHHHHHH
Q 006246          392 KMRPD-RITFACVLSACAHAGMIDRGLQALTYMQQMY------GIDPEVEHYGC-------IVDLLGRAGYLAEAEEVIS  457 (654)
Q Consensus       392 g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~------g~~p~~~~~~~-------li~~~~~~g~~~~A~~~~~  457 (654)
                      +..|+ ..++..+...+...|++++|..+++++.+..      ...+.......       +...+...+.+.+|...++
T Consensus       189 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  268 (311)
T 3nf1_A          189 PDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYK  268 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC----
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Confidence            22332 3367777778888888888888888877521      12222222222       2223334445555555565


Q ss_pred             hCC-CCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          458 SMP-MEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       458 ~m~-~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                      ... ..| +..+|..+...|...|++++|...+++++++.|+
T Consensus       269 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          269 ACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             -----CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             hcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            553 233 4678999999999999999999999999998775

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.26  E-value=2.3e-09  Score=110.12  Aligned_cols=228  Identities=10%  Similarity=-0.023  Sum_probs=164.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----cchHHHHHHHHHhcCChhHHHHHHHHHHHcCC-----C-CchhHH
Q 006246          266 AIIDGYTKDGYYKEALEVFNEMQRDKI-KPR----KFVLSCVLAACASLGALDQGIWIHDHVKRNSI-----C-VDAVLG  334 (654)
Q Consensus       266 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-----~-~~~~~~  334 (654)
                      .....+...|++++|+..|++...... .++    ..++..+...+...|+++.|...+..+.+...     . ....++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            334455677777777777777765311 122    23555666677777777777777777665211     1 124566


Q ss_pred             HHHHHHHHHcCCHHHHHHHHhhcCC-----C----CHHHHHHHHHHHHHcCChhHHHHHHHHHhh-----cCCCCCHHHH
Q 006246          335 TALVDMYAKCGRLDMAWKVFEDMKM-----K----EVFTWNAMIGGLAMHGRADDAIELFFKMQR-----EKMRPDRITF  400 (654)
Q Consensus       335 ~~li~~y~~~g~~~~A~~~~~~m~~-----~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-----~g~~p~~~t~  400 (654)
                      +.+...|...|++++|.+.|++...     .    ...+++.+...|...|++++|++.|++..+     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            7788888899999998888877653     1    235788889999999999999999999876     32 2235678


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC---cchHHHHHHHHHHcCC---HHHHHHHHHhCCCCCC-HHHHHHHHH
Q 006246          401 ACVLSACAHAGMIDRGLQALTYMQQMYGIDPE---VEHYGCIVDLLGRAGY---LAEAEEVISSMPMEPN-AAVWEALLG  473 (654)
Q Consensus       401 ~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~---~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~p~-~~~~~~ll~  473 (654)
                      ..+...+.+.|++++|..++++..+...-.++   ...+..+...|...|+   +.+|+..+++....|+ ...+..+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~  344 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            88889999999999999999999885332223   2245556666777888   9999999998764443 456678899


Q ss_pred             HHHHhCChHHHHHHHHHHHhc
Q 006246          474 ACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       474 ~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      .|...|++++|...+++++++
T Consensus       345 ~y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999988764

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.24  E-value=4.7e-10  Score=101.75  Aligned_cols=166  Identities=14%  Similarity=-0.010  Sum_probs=143.7

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSAC  407 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  407 (654)
                      ...+..+...|...|++++|...|+++..   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34566788889999999999999999876   367889999999999999999999999998863 34677888889999


Q ss_pred             HccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHHhCChHHHH
Q 006246          408 AHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-P-MEPNAAVWEALLGACRKHGEVEFGE  485 (654)
Q Consensus       408 ~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~-~~p~~~~~~~ll~~~~~~g~~~~a~  485 (654)
                      ...|++++|.++++++.+.  .+.+...+..+...+...|++++|.+.++++ . .+.+..+|..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999874  3445678888999999999999999999987 2 2346889999999999999999999


Q ss_pred             HHHHHHHhcCCCCC
Q 006246          486 RLGKILLEMEPQNR  499 (654)
Q Consensus       486 ~~~~~~~~~~p~~~  499 (654)
                      ..+++++++.|++.
T Consensus       165 ~~~~~~~~~~~~~~  178 (186)
T 3as5_A          165 PHFKKANELDEGAS  178 (186)
T ss_dssp             HHHHHHHHHHHCCC
T ss_pred             HHHHHHHHcCCCch
Confidence            99999999988864

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.24  E-value=4.4e-10  Score=115.78  Aligned_cols=160  Identities=9%  Similarity=-0.013  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CC----cchHHHHHHHHHhcCChhHHHHHHHHHHHc----CC-CCchh
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIK-PR----KFVLSCVLAACASLGALDQGIWIHDHVKRN----SI-CVDAV  332 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~  332 (654)
                      +++.+...|...|++++|++.|++..+.... ++    ..++..+...+...|++++|...+..+.+.    +. +....
T Consensus       186 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  265 (383)
T 3ulq_A          186 CHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQ  265 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHH
Confidence            4555555666666666666666555432100 11    124555555666666666666666665551    22 33345


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCCC-----C---HHHHHHHHHHHHHcCC---hhHHHHHHHHHhhcCCCCC-HHHH
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKMK-----E---VFTWNAMIGGLAMHGR---ADDAIELFFKMQREKMRPD-RITF  400 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~~-----~---~~~~~~li~~~~~~g~---~~~A~~l~~~m~~~g~~p~-~~t~  400 (654)
                      ++..+...|.+.|++++|...|++...-     +   ...++.+...|...|+   .++|+.++++.   +..|+ ...+
T Consensus       266 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~  342 (383)
T 3ulq_A          266 AYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFA  342 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHH
Confidence            5666666677777777776666655431     1   1224556666666666   66666666655   22222 2355


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          401 ACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       401 ~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ..+...|...|++++|..++++..+
T Consensus       343 ~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          343 IDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5666677777777777777777665

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.21  E-value=3.5e-09  Score=105.33  Aligned_cols=208  Identities=13%  Similarity=0.073  Sum_probs=141.0

Q ss_pred             HHHHHHHHhcCC---CCcchHHHHHHHHH-------hcCCH-------HHHHHHHHhcCC---C-CHhHHHHHHHHHHhc
Q 006246          216 EGAKELFKSTKD---KNTGSYNAMISGFA-------RFGRF-------EEARKLFNEMND---K-DEITWSAIIDGYTKD  274 (654)
Q Consensus       216 ~~A~~~~~~m~~---~~~~~~~~li~~~~-------~~g~~-------~~A~~~~~~~~~---~-~~~~~~~li~~~~~~  274 (654)
                      ++|...|++...   .+...|..++..+.       +.|++       ++|..+|++...   | +...|..++..+.+.
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~  112 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            455556655544   24445555555544       34664       777777776554   2 455777788888888


Q ss_pred             CChHHHHHHHHHHHhCCCCCCcc--hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHH-HcCCHHHHH
Q 006246          275 GYYKEALEVFNEMQRDKIKPRKF--VLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYA-KCGRLDMAW  351 (654)
Q Consensus       275 g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~-~~g~~~~A~  351 (654)
                      |++++|.++|++..+.  .|+..  .|..+...+.+.|++++|..+|+.+++... .+..+|...+.... ..|+.++|.
T Consensus       113 ~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          113 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             CCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHH
Confidence            8888888888887763  45432  567777777777888888888888777542 33444444333322 258888888


Q ss_pred             HHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC-CCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          352 KVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREK-MRPD--RITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       352 ~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ++|++..+   .+...|..++..+.+.|+.++|..+|++..+.. +.|+  ...|..++......|+.+.|..+++++.+
T Consensus       190 ~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          190 KIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88887754   366778888888888888888888888888753 3543  45677777777788888888888888877


Q ss_pred             H
Q 006246          426 M  426 (654)
Q Consensus       426 ~  426 (654)
                      .
T Consensus       270 ~  270 (308)
T 2ond_A          270 A  270 (308)
T ss_dssp             H
T ss_pred             H
Confidence            5

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.19  E-value=3.7e-10  Score=119.66  Aligned_cols=188  Identities=12%  Similarity=-0.048  Sum_probs=100.2

Q ss_pred             chHHHHHHHHHhcCCh-hHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHH
Q 006246          297 FVLSCVLAACASLGAL-DQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--KEVFTWNAMIGGLA  373 (654)
Q Consensus       297 ~t~~~ll~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~  373 (654)
                      ..+..+..++...|++ ++|.+.+..+++.. +.+...+..+...|.+.|++++|.+.|++...  |+...|..+...|.
T Consensus       103 ~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~~~  181 (474)
T 4abn_A          103 QALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMVLR  181 (474)
T ss_dssp             HHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            3344444444444454 55555554444433 22344555555555555555555555555443  33445555555555


Q ss_pred             Hc---------CChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHcc--------CCHHHHHHHHHHHHHHcCCCC----C
Q 006246          374 MH---------GRADDAIELFFKMQREKMRPDRITFACVLSACAHA--------GMIDRGLQALTYMQQMYGIDP----E  432 (654)
Q Consensus       374 ~~---------g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~--------g~~~~a~~~~~~~~~~~g~~p----~  432 (654)
                      ..         |++++|++.|++..+.. +-+...|..+..++...        |++++|...|++..+.   .|    +
T Consensus       182 ~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~  257 (474)
T 4abn_A          182 QLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV---DRKASSN  257 (474)
T ss_dssp             TCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH---CGGGGGC
T ss_pred             HhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh---CCCcccC
Confidence            55         56666666666665542 22344555555555555        5666666666666552   23    4


Q ss_pred             cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHH
Q 006246          433 VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGK  489 (654)
Q Consensus       433 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~  489 (654)
                      ...|..+..+|.+.|++++|++.|++. ...| +...|..+...+...|++++|...++
T Consensus       258 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          258 PDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            455666666666666666666666655 2223 35556666666666666666655443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.18  E-value=2.3e-09  Score=97.53  Aligned_cols=159  Identities=13%  Similarity=0.023  Sum_probs=63.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYA  342 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~  342 (654)
                      .|..+...|.+.|++++|++.|++.++.. +-+...+..+..++.+.|++++|...+..+.... +.+...+..+...+.
T Consensus         7 iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   84 (184)
T 3vtx_A            7 IYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSANF   84 (184)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHHH
Confidence            34444444444444444444444444332 1122233333333444444444444444333332 112233333333444


Q ss_pred             HcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 006246          343 KCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQA  419 (654)
Q Consensus       343 ~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~  419 (654)
                      ..++++.|...+++...   .+...|..+...|.+.|++++|++.|++..+.. +.+..++..+..++.+.|++++|.+.
T Consensus        85 ~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~  163 (184)
T 3vtx_A           85 MIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKY  163 (184)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHH
Confidence            44444444444433321   233344444444444444444444444444331 11233344444444444444444444


Q ss_pred             HHHHH
Q 006246          420 LTYMQ  424 (654)
Q Consensus       420 ~~~~~  424 (654)
                      |++..
T Consensus       164 ~~~al  168 (184)
T 3vtx_A          164 FKKAL  168 (184)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44443

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.16  E-value=6.8e-08  Score=105.39  Aligned_cols=406  Identities=8%  Similarity=-0.042  Sum_probs=242.3

Q ss_pred             CcchHHHHHhhhhhcCCCChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCC---hHHHHHHHhcCC--C---CCc
Q 006246           27 SEFSQKTILDILNTKCHTSWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSN---FELALKVFNSVH--K---PNV   98 (654)
Q Consensus        27 ~~~t~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~---~~~A~~~f~~~~--~---~~~   98 (654)
                      |..++..++  ..+...+.+..++.++++++.. ++.....|..-+..-.+  .|+   ++.+..+|++..  -   |++
T Consensus        65 d~~~W~~yi--~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~--~~~~~~~~~v~~lfeRal~~~~~~~sv  139 (679)
T 4e6h_A           65 DIFLYVKLL--KHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFD--KMEELDAAVIEPVLARCLSKELGNNDL  139 (679)
T ss_dssp             CHHHHHHHH--HHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHT--C--CCCHHHHHHHHHHHTCSSSCCCCH
T ss_pred             CHHHHHHHH--HHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHh--hCCcchHHHHHHHHHHHHHhcCCCCCH
Confidence            444455554  3566778999999999999987 34567788888888888  888   999999999876  3   788


Q ss_pred             chHHHHHHHHHhCCCc--------hHHHHHHHHhHh-CCC-CCCc-ccHHHHHHHHh---------ccCCcHHHHHHHHH
Q 006246           99 FVWNSVLRACLEHNEP--------WRVISLYSEMVG-VDS-KPNK-FTYPTVFKACS---------ITEADKEGVQVHAH  158 (654)
Q Consensus        99 ~~~~~li~~~~~~g~~--------~~A~~~~~~m~~-~g~-~p~~-~t~~~ll~~~~---------~~~~~~~a~~~~~~  158 (654)
                      ..|...+....+.++.        +...++|+..+. .|. .|+. ..|...+....         ..++.+.++.+|..
T Consensus       140 ~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~r  219 (679)
T 4e6h_A          140 SLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKT  219 (679)
T ss_dssp             HHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHH
Confidence            8899888766554443        234477877654 466 5654 45555554432         12346778899998


Q ss_pred             HHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc-------CC----
Q 006246          159 VVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKST-------KD----  227 (654)
Q Consensus       159 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~----  227 (654)
                      ++......-..+|......--..+. ..+.+++.+                 ....++.|...+.++       .+    
T Consensus       220 aL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e-----------------~~~~y~~Ar~~~~e~~~~~~~l~r~~p~  281 (679)
T 4e6h_A          220 LLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGE-----------------LSAQYMNARSLYQDWLNITKGLKRNLPI  281 (679)
T ss_dssp             HTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH-----------------HHHHHHHHHHHHHHHHHHTTTCCCCCCS
T ss_pred             HHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHH-----------------hhHHHHHHHHHHHHHHHHHHhHhhcccc
Confidence            8853211112233222221111011 001111110                 001112222222110       00    


Q ss_pred             ----------C--C------cchHHHHHHHHHhcC-------CHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHH
Q 006246          228 ----------K--N------TGSYNAMISGFARFG-------RFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKE  279 (654)
Q Consensus       228 ----------~--~------~~~~~~li~~~~~~g-------~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~  279 (654)
                                |  +      ...|...+.---..+       ..+.+..+|++...   .+...|...+.-+.+.|+.++
T Consensus       282 ~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~  361 (679)
T 4e6h_A          282 TLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDST  361 (679)
T ss_dssp             SSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTT
T ss_pred             ccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHH
Confidence                      0  0      012333332222211       12233445655543   256677777777778888888


Q ss_pred             HH-HHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcC----------CCC-----------chhHHHHH
Q 006246          280 AL-EVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNS----------ICV-----------DAVLGTAL  337 (654)
Q Consensus       280 A~-~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~----------~~~-----------~~~~~~~l  337 (654)
                      |. ++|++.... ++.+...+...+......|+++.|.++|+.+++..          .+.           ...+|...
T Consensus       362 a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y  440 (679)
T 4e6h_A          362 VITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVY  440 (679)
T ss_dssp             HHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHH
Confidence            86 888888764 23333344556666777888888888888877631          111           23467777


Q ss_pred             HHHHHHcCCHHHHHHHHhhcCCC----CHHHHHHHHHHHHHc-CChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC
Q 006246          338 VDMYAKCGRLDMAWKVFEDMKMK----EVFTWNAMIGGLAMH-GRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM  412 (654)
Q Consensus       338 i~~y~~~g~~~~A~~~~~~m~~~----~~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  412 (654)
                      +....+.|.++.|+++|.+..+.    ....|-..+..-.+. ++.+.|..+|+..++. .+-+..-+...+......|+
T Consensus       441 ~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~  519 (679)
T 4e6h_A          441 MNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNE  519 (679)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCC
Confidence            88777888888898888887543    222333222222233 4478888898888876 33345555677777777888


Q ss_pred             HHHHHHHHHHHHHHcCCCC---CcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          413 IDRGLQALTYMQQMYGIDP---EVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       413 ~~~a~~~~~~~~~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+.|+.+|++....  ..+   ....|..+++.-.+.|+.+.+.++.+++
T Consensus       520 ~~~AR~lferal~~--~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~  567 (679)
T 4e6h_A          520 ESQVKSLFESSIDK--ISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRF  567 (679)
T ss_dssp             HHHHHHHHHHHTTT--SSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999888763  221   2456777788788889988888888887

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.16  E-value=5.1e-10  Score=118.62  Aligned_cols=209  Identities=8%  Similarity=-0.051  Sum_probs=155.4

Q ss_pred             HHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCCh-HHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHH
Q 006246          246 FEEARKLFNEMND---KDEITWSAIIDGYTKDGYY-KEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDH  321 (654)
Q Consensus       246 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  321 (654)
                      ++++...++....   .+...|..+...|...|++ ++|++.|++..+.. +-+...+..+..++...|++++|.+.++.
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3444445544332   2556677777777777777 77777777776653 22455666777777777777777777777


Q ss_pred             HHHcCCCCchhHHHHHHHHHHHc---------CCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHc--------CChhHH
Q 006246          322 VKRNSICVDAVLGTALVDMYAKC---------GRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMH--------GRADDA  381 (654)
Q Consensus       322 ~~~~~~~~~~~~~~~li~~y~~~---------g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~--------g~~~~A  381 (654)
                      +.+..  |+...+..+...|...         |++++|.+.|++...   .+...|..+...|...        |++++|
T Consensus       163 al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          163 ALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             HHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            77654  4456777777777777         888888888887654   3677888888888888        889999


Q ss_pred             HHHHHHHhhcCCC--CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          382 IELFFKMQREKMR--PDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       382 ~~l~~~m~~~g~~--p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      ++.|++..+....  -+...|..+..++...|++++|.+.|++..+.  -+.+...+..+..++...|++++|++.+.++
T Consensus       241 ~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          241 LSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            9999999886310  36778999999999999999999999999874  2234557888889999999999999877766

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.15  E-value=2.3e-09  Score=101.44  Aligned_cols=194  Identities=8%  Similarity=-0.035  Sum_probs=138.1

Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHH
Q 006246          295 RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGG  371 (654)
Q Consensus       295 ~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~  371 (654)
                      |...+......+...|++++|...+..+++...+++...+..+...|.+.|++++|.+.|++...   .+...|..+...
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   85 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAA   85 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHH
Confidence            45667777778888888888888888888876546666666688888888888888888887764   255678888888


Q ss_pred             HHHcCChhHHHHHHHHHhhcCCCCCH-------HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC---cchHHHHHH
Q 006246          372 LAMHGRADDAIELFFKMQREKMRPDR-------ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE---VEHYGCIVD  441 (654)
Q Consensus       372 ~~~~g~~~~A~~l~~~m~~~g~~p~~-------~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~---~~~~~~li~  441 (654)
                      |...|++++|+..|++..+.. +.+.       ..|..+...+...|++++|.+.|+++.+   +.|+   ...|..+..
T Consensus        86 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHHH
Confidence            888888888888888887753 1233       3466667777788888888888888764   3554   456667777


Q ss_pred             HHHHcCCH--HHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          442 LLGRAGYL--AEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       442 ~~~~~g~~--~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +|...|+.  ++|..+    . ..+...+....  ....+.+++|...++++++++|++.
T Consensus       162 ~~~~~~~~~~~~a~~~----~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~  214 (228)
T 4i17_A          162 LFYNNGADVLRKATPL----A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRT  214 (228)
T ss_dssp             HHHHHHHHHHHHHGGG----T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHHHHhc----c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCH
Confidence            77665543  222211    1 12333343332  3445668999999999999999984

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.12  E-value=2.9e-10  Score=112.92  Aligned_cols=158  Identities=20%  Similarity=0.203  Sum_probs=75.6

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC--------C---CcchHHHHHHHHHhcCCHHHHHHHHHhcCC-------C---
Q 006246          201 CWNALIDGYLKCGDIEGAKELFKSTKD--------K---NTGSYNAMISGFARFGRFEEARKLFNEMND-------K---  259 (654)
Q Consensus       201 ~~~~li~~~~~~g~~~~A~~~~~~m~~--------~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~---  259 (654)
                      +|..+...|...|++++|+.+|+++.+        .   ...++..+...|...|++++|...|++...       +   
T Consensus        29 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  108 (311)
T 3nf1_A           29 TLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHP  108 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            344444455555555555555444332        0   122344444444455555555444444321       1   


Q ss_pred             -CHhHHHHHHHHHHhcCChHHHHHHHHHHHhC------CCCC-CcchHHHHHHHHHhcCChhHHHHHHHHHHHc------
Q 006246          260 -DEITWSAIIDGYTKDGYYKEALEVFNEMQRD------KIKP-RKFVLSCVLAACASLGALDQGIWIHDHVKRN------  325 (654)
Q Consensus       260 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~------  325 (654)
                       ....|..+...|...|++++|+..|+++.+.      +-.| ....+..+...+...|++++|.+.+..+.+.      
T Consensus       109 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~  188 (311)
T 3nf1_A          109 AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLG  188 (311)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhC
Confidence             2335556666666666666666666665542      1111 1223444445555555555555555555443      


Q ss_pred             C-CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          326 S-ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       326 ~-~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                      + .+....++..+...|.+.|++++|.+.|+++.
T Consensus       189 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  222 (311)
T 3nf1_A          189 PDDPNVAKTKNNLASCYLKQGKFKQAETLYKEIL  222 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            1 11123344455555555555555555555443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.11  E-value=7.9e-08  Score=98.26  Aligned_cols=163  Identities=10%  Similarity=-0.040  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC----CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc-hhHHH--
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP----RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD-AVLGT--  335 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~--  335 (654)
                      .+..+...+...|++++|...+++........    ...++..+...+...|++++|...++...+....++ ...+.  
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~  216 (373)
T 1hz4_A          137 LVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISN  216 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHH
Confidence            45556667777778888777777766532111    112344455556666677777666666654311111 01111  


Q ss_pred             ---HHHHHHHHcCCHHHHHHHHhhcCCCC-------HHHHHHHHHHHHHcCChhHHHHHHHHHhhc----CCCCCHH-HH
Q 006246          336 ---ALVDMYAKCGRLDMAWKVFEDMKMKE-------VFTWNAMIGGLAMHGRADDAIELFFKMQRE----KMRPDRI-TF  400 (654)
Q Consensus       336 ---~li~~y~~~g~~~~A~~~~~~m~~~~-------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~~~-t~  400 (654)
                         ..+..+...|++++|...+++....+       ...+..+...+...|++++|...+++....    |..++.. .+
T Consensus       217 ~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~  296 (373)
T 1hz4_A          217 ANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNL  296 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHH
Confidence               22333556677777777666655421       123455556666666666666666655432    1111111 33


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          401 ACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       401 ~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ..+..++...|+.++|...++....
T Consensus       297 ~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          297 LLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3344445555555555555554443

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.10  E-value=6.5e-10  Score=122.77  Aligned_cols=163  Identities=13%  Similarity=0.132  Sum_probs=139.3

Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLS  405 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~  405 (654)
                      +...++.|...|.+.|++++|++.|++..+   .+..+|+.+...|.+.|++++|++.|++.++.  .| +...|..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            467788889999999999999999988764   36788999999999999999999999999886  34 4668889999


Q ss_pred             HHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChH
Q 006246          406 ACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVE  482 (654)
Q Consensus       406 ~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~  482 (654)
                      ++...|++++|++.|++..+.   .|+ ...|..+..+|.+.|++++|++.|++. ...| +...|..+...+...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            999999999999999998874   444 678899999999999999999999987 4445 5888999999999999999


Q ss_pred             HHHHHHHHHHhcCCC
Q 006246          483 FGERLGKILLEMEPQ  497 (654)
Q Consensus       483 ~a~~~~~~~~~~~p~  497 (654)
                      +|.+.+++++++.|+
T Consensus       163 ~A~~~~~kal~l~~~  177 (723)
T 4gyw_A          163 DYDERMKKLVSIVAD  177 (723)
T ss_dssp             THHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChh
Confidence            999999999986554

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.08  E-value=5.5e-09  Score=107.25  Aligned_cols=189  Identities=12%  Similarity=0.087  Sum_probs=105.9

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhcCC-----CC-----cchHHHHHHHHHhcCCHHHHHHHHHhcCC-----CC----H
Q 006246          201 CWNALIDGYLKCGDIEGAKELFKSTKD-----KN-----TGSYNAMISGFARFGRFEEARKLFNEMND-----KD----E  261 (654)
Q Consensus       201 ~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~  261 (654)
                      ++..+...|...|+++.|+..+++..+     ++     ..+++.+...|...|++++|.+.|++..+     .+    .
T Consensus       143 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  222 (378)
T 3q15_A          143 FHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIA  222 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            344445555555555555555544432     11     22455566666666666666666655432     11    3


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCC----CCchh
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQR-----DKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSI----CVDAV  332 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~  332 (654)
                      .+++.+...|...|++++|++.|++...     .. +....++..+...+.+.|++++|...++...+...    +....
T Consensus       223 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  301 (378)
T 3q15_A          223 ISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKE  301 (378)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            3567777777788888888888777765     22 22244555566666677777777777776665321    11223


Q ss_pred             HHHHHHHHHHHcCC---HHHHHHHHhhcCCC--CHHHHHHHHHHHHHcCChhHHHHHHHHHhh
Q 006246          333 LGTALVDMYAKCGR---LDMAWKVFEDMKMK--EVFTWNAMIGGLAMHGRADDAIELFFKMQR  390 (654)
Q Consensus       333 ~~~~li~~y~~~g~---~~~A~~~~~~m~~~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  390 (654)
                      .+..+...|...|+   +++|...+++....  ....+..+...|...|++++|...|++..+
T Consensus       302 ~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          302 LFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34445555555566   66666666654331  123445566666666666666666666543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.07  E-value=1.3e-08  Score=104.11  Aligned_cols=260  Identities=11%  Similarity=0.014  Sum_probs=113.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHhcCC--C--Ccc----hHHHHHHHHHhcCCHHHHHHHHHhcCC-----CCH----hHHHHH
Q 006246          205 LIDGYLKCGDIEGAKELFKSTKD--K--NTG----SYNAMISGFARFGRFEEARKLFNEMND-----KDE----ITWSAI  267 (654)
Q Consensus       205 li~~~~~~g~~~~A~~~~~~m~~--~--~~~----~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~----~~~~~l  267 (654)
                      ....+...|++++|...+++...  +  +..    +++.+...+...|++++|...+++...     .+.    .+++.+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            33445566777777776655432  1  111    234444555555666666555555432     111    123444


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhC----CCC--CC-cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          268 IDGYTKDGYYKEALEVFNEMQRD----KIK--PR-KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       268 i~~~~~~g~~~~A~~~~~~m~~~----g~~--p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      ...+...|++++|...+++....    +..  |. ...+..+...+...|++++|...+....+.......         
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~---------  170 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQP---------  170 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCG---------
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCc---------
Confidence            45555555555555555554431    111  11 112223333444444444444444444432211000         


Q ss_pred             HHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCH-HHHH-----HHHHHHHccCCHH
Q 006246          341 YAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDR-ITFA-----CVLSACAHAGMID  414 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~-----~ll~~~~~~g~~~  414 (654)
                                        .....+|..+...+...|++++|...+++.....-.++. ..+.     ..+..+...|+++
T Consensus       171 ------------------~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  232 (373)
T 1hz4_A          171 ------------------QQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKA  232 (373)
T ss_dssp             ------------------GGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ------------------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHH
Confidence                              001223444445555555555555555554432111110 0111     1112244555555


Q ss_pred             HHHHHHHHHHHHcCCCCC-----cchHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCCH-HHHHHHHHHHHHhCCh
Q 006246          415 RGLQALTYMQQMYGIDPE-----VEHYGCIVDLLGRAGYLAEAEEVISSM-------PMEPNA-AVWEALLGACRKHGEV  481 (654)
Q Consensus       415 ~a~~~~~~~~~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~~-~~~~~ll~~~~~~g~~  481 (654)
                      +|...++.....   .|.     ...+..+..++...|++++|.+.+++.       +..++. .++..+..++...|+.
T Consensus       233 ~A~~~~~~a~~~---~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  309 (373)
T 1hz4_A          233 AAANWLRHTAKP---EFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRK  309 (373)
T ss_dssp             HHHHHHHHSCCC---CCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHhCCCC---CCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCH
Confidence            555555544321   111     012334455555556666655555543       111111 2444455556666666


Q ss_pred             HHHHHHHHHHHhc
Q 006246          482 EFGERLGKILLEM  494 (654)
Q Consensus       482 ~~a~~~~~~~~~~  494 (654)
                      ++|...+++++++
T Consensus       310 ~~A~~~l~~al~~  322 (373)
T 1hz4_A          310 SDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666665543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.07  E-value=4e-09  Score=104.03  Aligned_cols=167  Identities=9%  Similarity=-0.086  Sum_probs=112.5

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----C----HHHHHHHHHHHHHc-CChhHHHHHHHHHhhcCCCC-C----
Q 006246          332 VLGTALVDMYAKCGRLDMAWKVFEDMKMK-----E----VFTWNAMIGGLAMH-GRADDAIELFFKMQREKMRP-D----  396 (654)
Q Consensus       332 ~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----~----~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~g~~p-~----  396 (654)
                      .+++.+..+|.+.|++++|...|++...-     +    ..+|+.+...|... |++++|+..|++..+..... +    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            45556666666666666666666655431     1    34677888888886 99999999988887631110 1    


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcc-----hHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCH-----
Q 006246          397 RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVE-----HYGCIVDLLGRAGYLAEAEEVISSM-PMEPNA-----  465 (654)
Q Consensus       397 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~-----~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-----  465 (654)
                      ..++..+...+...|++++|+..|++..+...-.+...     .|..+..++...|++++|...+++. .+.|+.     
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~  237 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRE  237 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence            34677888889999999999999999887421112211     4677788888999999999999887 344432     


Q ss_pred             -HHHHHHHHHHH--HhCChHHHHHHHHHHHhcCCCC
Q 006246          466 -AVWEALLGACR--KHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       466 -~~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                       ..+..++.++.  ..+++++|+..|++++.++|..
T Consensus       238 ~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~  273 (292)
T 1qqe_A          238 SNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWK  273 (292)
T ss_dssp             HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHH
Confidence             23445566664  3467888888888888877754

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.04  E-value=1.7e-08  Score=91.35  Aligned_cols=155  Identities=17%  Similarity=0.152  Sum_probs=78.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC
Q 006246          234 NAMISGFARFGRFEEARKLFNEMNDK---DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLG  310 (654)
Q Consensus       234 ~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g  310 (654)
                      ..+...+...|++++|...|+++.+.   +...|..+...+...|++++|...++++.+.. +                 
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~-----------------   73 (186)
T 3as5_A           12 RDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-P-----------------   73 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T-----------------
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-C-----------------
Confidence            33444444455555555555544431   34445555555555555555555555554432 1                 


Q ss_pred             ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 006246          311 ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFK  387 (654)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~  387 (654)
                                        .+..++..+...|...|++++|.+.|+++..   .+...|..+...+...|++++|++.+++
T Consensus        74 ------------------~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~  135 (186)
T 3as5_A           74 ------------------DNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKI  135 (186)
T ss_dssp             ------------------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ------------------CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence                              2233334444444444444444444444332   2344555555555556666666666666


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          388 MQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       388 m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      +.+.. +.+...+..+...+...|++++|...++.+.+
T Consensus       136 ~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  172 (186)
T 3as5_A          136 ALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANE  172 (186)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55542 22345555566666666666666666666554

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.02  E-value=7.3e-09  Score=100.91  Aligned_cols=163  Identities=12%  Similarity=0.031  Sum_probs=95.1

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHhhcCC----------C-CHHHHHHHHHHHHHcCChhHHHHHHHHHhhc------CCC
Q 006246          332 VLGTALVDMYAKCGRLDMAWKVFEDMKM----------K-EVFTWNAMIGGLAMHGRADDAIELFFKMQRE------KMR  394 (654)
Q Consensus       332 ~~~~~li~~y~~~g~~~~A~~~~~~m~~----------~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~~  394 (654)
                      .++..+...|...|++++|.+.|++...          + ...+|..+...|...|++++|+..|+++.+.      +-.
T Consensus        86 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  165 (283)
T 3edt_B           86 ATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDD  165 (283)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC
Confidence            3445555555555666665555554432          1 2345666777777777777777777776653      112


Q ss_pred             C-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHc------CCCCCc-chHHHHHHHHHH------cCCHHHHHHHHHhCC
Q 006246          395 P-DRITFACVLSACAHAGMIDRGLQALTYMQQMY------GIDPEV-EHYGCIVDLLGR------AGYLAEAEEVISSMP  460 (654)
Q Consensus       395 p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~------g~~p~~-~~~~~li~~~~~------~g~~~~A~~~~~~m~  460 (654)
                      | ...++..+...+...|++++|..+++++.+..      ...+.. ..+..+...+..      ...+.++...++...
T Consensus       166 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (283)
T 3edt_B          166 PNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACK  245 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCC
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcC
Confidence            2 23467777778888888888888888776531      112222 233333333333      223455555555553


Q ss_pred             -CCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          461 -MEP-NAAVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       461 -~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                       ..| ...++..+...|...|++++|...+++++++
T Consensus       246 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          246 VDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             223 3667888999999999999999999999875

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=98.98  E-value=9.9e-09  Score=113.32  Aligned_cols=161  Identities=9%  Similarity=-0.012  Sum_probs=98.9

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      ..+|+.+...|.+.|++++|++.|++.++.. +-+...+..+..++.+.|++++|++.|+++++.. +.+...+..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3456666666666666666666666665542 1233455555666666666666666666666554 2345566666666


Q ss_pred             HHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHccCCHHHH
Q 006246          341 YAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLSACAHAGMIDRG  416 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a  416 (654)
                      |.+.|++++|++.|++..+   .+...|+.+...|.+.|++++|++.|++.++.  .| +...+..+..++...|++++|
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHH
Confidence            6666666666666665543   35566677777777777777777777776664  33 344666666677777777666


Q ss_pred             HHHHHHHHH
Q 006246          417 LQALTYMQQ  425 (654)
Q Consensus       417 ~~~~~~~~~  425 (654)
                      .+.++++.+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666666544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.98  E-value=2.4e-08  Score=96.60  Aligned_cols=179  Identities=11%  Similarity=-0.003  Sum_probs=117.4

Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---C---HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC-CCC-HHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKMK---E---VFTWNAMIGGLAMHGRADDAIELFFKMQREKM-RPD-RITFA  401 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~-~~t~~  401 (654)
                      +...+..+...+.+.|++++|...|+++...   +   ...|..+..+|.+.|++++|+..|++..+... .|+ ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            3444445556666666666666666666542   2   44566666666677777777777776666421 111 23444


Q ss_pred             HHHHHHHc--------cCCHHHHHHHHHHHHHHcCCCCC-cchH-----------------HHHHHHHHHcCCHHHHHHH
Q 006246          402 CVLSACAH--------AGMIDRGLQALTYMQQMYGIDPE-VEHY-----------------GCIVDLLGRAGYLAEAEEV  455 (654)
Q Consensus       402 ~ll~~~~~--------~g~~~~a~~~~~~~~~~~g~~p~-~~~~-----------------~~li~~~~~~g~~~~A~~~  455 (654)
                      .+..++..        .|++++|...|+++.+.+   |+ ....                 ..+...|.+.|++++|+..
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY---PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC---TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHC---cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            55555555        667777777777766642   22 2222                 5568889999999999999


Q ss_pred             HHhC----CCCC-CHHHHHHHHHHHHHh----------CChHHHHHHHHHHHhcCCCCCCchHHHHHHHHH
Q 006246          456 ISSM----PMEP-NAAVWEALLGACRKH----------GEVEFGERLGKILLEMEPQNRRCDDVAKMRKLM  511 (654)
Q Consensus       456 ~~~m----~~~p-~~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m  511 (654)
                      |+++    |..+ ....+..+..+|...          |++++|+..++++++..|+++...++......+
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~  241 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRA  241 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHH
Confidence            9887    2222 256788888888866          889999999999999999997555555544433

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.97  E-value=1.5e-08  Score=86.15  Aligned_cols=132  Identities=18%  Similarity=0.198  Sum_probs=104.9

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHH
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLL  443 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~  443 (654)
                      .|..+...+...|++++|+.+|+++.+.. +.+...+..+...+...|++++|..+++++.+.  .+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            56777788888888888888888887754 335667777788888888888888888888774  233456777888888


Q ss_pred             HHcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          444 GRAGYLAEAEEVISSM-P-MEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       444 ~~~g~~~~A~~~~~~m-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      .+.|++++|.+.++++ . .+.+..+|..+...+...|++++|...++++++.+|++
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  136 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRS  136 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCCC
Confidence            8999999999888876 2 23467888889999999999999999999999988863

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.96  E-value=7.1e-08  Score=93.54  Aligned_cols=191  Identities=10%  Similarity=0.024  Sum_probs=136.4

Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-----CCHHHHHHHHHHHHHcCChhHHHHHHHHHh
Q 006246          315 GIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-----KEVFTWNAMIGGLAMHGRADDAIELFFKMQ  389 (654)
Q Consensus       315 a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  389 (654)
                      +...++...+.+ .++......+..+|...|++++|++++.+...     .+...+-.++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            556666665554 34444555778888888999999888887743     245677778888899999999999999987


Q ss_pred             hcCCCC-----CHHHHHHHHHHH--HccC--CHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-
Q 006246          390 REKMRP-----DRITFACVLSAC--AHAG--MIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-  459 (654)
Q Consensus       390 ~~g~~p-----~~~t~~~ll~~~--~~~g--~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-  459 (654)
                      +.  .|     +..+...|..++  ...|  +..+|..+|+++.+.   .|+......+..++.+.|++++|.+.++.+ 
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            74  56     356666666653  2234  888999999998653   344233344455788999999999998764 


Q ss_pred             CC----------CC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC---CchHHHHHHHHHHh
Q 006246          460 PM----------EP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR---RCDDVAKMRKLMKE  513 (654)
Q Consensus       460 ~~----------~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~a~~~~~~m~~  513 (654)
                      ..          .| |+.+...++......|+  .|.++++++.+..|+++   .+.+....|..+..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d~~~k~~~Fd~~~~  304 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKHHQEIDAKFDELVR  304 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHH
Confidence            11          24 56777667766677786  88999999999999998   66666666766654

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=98.96  E-value=6e-09  Score=101.55  Aligned_cols=210  Identities=12%  Similarity=0.027  Sum_probs=126.4

Q ss_pred             HHHHHHHhcCCC----CHhHHHHHHHHHHhcCChHHHHHHHHHHHhC------CCCC-CcchHHHHHHHHHhcCChhHHH
Q 006246          248 EARKLFNEMNDK----DEITWSAIIDGYTKDGYYKEALEVFNEMQRD------KIKP-RKFVLSCVLAACASLGALDQGI  316 (654)
Q Consensus       248 ~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~t~~~ll~~~~~~g~~~~a~  316 (654)
                      +|++++++...+    ...+|..+...|...|++++|+..|++....      +-.| ...++..+...+...|++++|.
T Consensus        26 ~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  105 (283)
T 3edt_B           26 QALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAE  105 (283)
T ss_dssp             HHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHH
Confidence            344444444322    2445666777777777777777777766543      1112 2345666666777777777777


Q ss_pred             HHHHHHHHc------C-CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-----------CHHHHHHHHHHHHHcCCh
Q 006246          317 WIHDHVKRN------S-ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-----------EVFTWNAMIGGLAMHGRA  378 (654)
Q Consensus       317 ~~~~~~~~~------~-~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-----------~~~~~~~li~~~~~~g~~  378 (654)
                      ..+..+.+.      . .+....++..+...|...|++++|...|+++...           ...++..+...|...|++
T Consensus       106 ~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  185 (283)
T 3edt_B          106 PLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKY  185 (283)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCH
Confidence            777776654      1 1234566777888888888888888888766432           245788888889999999


Q ss_pred             hHHHHHHHHHhhc-------CCCCCHH-HHHHHHHHHHccCC------HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHH
Q 006246          379 DDAIELFFKMQRE-------KMRPDRI-TFACVLSACAHAGM------IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLG  444 (654)
Q Consensus       379 ~~A~~l~~~m~~~-------g~~p~~~-t~~~ll~~~~~~g~------~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~  444 (654)
                      ++|+.+|+++.+.       ...+... .+..+.......+.      +..+...++....  ..+.....+..+..+|.
T Consensus       186 ~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~la~~~~  263 (283)
T 3edt_B          186 QDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--DSPTVNTTLRSLGALYR  263 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHH
Confidence            9999999888763       1233333 23333222222222      2222222221110  00112346788999999


Q ss_pred             HcCCHHHHHHHHHhC
Q 006246          445 RAGYLAEAEEVISSM  459 (654)
Q Consensus       445 ~~g~~~~A~~~~~~m  459 (654)
                      +.|++++|.+++++.
T Consensus       264 ~~g~~~~A~~~~~~a  278 (283)
T 3edt_B          264 RQGKLEAAHTLEDCA  278 (283)
T ss_dssp             HTTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHH
Confidence            999999999999864

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=98.92  E-value=8.5e-08  Score=90.44  Aligned_cols=188  Identities=9%  Similarity=-0.011  Sum_probs=107.2

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      |+..|......+...|++++|+..|++..+...+++...+..+..++...|++++|...+..+.+.. +.+..++..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            3455556666666666666666666666655432455555556666666666666666666666544 234556666666


Q ss_pred             HHHHcCCHHHHHHHHhhcCC---CCH-------HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC---HHHHHHHHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKM---KEV-------FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD---RITFACVLSA  406 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~---~~~-------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~t~~~ll~~  406 (654)
                      .|.+.|++++|.+.|++...   .+.       ..|..+...+...|++++|++.|++..+.  .|+   ...+..+...
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHH
Confidence            67777777777776666543   233       34666666677777777777777777664  444   2345555555


Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      +..     .+..+++.+... + ..+...|...  .....+.+++|+..+++.
T Consensus       163 ~~~-----~~~~~~~~a~~~-~-~~~~~~~~~~--~~~~~~~~~~A~~~~~~a  206 (228)
T 4i17_A          163 FYN-----NGADVLRKATPL-A-SSNKEKYASE--KAKADAAFKKAVDYLGEA  206 (228)
T ss_dssp             HHH-----HHHHHHHHHGGG-T-TTCHHHHHHH--HHHHHHHHHHHHHHHHHH
T ss_pred             HHH-----HHHHHHHHHHhc-c-cCCHHHHHHH--HHHHHHHHHHHHHHHHHH
Confidence            533     233344444331 1 1222233222  233455677777777765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.89  E-value=9e-08  Score=94.22  Aligned_cols=160  Identities=13%  Similarity=0.011  Sum_probs=105.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHc----CCCC-chhHHHHHHHHHHHc-CCHHHHHHHHhhcCCC-----C----H
Q 006246          298 VLSCVLAACASLGALDQGIWIHDHVKRN----SICV-DAVLGTALVDMYAKC-GRLDMAWKVFEDMKMK-----E----V  362 (654)
Q Consensus       298 t~~~ll~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~y~~~-g~~~~A~~~~~~m~~~-----~----~  362 (654)
                      +|..+..++...|++++|...+..+++.    |-.. -..+++.+..+|... |++++|...|++...-     +    .
T Consensus        79 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~  158 (292)
T 1qqe_A           79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHH
Confidence            4444444455555555555555444432    1000 134566788888885 9999988888876541     1    3


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH------HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcc--
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI------TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVE--  434 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~------t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~--  434 (654)
                      .+|+.+...|.+.|++++|+..|++..+........      .|..+..++...|++++|...|++..+   +.|+..  
T Consensus       159 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~  235 (292)
T 1qqe_A          159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS---EDPNFADS  235 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC---C-------
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCCCc
Confidence            468888999999999999999999998854332221      567777788899999999999998764   445422  


Q ss_pred             ----hHHHHHHHHH--HcCCHHHHHHHHHhCC
Q 006246          435 ----HYGCIVDLLG--RAGYLAEAEEVISSMP  460 (654)
Q Consensus       435 ----~~~~li~~~~--~~g~~~~A~~~~~~m~  460 (654)
                          .+..++..+.  ..+++++|++.|+++.
T Consensus       236 ~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          236 RESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             --HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence                2344555554  4678999999998873

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.83  E-value=3.1e-06  Score=89.47  Aligned_cols=370  Identities=8%  Similarity=-0.020  Sum_probs=219.0

Q ss_pred             CC-ChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCC-cHHHHHHHH
Q 006246           80 FS-NFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEA-DKEGVQVHA  157 (654)
Q Consensus        80 ~g-~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~-~~~a~~~~~  157 (654)
                      .| +++.|+.+|+.+..           .+-. |+++.+..+|++....  .|+...|...++-..+.++ .+....+|+
T Consensus         7 ~~~~i~~aR~vyer~l~-----------~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe   72 (493)
T 2uy1_A            7 MGVELSSPSAIMEHARR-----------LYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYE   72 (493)
T ss_dssp             -----CCHHHHHHHHHH-----------HHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHH
T ss_pred             cCcchHHHHHHHHHHHH-----------HCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHH
Confidence            56 48888888887542           1111 8899999999999874  5788888887777655553 456778888


Q ss_pred             HHHHh-CCCC-ChhhHHHHHHHHH----hcCCHHHHHHHHhcCCCCChhhHHHHHHHHH---HcCCHHHHHHHHHhcCCC
Q 006246          158 HVVKN-GLCG-DVHVKSSGIQMYA----CFGCVNKARQILDDGSKSDVICWNALIDGYL---KCGDIEGAKELFKSTKDK  228 (654)
Q Consensus       158 ~~~~~-g~~~-~~~~~~~li~~y~----~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~---~~g~~~~A~~~~~~m~~~  228 (654)
                      .++.. |..+ +..+|...+..+.    ..++++.++++|++........+..+-..|.   +......+.+++.+..  
T Consensus        73 ~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~--  150 (493)
T 2uy1_A           73 FTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTL--  150 (493)
T ss_dssp             HHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHH--
T ss_pred             HHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHh--
Confidence            88765 5433 5677888777764    3467888999998863211112222222221   1122222332222210  


Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhcCC----CCHhHHHHHHHHHHhcC--C-----hHHHHHHHHHHHhCCCCCCcc
Q 006246          229 NTGSYNAMISGFARFGRFEEARKLFNEMND----KDEITWSAIIDGYTKDG--Y-----YKEALEVFNEMQRDKIKPRKF  297 (654)
Q Consensus       229 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g--~-----~~~A~~~~~~m~~~g~~p~~~  297 (654)
                                     +.+..|..+++.+..    .+...|...+.--..++  -     .+.+..+|++++... +-+..
T Consensus       151 ---------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~  214 (493)
T 2uy1_A          151 ---------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEE  214 (493)
T ss_dssp             ---------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHH
T ss_pred             ---------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHH
Confidence                           112222222222211    23345555554322221  1     234566777777642 33445


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHH-HHHHhhcC------------CCCHHH
Q 006246          298 VLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMA-WKVFEDMK------------MKEVFT  364 (654)
Q Consensus       298 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A-~~~~~~m~------------~~~~~~  364 (654)
                      .|...+.-+...|+.+.|..+++.+.+.  +.+...+.    .|+...+.++. ..+.+...            ......
T Consensus       215 lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l  288 (493)
T 2uy1_A          215 VYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLL  288 (493)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHHHHHHHHHTC----------CHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHH
Confidence            5655666667778888888888888777  33333332    22222111111 11111110            012245


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc-cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHH
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAH-AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLL  443 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~-~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~  443 (654)
                      |-..+..+.+.+..+.|..+|++. +. ..++...|......-.. .++.+.|..+|+...+.++-  +...+...++..
T Consensus       289 w~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~--~~~~~~~yid~e  364 (493)
T 2uy1_A          289 RINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPD--STLLKEEFFLFL  364 (493)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTT--CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCC--CHHHHHHHHHHH
Confidence            777777777788899999999999 32 12244444432222222 33699999999999986432  234567778888


Q ss_pred             HHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          444 GRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       444 ~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      .+.|+.+.|..+|+++.  .....|...+.--..+|+.+.+..++++..+
T Consensus       365 ~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          365 LRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            89999999999999984  3688999999988999999999988887754

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.81  E-value=8.3e-08  Score=89.19  Aligned_cols=127  Identities=7%  Similarity=-0.046  Sum_probs=99.1

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHH
Q 006246          367 AMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGR  445 (654)
Q Consensus       367 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~  445 (654)
                      .+...|.+.|++++|+..|++.++.. +-+...+..+...+...|++++|...|+++.+.   .| +...+..+...|..
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHH
Confidence            38888999999999999999998864 235678888999999999999999999999874   44 46678888888876


Q ss_pred             cCC--HHHHHHHHHhCCCCCC--HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          446 AGY--LAEAEEVISSMPMEPN--AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       446 ~g~--~~~A~~~~~~m~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      .|.  .+++...++... .|+  ...|..+..++...|++++|+..+++++++.|+.
T Consensus       135 ~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          135 TAEQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HhHHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            654  445666666653 344  3445566777888999999999999999999974

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.78  E-value=2.7e-07  Score=89.53  Aligned_cols=175  Identities=13%  Similarity=0.086  Sum_probs=98.2

Q ss_pred             HHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          280 ALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSI-CVDAVLGTALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       280 A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                      |+..|++....+ .++..++..+..++...|++++|.+++...+..+. ..+...+..++..|.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            555555555443 34444444555566666666666666666555442 2345555566677777777777777776665


Q ss_pred             CCC-------HHHHHHHHHH--HHHcC--ChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHc
Q 006246          359 MKE-------VFTWNAMIGG--LAMHG--RADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMY  427 (654)
Q Consensus       359 ~~~-------~~~~~~li~~--~~~~g--~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~  427 (654)
                      +.+       -.+...|..+  ....|  ++++|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+.+
T Consensus       164 ~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          164 NAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             HHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             hcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            422       2334444444  22223  677777777777554  3443333344446677777777777777655421


Q ss_pred             C--------CCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          428 G--------IDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       428 g--------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .        -+-+..+...+|......|+  +|.++++++
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL  279 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQL  279 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHH
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHH
Confidence            0        02234445455555555665  667777666

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.78  E-value=1.3e-07  Score=93.90  Aligned_cols=165  Identities=12%  Similarity=0.041  Sum_probs=108.7

Q ss_pred             HHHHHcCCHHHHHHHHhhcCCC-----C----HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC---CCC--HHHHHHHH
Q 006246          339 DMYAKCGRLDMAWKVFEDMKMK-----E----VFTWNAMIGGLAMHGRADDAIELFFKMQREKM---RPD--RITFACVL  404 (654)
Q Consensus       339 ~~y~~~g~~~~A~~~~~~m~~~-----~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~---~p~--~~t~~~ll  404 (654)
                      ..|...|++++|...|.+...-     +    ..+|+.+...|...|++++|+..|++..+.-.   .|.  ..++..+.
T Consensus        44 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  123 (307)
T 2ifu_A           44 VAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAG  123 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555666666666666654421     1    34677777778888888888888877654210   111  24666777


Q ss_pred             HHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhCC----CCCC----HHHHHHHH
Q 006246          405 SACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSMP----MEPN----AAVWEALL  472 (654)
Q Consensus       405 ~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~p~----~~~~~~ll  472 (654)
                      ..|.. |++++|+..|++..+.+.-..+    ..++..+..+|.+.|++++|++.|++.-    ..++    ...+..++
T Consensus       124 ~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g  202 (307)
T 2ifu_A          124 KLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQV  202 (307)
T ss_dssp             HHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHH
Confidence            77777 8888888888887664211111    3467778888888888888888888761    1111    23566666


Q ss_pred             HHHHHhCChHHHHHHHHHHHhcCCCCCCchHHH
Q 006246          473 GACRKHGEVEFGERLGKILLEMEPQNRRCDDVA  505 (654)
Q Consensus       473 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~  505 (654)
                      ..+...|++++|...+++++ ++|+.....++.
T Consensus       203 ~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~  234 (307)
T 2ifu_A          203 LVQLHRADYVAAQKCVRESY-SIPGFSGSEDCA  234 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHH
Confidence            77777889999999999988 888776444443

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.75  E-value=2.2e-07  Score=102.99  Aligned_cols=188  Identities=11%  Similarity=-0.025  Sum_probs=150.3

Q ss_pred             HhcCChhHHHHHHHHHH--------HcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHc
Q 006246          307 ASLGALDQGIWIHDHVK--------RNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMH  375 (654)
Q Consensus       307 ~~~g~~~~a~~~~~~~~--------~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~  375 (654)
                      ...|++++|.+.++.+.        +.. +.+...+..+...|.+.|++++|.+.|+++.+   .+...|..+...|...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            77899999999999988        332 44677888899999999999999999998875   4778999999999999


Q ss_pred             CChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHH
Q 006246          376 GRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEV  455 (654)
Q Consensus       376 g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  455 (654)
                      |++++|++.|++..+.. +-+...+..+..++.+.|++++ .+.|+++.+.  -+.+...|..+..+|.+.|++++|++.
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999864 2256688889999999999999 9999999874  233467889999999999999999999


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHHHhCC-----hHHHHHHHHHHHhcCCCCC
Q 006246          456 ISSM-PMEPN-AAVWEALLGACRKHGE-----VEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       456 ~~~m-~~~p~-~~~~~~ll~~~~~~g~-----~~~a~~~~~~~~~~~p~~~  499 (654)
                      |++. ...|+ ...|..+..++...|+     .+...++.+.+.++.++++
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~  607 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEP  607 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTST
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcH
Confidence            9998 46675 6778888888877665     3444555555555655554

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=98.74  E-value=2.3e-07  Score=78.51  Aligned_cols=125  Identities=21%  Similarity=0.226  Sum_probs=57.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYA  342 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~  342 (654)
                      .|..+...+...|++++|+.+|+++.+.+ +.+...+..+...+...|++++|...+..+.+.. +.+...+..+...|.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            34555566666666666666666665432 2233344444444445555555555555544432 122333334444444


Q ss_pred             HcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHh
Q 006246          343 KCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQ  389 (654)
Q Consensus       343 ~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  389 (654)
                      +.|++++|.+.|+++..   .+...|..+...+.+.|++++|...|+++.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            44444444444443321   123333444444444444444444444443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.72  E-value=3.7e-06  Score=82.29  Aligned_cols=219  Identities=9%  Similarity=0.045  Sum_probs=160.6

Q ss_pred             CChHHHHHHHHHHHhCCCCCCcc-hHHHHHHHHHhcC--ChhHHHHHHHHHHHcCCCCchhHHHHHHHHH----HHc---
Q 006246          275 GYYKEALEVFNEMQRDKIKPRKF-VLSCVLAACASLG--ALDQGIWIHDHVKRNSICVDAVLGTALVDMY----AKC---  344 (654)
Q Consensus       275 g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y----~~~---  344 (654)
                      ...++|++++..++..  .|+.. .++.--.++...+  +++++++.++.++... +-+..+|+.-...+    .+.   
T Consensus        47 e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           47 EYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhcccc
Confidence            3445777777777664  34333 3444455555666  7777777777777665 33445555444444    444   


Q ss_pred             CCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChh--HHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC------H
Q 006246          345 GRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRAD--DAIELFFKMQREKMRPDRITFACVLSACAHAGM------I  413 (654)
Q Consensus       345 g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~--~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~------~  413 (654)
                      +++++++++++++..   +|..+|+.-.-.+.+.|.++  ++++.++++++..+. |...|+.-.....+.+.      +
T Consensus       124 ~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhH
Confidence            678889888888875   57788988888888889888  999999999987644 77777777666777776      8


Q ss_pred             HHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHH-HHHHHHhCC-C----CCCHHHHHHHHHHHHHhCChHHHHHH
Q 006246          414 DRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAE-AEEVISSMP-M----EPNAAVWEALLGACRKHGEVEFGERL  487 (654)
Q Consensus       414 ~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~m~-~----~p~~~~~~~ll~~~~~~g~~~~a~~~  487 (654)
                      +++++.+..+...  -+-|...|+.+..++.+.|+..+ +.+++++.- .    ..+...+..+...+.+.|+.++|.++
T Consensus       203 ~eEl~~~~~aI~~--~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          203 DEELNYVKDKIVK--CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            9999999998874  34567778888888989888555 556777652 1    34788999999999999999999999


Q ss_pred             HHHHHh-cCCCCC
Q 006246          488 GKILLE-MEPQNR  499 (654)
Q Consensus       488 ~~~~~~-~~p~~~  499 (654)
                      ++.+.+ .+|-..
T Consensus       281 ~~~l~~~~Dpir~  293 (306)
T 3dra_A          281 YDLLKSKYNPIRS  293 (306)
T ss_dssp             HHHHHHTTCGGGH
T ss_pred             HHHHHhccChHHH
Confidence            999997 788753

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.72  E-value=2e-07  Score=83.90  Aligned_cols=155  Identities=14%  Similarity=0.012  Sum_probs=115.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH-HHc
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA-CAH  409 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~-~~~  409 (654)
                      ...+...+.+.|++++|...|++...   .+...|..+...+...|++++|+..|++..+..  |+...+..+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            44566778888999999999988875   367788889999999999999999998887653  344332222111 112


Q ss_pred             cCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC---HHHHHHHHHHHHHhCChHHH
Q 006246          410 AGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN---AAVWEALLGACRKHGEVEFG  484 (654)
Q Consensus       410 ~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~---~~~~~~ll~~~~~~g~~~~a  484 (654)
                      .+...++...+++..+.   .| +...+..+..+|...|++++|.+.|+++ ...|+   ...|..+...+...|+.++|
T Consensus        87 ~~~~~~a~~~~~~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA---NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            22233467888888763   44 4678888999999999999999999876 44443   66889999999999999999


Q ss_pred             HHHHHHHHh
Q 006246          485 ERLGKILLE  493 (654)
Q Consensus       485 ~~~~~~~~~  493 (654)
                      ...|++++.
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988765

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.71  E-value=4e-07  Score=87.80  Aligned_cols=183  Identities=8%  Similarity=-0.034  Sum_probs=90.5

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhcCCC---C---HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC-cchHH
Q 006246          229 NTGSYNAMISGFARFGRFEEARKLFNEMNDK---D---EITWSAIIDGYTKDGYYKEALEVFNEMQRDKI-KPR-KFVLS  300 (654)
Q Consensus       229 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~t~~  300 (654)
                      +...+..+...+.+.|++++|...|+++.+.   +   ...+..+..+|.+.|++++|+..|++..+... .|. ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            3444555555566666666666666655431   2   34455555566666666666666666555321 011 12233


Q ss_pred             HHHHHHHh--------cCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHH
Q 006246          301 CVLAACAS--------LGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGL  372 (654)
Q Consensus       301 ~ll~~~~~--------~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~  372 (654)
                      .+..++..        .|++++|...+..+++... .+.....++.......+.              -...+..+...|
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~a~~~~~~~~~~--------------~~~~~~~la~~~  158 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYP-NHELVDDATQKIRELRAK--------------LARKQYEAARLY  158 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCT-TCTTHHHHHHHHHHHHHH--------------HHHHHHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHHCc-CchhHHHHHHHHHHHHHH--------------HHHHHHHHHHHH
Confidence            33444444        5555555555555554431 111221111111000000              011134556667


Q ss_pred             HHcCChhHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHcc----------CCHHHHHHHHHHHHHH
Q 006246          373 AMHGRADDAIELFFKMQREKMRP--DRITFACVLSACAHA----------GMIDRGLQALTYMQQM  426 (654)
Q Consensus       373 ~~~g~~~~A~~l~~~m~~~g~~p--~~~t~~~ll~~~~~~----------g~~~~a~~~~~~~~~~  426 (654)
                      .+.|++++|+..|+++.+.....  ....+..+..++...          |++++|...|+.+.+.
T Consensus       159 ~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          159 ERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            77777777777777776642111  123455555555544          6667777777776664

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.68  E-value=3e-07  Score=101.88  Aligned_cols=165  Identities=9%  Similarity=-0.051  Sum_probs=120.2

Q ss_pred             HHcCCHHHHHHHHHhcC--------C---CCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcC
Q 006246          210 LKCGDIEGAKELFKSTK--------D---KNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDG  275 (654)
Q Consensus       210 ~~~g~~~~A~~~~~~m~--------~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g  275 (654)
                      ...|++++|++.|++..        +   .+...+..+...|.+.|++++|.+.|++..+   .+...|..+...|.+.|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g  481 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLTG  481 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHT
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHcC
Confidence            67888888888888776        2   3556777888888888888888888887764   36677888888888888


Q ss_pred             ChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHh
Q 006246          276 YYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFE  355 (654)
Q Consensus       276 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~  355 (654)
                      ++++|++.|++..+.. +-+...+..+..++.+.|++++ .+.|+.+.+.. +.+...+..+..+|.+.|++++|.+.|+
T Consensus       482 ~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~  558 (681)
T 2pzi_A          482 DYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLD  558 (681)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            8888888888887753 2245567777777888888888 88888887765 3456677777888888888888888888


Q ss_pred             hcCCC---CHHHHHHHHHHHHHcCC
Q 006246          356 DMKMK---EVFTWNAMIGGLAMHGR  377 (654)
Q Consensus       356 ~m~~~---~~~~~~~li~~~~~~g~  377 (654)
                      +..+.   +...|..+..++...++
T Consensus       559 ~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          559 EVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             TSCTTSTTHHHHHHHHHHHTC----
T ss_pred             hhcccCcccHHHHHHHHHHHHccCC
Confidence            77653   34566666666655443

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.68  E-value=3.3e-07  Score=99.54  Aligned_cols=152  Identities=8%  Similarity=-0.064  Sum_probs=101.6

Q ss_pred             CCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 006246          345 GRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALT  421 (654)
Q Consensus       345 g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  421 (654)
                      |++++|.+.|++..+   .+...|..+...|.+.|++++|++.|++..+.. +.+...+..+...+...|++++|.+.++
T Consensus         3 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             ------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            566777777776654   245677777778888888888888888877753 2245677777777888888888888888


Q ss_pred             HHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHh---CChHHHHHHHHHHHhcCC
Q 006246          422 YMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKH---GEVEFGERLGKILLEMEP  496 (654)
Q Consensus       422 ~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~p  496 (654)
                      +..+.  -+.+...+..+..+|.+.|++++|.+.+++. ...| +...+..+...+...   |+.++|...++++++.+|
T Consensus        82 ~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p  159 (568)
T 2vsy_A           82 QASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGV  159 (568)
T ss_dssp             HHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTC
T ss_pred             HHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCC
Confidence            87764  1234567777888888888888888888776 2233 577788888888888   888888888888888888


Q ss_pred             CCC
Q 006246          497 QNR  499 (654)
Q Consensus       497 ~~~  499 (654)
                      ++.
T Consensus       160 ~~~  162 (568)
T 2vsy_A          160 GAV  162 (568)
T ss_dssp             CCS
T ss_pred             ccc
Confidence            764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.66  E-value=5.7e-07  Score=84.59  Aligned_cols=181  Identities=13%  Similarity=0.048  Sum_probs=107.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCC--chhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C-CH---HHHHHHH
Q 006246          298 VLSCVLAACASLGALDQGIWIHDHVKRNSICV--DAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K-EV---FTWNAMI  369 (654)
Q Consensus       298 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~---~~~~~li  369 (654)
                      .+..+...+...|++++|...++.+++.....  ....+..+..+|.+.|++++|...|+++.+  | +.   .++..+.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g   85 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRG   85 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHH
Confidence            34444556667777777777777777653221  124555666777777777777777776653  2 11   1344444


Q ss_pred             HHHHH------------------cCChhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCC
Q 006246          370 GGLAM------------------HGRADDAIELFFKMQREKMRPDRI-TFACVLSACAHAGMIDRGLQALTYMQQMYGID  430 (654)
Q Consensus       370 ~~~~~------------------~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~  430 (654)
                      .++..                  .|+.++|+..|+++++.  .|+.. .......    .      ..+...+.      
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----l------~~~~~~~~------  147 (225)
T 2yhc_A           86 LTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----L------VFLKDRLA------  147 (225)
T ss_dssp             HHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----H------HHHHHHHH------
T ss_pred             HHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----H------HHHHHHHH------
Confidence            44443                  23445555555555443  22221 1110000    0      00000000      


Q ss_pred             CCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          431 PEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN----AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       431 p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                         .....+...|.+.|++++|+..|+++ ...|+    ...+..+..++.+.|+.++|+..++++....|++.
T Consensus       148 ---~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          148 ---KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             ---HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             ---HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence               01134667889999999999999987 22333    35788899999999999999999999999888763

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.65  E-value=1.1e-06  Score=81.80  Aligned_cols=172  Identities=8%  Similarity=-0.124  Sum_probs=110.8

Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC-CHHHHHHHHHHHHHcC----ChhHHHHHHHHHh
Q 006246          315 GIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK-EVFTWNAMIGGLAMHG----RADDAIELFFKMQ  389 (654)
Q Consensus       315 a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~-~~~~~~~li~~~~~~g----~~~~A~~l~~~m~  389 (654)
                      |.+.|....+.|   ++..+..|..+|...+++++|.+.|++..+. +..++..|...|.. +    +.++|+++|++..
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            444555555543   4555566666666667777777777665543 55666666666665 5    6777777777776


Q ss_pred             hcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHHcCCCCC---cchHHHHHHHHHH----cCCHHHHHHHHHh
Q 006246          390 REKMRPDRITFACVLSACAH----AGMIDRGLQALTYMQQMYGIDPE---VEHYGCIVDLLGR----AGYLAEAEEVISS  458 (654)
Q Consensus       390 ~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~g~~p~---~~~~~~li~~~~~----~g~~~~A~~~~~~  458 (654)
                      +.|   +...+..|...+..    .+++++|.++|++..+   ..|.   ...+..|..+|..    .+++++|++.|++
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~---~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAAR---DSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTS---STTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHH---cCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            654   45556666666655    6677777777777654   2332   5566777777777    6778888888777


Q ss_pred             C-CCCCCHHHHHHHHHHHHHh-C-----ChHHHHHHHHHHHhcCC
Q 006246          459 M-PMEPNAAVWEALLGACRKH-G-----EVEFGERLGKILLEMEP  496 (654)
Q Consensus       459 m-~~~p~~~~~~~ll~~~~~~-g-----~~~~a~~~~~~~~~~~p  496 (654)
                      . ...++...+..|...|... |     +.++|...++++.+..+
T Consensus       155 A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          155 SSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            6 2224555666777766543 2     78888888888887653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.65  E-value=3.2e-07  Score=90.01  Aligned_cols=162  Identities=10%  Similarity=-0.041  Sum_probs=98.1

Q ss_pred             CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHH-HH
Q 006246          328 CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFA-CV  403 (654)
Q Consensus       328 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~-~l  403 (654)
                      +.+......+...+...|++++|...|++...   .+...+..+...|.+.|++++|+..++++...  .|+..... ..
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            33444555566666666777777766666543   24556666666677777777777777666554  33433221 22


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---CHHHHHHHHHHHHHhC
Q 006246          404 LSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP---NAAVWEALLGACRKHG  479 (654)
Q Consensus       404 l~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~~~ll~~~~~~g  479 (654)
                      ...+...+..++|...+++..+.  -+.+...+..+..+|...|++++|++.++++ ...|   +...+..++..+...|
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            22344555566666666666653  2233556666777777777777777777665 2223   2567777777777777


Q ss_pred             ChHHHHHHHHHHHh
Q 006246          480 EVEFGERLGKILLE  493 (654)
Q Consensus       480 ~~~~a~~~~~~~~~  493 (654)
                      +.+.|...|++.+.
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            77777777776654

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.64  E-value=3.9e-07  Score=84.67  Aligned_cols=146  Identities=10%  Similarity=-0.060  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCH
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMI  413 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~  413 (654)
                      +..+...|...|++++|...|++...++...|..+...|...|++++|++.|++..+.. +.+...+..+..++...|++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            34455566666666666666666666666666666666666666666666666666542 22444556666666666666


Q ss_pred             HHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHH
Q 006246          414 DRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEP-NAAVWEALLGACRKHGEVEFGERLGKILL  492 (654)
Q Consensus       414 ~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  492 (654)
                      ++|.+.|+...+.   .|+.....     +...|           +...| ....|..+...+...|++++|...+++++
T Consensus        88 ~~A~~~~~~al~~---~~~~~~~~-----~~~~~-----------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  148 (213)
T 1hh8_A           88 DLAIKDLKEALIQ---LRGNQLID-----YKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALAT  148 (213)
T ss_dssp             HHHHHHHHHHHHT---TTTCSEEE-----CGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh---CCCccHHH-----HHHhc-----------cccCccchHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            6666666666552   12111000     00000           01223 35778889999999999999999999999


Q ss_pred             hcCCCCC
Q 006246          493 EMEPQNR  499 (654)
Q Consensus       493 ~~~p~~~  499 (654)
                      ++.|++.
T Consensus       149 ~~~p~~~  155 (213)
T 1hh8_A          149 SMKSEPR  155 (213)
T ss_dssp             TTCCSGG
T ss_pred             HcCcccc
Confidence            9999764

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.64  E-value=5.9e-08  Score=84.88  Aligned_cols=135  Identities=9%  Similarity=-0.026  Sum_probs=88.4

Q ss_pred             HHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCC
Q 006246          370 GGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGY  448 (654)
Q Consensus       370 ~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~  448 (654)
                      ..+...|++++|++.+++....  .| +...+..+...|.+.|++++|++.|++..+.  -+-+...|..+..+|.+.|+
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV--QERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCc
Confidence            3344456667777777666543  23 2334556666777777777777777777663  12245667777777777778


Q ss_pred             HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHH-HHHHHhcCCCCCCchHHHHHHHHH
Q 006246          449 LAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERL-GKILLEMEPQNRRCDDVAKMRKLM  511 (654)
Q Consensus       449 ~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~-~~~~~~~~p~~~~~~~a~~~~~~m  511 (654)
                      +++|+..|++. ...| +..+|..+...|...|+.++|.+. ++++++++|+++   .+..++..+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~---~~~~l~~~l  143 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSP---AVYKLKEQL  143 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCH---HHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCH---HHHHHHHHH
Confidence            88877777766 3344 577888888888888888766554 588899998874   444444433

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.64  E-value=1.9e-07  Score=92.62  Aligned_cols=151  Identities=13%  Similarity=0.003  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCC-------C--CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC---C--CHHH
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKM-------K--EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR---P--DRIT  399 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~-------~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~---p--~~~t  399 (654)
                      ++.+...|.+.|++++|...|++...       +  -..+|+.+...|.. |++++|++.|++..+....   +  ...+
T Consensus        79 ~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~  157 (307)
T 2ifu_A           79 FEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAEL  157 (307)
T ss_dssp             HHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHH
Confidence            33444444445555444444443321       1  12355566666666 7777777777666542100   0  1245


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhCCCCCC------HHHHH
Q 006246          400 FACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSMPMEPN------AAVWE  469 (654)
Q Consensus       400 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~------~~~~~  469 (654)
                      +..+...+...|++++|+..|++..+...-.++    ...+..++.++...|++++|...|++.-..|+      .....
T Consensus       158 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~p~~~~~~e~~~l~  237 (307)
T 2ifu_A          158 IGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESYSIPGFSGSEDCAALE  237 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTSTTSHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhCCCCCCCCHHHHHHH
Confidence            666677777777777777777777653211111    12455556666777888888887776433332      22344


Q ss_pred             HHHHHHHHhCChHHHHH
Q 006246          470 ALLGACRKHGEVEFGER  486 (654)
Q Consensus       470 ~ll~~~~~~g~~~~a~~  486 (654)
                      .++.++ ..|+.+.+..
T Consensus       238 ~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          238 DLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHH-HTTCHHHHHH
T ss_pred             HHHHHH-HhcCHHHHHH
Confidence            455555 4566655544

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.62  E-value=7e-07  Score=82.83  Aligned_cols=133  Identities=11%  Similarity=-0.020  Sum_probs=69.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM  412 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  412 (654)
                      .+...|.+.|++++|...|++..+   .+...|..+...|...|++++|+..|++.++.. +-+..++..+...+...|.
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhH
Confidence            356666666666666666665543   255666666666666666666666666666642 1234455555555544432


Q ss_pred             --HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHH
Q 006246          413 --IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALL  472 (654)
Q Consensus       413 --~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll  472 (654)
                        .+.+...+....   ...|....+..+..++...|++++|+..|++. ...|+......+.
T Consensus       138 ~~~~~~~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l~  197 (208)
T 3urz_A          138 QEKKKLETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTLD  197 (208)
T ss_dssp             HHHHHHHHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence              223333333322   11111122333444555566777777777665 4556655444433

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.62  E-value=9.9e-07  Score=86.43  Aligned_cols=157  Identities=10%  Similarity=-0.003  Sum_probs=116.0

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--CCHHH-HHHHHHHHH
Q 006246          297 FVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--KEVFT-WNAMIGGLA  373 (654)
Q Consensus       297 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~~~~~-~~~li~~~~  373 (654)
                      ..+..+...+...|++++|...++.+.+.. +.+...+..+...|.+.|++++|...|+++..  |+... +......+.
T Consensus       118 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~  196 (287)
T 3qou_A          118 ELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELL  196 (287)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHH
Confidence            344445555666667777777776666654 33566777888889999999999999988875  33332 223333466


Q ss_pred             HcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC---cchHHHHHHHHHHcCCHH
Q 006246          374 MHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE---VEHYGCIVDLLGRAGYLA  450 (654)
Q Consensus       374 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~---~~~~~~li~~~~~~g~~~  450 (654)
                      ..++.++|+..|++..+.. +.+...+..+...+...|++++|...|..+.+.   .|+   ...+..++.+|...|+.+
T Consensus       197 ~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~---~p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          197 XQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRX---DLTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             HHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             hhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc---ccccccchHHHHHHHHHHHcCCCC
Confidence            7788888999999888863 335668888888999999999999999999875   343   567888999999999999


Q ss_pred             HHHHHHHh
Q 006246          451 EAEEVISS  458 (654)
Q Consensus       451 ~A~~~~~~  458 (654)
                      +|...+++
T Consensus       273 ~a~~~~r~  280 (287)
T 3qou_A          273 ALASXYRR  280 (287)
T ss_dssp             HHHHHHHH
T ss_pred             cHHHHHHH
Confidence            98887765

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.62  E-value=1.4e-06  Score=80.91  Aligned_cols=123  Identities=11%  Similarity=-0.076  Sum_probs=97.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHH
Q 006246          298 VLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAM  374 (654)
Q Consensus       298 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~  374 (654)
                      .+..+...+...|++++|...+..+.    .++..++..+...|.+.|++++|.+.|++...   .+...|..+...|..
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHH
Confidence            34456667889999999999998773    56888999999999999999999999998764   467899999999999


Q ss_pred             cCChhHHHHHHHHHhhcCCCCCH----------------HHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          375 HGRADDAIELFFKMQREKMRPDR----------------ITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       375 ~g~~~~A~~l~~~m~~~g~~p~~----------------~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .|++++|++.|++..+.... +.                ..+..+..++...|++++|...|+...+
T Consensus        84 ~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRG-NQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTT-CSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHHhCCC-ccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            99999999999999886322 22                4555556666666666666666666553

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.61  E-value=9.5e-07  Score=79.44  Aligned_cols=153  Identities=12%  Similarity=0.079  Sum_probs=86.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHH--HH
Q 006246          233 YNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA--CA  307 (654)
Q Consensus       233 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~--~~  307 (654)
                      +..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++.....  |+.. +..+...  +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~-~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNS-YKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHH-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChH-HHHHHHHHHHH
Confidence            44455556666667777777766654   245567777777777777777777777665442  2222 2221111  11


Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCC-----HHHHHHHHHHHHHcCChhHHH
Q 006246          308 SLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKE-----VFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       308 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~-----~~~~~~li~~~~~~g~~~~A~  382 (654)
                      ..+....+...++.+.+.. +.+...+..+...|.+.|++++|...|+++...+     ...|..+...+...|+.++|.
T Consensus        86 ~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            1122233455555555543 2345556666666666666666666666654421     335666666666666666666


Q ss_pred             HHHHHHh
Q 006246          383 ELFFKMQ  389 (654)
Q Consensus       383 ~l~~~m~  389 (654)
                      ..|++.+
T Consensus       165 ~~y~~al  171 (176)
T 2r5s_A          165 SKYRRQL  171 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.61  E-value=1.1e-05  Score=85.10  Aligned_cols=365  Identities=8%  Similarity=-0.016  Sum_probs=215.5

Q ss_pred             CC-ChHHHHHHHHHHHHhCCCCchhHHHHHHHhcccccCCChHHHHHHHhcCC--CCCcchHHHHHHHHHhCCC-chHHH
Q 006246           43 HT-SWQHLKQAHAVILKSGHFQDHYVSGTLVKCHANSRFSNFELALKVFNSVH--KPNVFVWNSVLRACLEHNE-PWRVI  118 (654)
Q Consensus        43 ~~-~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~-~~~A~  118 (654)
                      .| ++..++++++.++..-  |                .|+++.|+.+|++..  .|++..|...+....+.+. .+...
T Consensus         7 ~~~~i~~aR~vyer~l~~~--P----------------~~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~   68 (493)
T 2uy1_A            7 MGVELSSPSAIMEHARRLY--M----------------SKDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLY   68 (493)
T ss_dssp             -----CCHHHHHHHHHHHH--H----------------TTCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTH
T ss_pred             cCcchHHHHHHHHHHHHHC--C----------------CCCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHH
Confidence            34 3677777777776542  1                168999999999877  4899999999987776663 45677


Q ss_pred             HHHHHhHhC-CCCC-CcccHHHHHHHHh----ccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHh
Q 006246          119 SLYSEMVGV-DSKP-NKFTYPTVFKACS----ITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILD  192 (654)
Q Consensus       119 ~~~~~m~~~-g~~p-~~~t~~~ll~~~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~  192 (654)
                      .+|+..... |..| +...|...+.-+.    ..++.+.++.+++.+++.....-...|......- .......+.++..
T Consensus        69 ~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE-~~~~~~~~~~~~~  147 (493)
T 2uy1_A           69 EVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFE-LELNKITGKKIVG  147 (493)
T ss_dssp             HHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHH-HHHCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHH-HHhccccHHHHHH
Confidence            788887763 4334 4455665555443    2356788999999999742111112222222211 1111222222221


Q ss_pred             cCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC----CCcchHHHHHHHHHhcC--C-----HHHHHHHHHhcCC---
Q 006246          193 DGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD----KNTGSYNAMISGFARFG--R-----FEEARKLFNEMND---  258 (654)
Q Consensus       193 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~~~~~~~li~~~~~~g--~-----~~~A~~~~~~~~~---  258 (654)
                      +               ..  +.+..|...++.+..    .+...|...+..-...+  -     .+.+..+|+++..   
T Consensus       148 ~---------------~~--~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p  210 (493)
T 2uy1_A          148 D---------------TL--PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFY  210 (493)
T ss_dssp             H---------------HH--HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTT
T ss_pred             H---------------Hh--HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCC
Confidence            1               11  122223333322221    12334544444322211  0     2345667777654   


Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCC-----------
Q 006246          259 KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSI-----------  327 (654)
Q Consensus       259 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-----------  327 (654)
                      .+...|...+.-+.+.|+.++|..+|++....   |....+..   .++.....+..   ++.+.+.-.           
T Consensus       211 ~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~  281 (493)
T 2uy1_A          211 YAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVF  281 (493)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHTTCTHH---HHHHHHHTC----------C
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhcchhHH---HHHHHHHHHhhccchhhhhc
Confidence            35678888888889999999999999999987   55544332   23332222222   333322110           


Q ss_pred             -CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC--CHHHHHHHHHHHHH-cCChhHHHHHHHHHhhcCCCCCHHHHHHH
Q 006246          328 -CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK--EVFTWNAMIGGLAM-HGRADDAIELFFKMQREKMRPDRITFACV  403 (654)
Q Consensus       328 -~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~--~~~~~~~li~~~~~-~g~~~~A~~l~~~m~~~g~~p~~~t~~~l  403 (654)
                       .....+|...+..+.+.+.++.|+++|++...+  +...|-.....-.. .++.+.|..+|+...+.- +-+...+...
T Consensus       282 ~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~y  360 (493)
T 2uy1_A          282 SKELDLLRINHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEF  360 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHH
Confidence             112355667777777788999999999998433  22334322222222 336999999999998863 2233445556


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          404 LSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       404 l~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      +.-..+.|+.+.|..+|+.+.      .....|...++.-.+.|+.+.+.++++++
T Consensus       361 id~e~~~~~~~~aR~l~er~~------k~~~lw~~~~~fE~~~G~~~~~r~v~~~~  410 (493)
T 2uy1_A          361 FLFLLRIGDEENARALFKRLE------KTSRMWDSMIEYEFMVGSMELFRELVDQK  410 (493)
T ss_dssp             HHHHHHHTCHHHHHHHHHHSC------CBHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHH------HHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            666778899999999999862      24567888888778889999998888765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.55  E-value=1.8e-07  Score=81.79  Aligned_cols=140  Identities=11%  Similarity=0.021  Sum_probs=96.9

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCH
Q 006246          337 LVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMI  413 (654)
Q Consensus       337 li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~  413 (654)
                      |..++...|++++|++.++.....   +...+-.+...|.+.|++++|++.|++.++.. +-+..+|..+...+...|++
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            445566677788888888777664   34556677888888888888888888887753 22566788888888888888


Q ss_pred             HHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHHH-HHhC-CCCC-CHHHHHHHHHHHHHhCC
Q 006246          414 DRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEEV-ISSM-PMEP-NAAVWEALLGACRKHGE  480 (654)
Q Consensus       414 ~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~-~~~m-~~~p-~~~~~~~ll~~~~~~g~  480 (654)
                      ++|...|++..+.   .| +...|..+..+|.+.|++++|.+. +++. ...| ++.+|......+...|+
T Consensus        82 ~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVEL---NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            8888888888763   44 356778888888888888776654 4554 3344 56667666666555553

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.55  E-value=2.5e-06  Score=79.27  Aligned_cols=168  Identities=10%  Similarity=-0.024  Sum_probs=102.0

Q ss_pred             HHHHHHhcCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC----ChhHHHHHHHHHH
Q 006246          249 ARKLFNEMND-KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLG----ALDQGIWIHDHVK  323 (654)
Q Consensus       249 A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g----~~~~a~~~~~~~~  323 (654)
                      |.+.|++..+ .+..++..+...|...+++++|++.|++..+.|   +...+..+...+.. +    +.++|.+.+....
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            3444444333 355666666666666777777777777766654   33444445555554 4    6667777777666


Q ss_pred             HcCCCCchhHHHHHHHHHHH----cCCHHHHHHHHhhcCCCC-----HHHHHHHHHHHHH----cCChhHHHHHHHHHhh
Q 006246          324 RNSICVDAVLGTALVDMYAK----CGRLDMAWKVFEDMKMKE-----VFTWNAMIGGLAM----HGRADDAIELFFKMQR  390 (654)
Q Consensus       324 ~~~~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~m~~~~-----~~~~~~li~~~~~----~g~~~~A~~l~~~m~~  390 (654)
                      +.|   ++..+..|..+|..    .+++++|.+.|++....+     ..++..|...|..    .++.++|+.+|++..+
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            554   44555666666665    667777777777666532     4666777777766    6667777777777766


Q ss_pred             cCCCCCHHHHHHHHHHHHcc-C-----CHHHHHHHHHHHHH
Q 006246          391 EKMRPDRITFACVLSACAHA-G-----MIDRGLQALTYMQQ  425 (654)
Q Consensus       391 ~g~~p~~~t~~~ll~~~~~~-g-----~~~~a~~~~~~~~~  425 (654)
                      .  .++...+..|...|... |     +.++|..+|+...+
T Consensus       158 ~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~  196 (212)
T 3rjv_A          158 L--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCL  196 (212)
T ss_dssp             T--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHH
T ss_pred             c--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHH
Confidence            5  12333455555555432 2     67777777777666

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.53  E-value=1.2e-05  Score=78.99  Aligned_cols=158  Identities=12%  Similarity=-0.058  Sum_probs=120.9

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCCC-----C----HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC-CC----HHHHHH
Q 006246          337 LVDMYAKCGRLDMAWKVFEDMKMK-----E----VFTWNAMIGGLAMHGRADDAIELFFKMQREKMR-PD----RITFAC  402 (654)
Q Consensus       337 li~~y~~~g~~~~A~~~~~~m~~~-----~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~----~~t~~~  402 (654)
                      .+..+...|++++|...+++....     +    ...+..+...+...|++++|+..|++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            467788899999999999887652     1    113344666777778999999999999874322 23    236888


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHHcCCC----CC-cchHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC-HHHHH
Q 006246          403 VLSACAHAGMIDRGLQALTYMQQMYGID----PE-VEHYGCIVDLLGRAGYLAEAEEVISSM-------PMEPN-AAVWE  469 (654)
Q Consensus       403 ll~~~~~~g~~~~a~~~~~~~~~~~g~~----p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~-~~~~~  469 (654)
                      +...|...|++++|..+|+++.+...-.    +. ..+|..+...|.+.|++++|++.+++.       ...+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            9999999999999999999988532111    11 336788999999999999999999876       12222 77899


Q ss_pred             HHHHHHHHhCC-hHHHHHHHHHHHhc
Q 006246          470 ALLGACRKHGE-VEFGERLGKILLEM  494 (654)
Q Consensus       470 ~ll~~~~~~g~-~~~a~~~~~~~~~~  494 (654)
                      .+...+...|+ +++|...+++++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            99999999995 69999999998874

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.52  E-value=6.8e-06  Score=77.12  Aligned_cols=60  Identities=13%  Similarity=0.097  Sum_probs=43.6

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhcCC--CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006246          231 GSYNAMISGFARFGRFEEARKLFNEMND--KD----EITWSAIIDGYTKDGYYKEALEVFNEMQRD  290 (654)
Q Consensus       231 ~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  290 (654)
                      ..+..+...+.+.|++++|...|+++.+  |+    ...+..+..+|.+.|++++|+..|+++.+.
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~   70 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   70 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            3455566777788888888888887763  22    245777777888888888888888888765

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.49  E-value=2.2e-06  Score=84.28  Aligned_cols=162  Identities=11%  Similarity=-0.060  Sum_probs=121.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCCC---C------HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC---CCC--HH
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKMK---E------VFTWNAMIGGLAMHGRADDAIELFFKMQREKM---RPD--RI  398 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~~---~------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~---~p~--~~  398 (654)
                      .+...+..|...|++++|.+.+++....   .      ...+..+...+...|++++|+..|++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            4445677888899999999888755431   1      12344566667788899999999999876321   122  34


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-----cchHHHHHHHHHHcCCHHHHHHHHHhC-C------CCC-CH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-----VEHYGCIVDLLGRAGYLAEAEEVISSM-P------MEP-NA  465 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m-~------~~p-~~  465 (654)
                      +++.+...|...|++++|..+|+++.+.....|+     ..+|..+...|.+.|++++|++.+++. .      ... -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7888889999999999999999998743222333     257888999999999999999999875 1      111 16


Q ss_pred             HHHHHHHHHHHHhCChHHH-HHHHHHHHhc
Q 006246          466 AVWEALLGACRKHGEVEFG-ERLGKILLEM  494 (654)
Q Consensus       466 ~~~~~ll~~~~~~g~~~~a-~~~~~~~~~~  494 (654)
                      .+|..+...|...|++++| ...+++++++
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            7889999999999999999 8888888764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.49  E-value=1.5e-06  Score=75.62  Aligned_cols=112  Identities=4%  Similarity=-0.086  Sum_probs=90.4

Q ss_pred             CCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHH
Q 006246          394 RPDR-ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEA  470 (654)
Q Consensus       394 ~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~  470 (654)
                      .|+. ..+..+...+.+.|++++|...|+.+.+.  -+.+...|..+..+|.+.|++++|++.|++. ...| ++..|..
T Consensus        32 ~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           32 PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            4543 46777888889999999999999999874  2335678888999999999999999999987 3334 5788999


Q ss_pred             HHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHH
Q 006246          471 LLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKM  507 (654)
Q Consensus       471 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~  507 (654)
                      +..++...|++++|+..|++++++.|++..-+.|..+
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~~~~~~~~~A~~l  146 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHSNDEKLKIKAQSY  146 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            9999999999999999999999999987533333333

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.48  E-value=1.2e-06  Score=73.83  Aligned_cols=99  Identities=9%  Similarity=-0.036  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACR  476 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~  476 (654)
                      .+......+.+.|++++|++.|++..+.  -+.+...|..+..+|.+.|++++|++.+++. ...| +...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            4555666677777777777777777653  2334566777777777777888777777765 2333 5788999999999


Q ss_pred             HhCChHHHHHHHHHHHhcCCCCC
Q 006246          477 KHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ..|++++|+..++++++++|++.
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~~  115 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSNE  115 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HCCCHHHHHHHHHHHHHHCcCCH
Confidence            99999999999999999999984

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.43  E-value=3.1e-06  Score=91.75  Aligned_cols=146  Identities=6%  Similarity=-0.065  Sum_probs=72.4

Q ss_pred             CCHHHHHHHHHhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHH
Q 006246          244 GRFEEARKLFNEMNDK---DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHD  320 (654)
Q Consensus       244 g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  320 (654)
                      |++++|.+.|++..+.   +...|..+...|.+.|++++|++.|++..+.. +.+...+..+..++...|++++|.+.++
T Consensus         3 g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             ------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            5566666666665532   45566666666666666666666666666542 2234455555555566666666666666


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHc---CChhHHHHHHHHHhhc
Q 006246          321 HVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMH---GRADDAIELFFKMQRE  391 (654)
Q Consensus       321 ~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~---g~~~~A~~l~~~m~~~  391 (654)
                      ++.+.. +.+...+..+...|.+.|++++|.+.|++..+   .+...+..+...+...   |+.++|.+.+++..+.
T Consensus        82 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           82 QASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            655543 22344555555555555555555555555432   2344555555555555   5555555555555544

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.42  E-value=8e-05  Score=73.65  Aligned_cols=221  Identities=13%  Similarity=0.095  Sum_probs=146.6

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHc-C-C
Q 006246          271 YTKDGYYKEALEVFNEMQRDKIKPRK-FVLSCVLAACASLG-ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKC-G-R  346 (654)
Q Consensus       271 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~-g-~  346 (654)
                      ....+..++|++++++++..  .|+. ..++.--..+...+ .++++.+.++.++... +-+..+|+.-...+.+. + +
T Consensus        64 ~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~  140 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQD  140 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSC
T ss_pred             HHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCC
Confidence            33444556677777777665  3333 33444444455556 4777777777777655 34566666655555555 5 7


Q ss_pred             HHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChh--------HHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC---
Q 006246          347 LDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRAD--------DAIELFFKMQREKMRPDRITFACVLSACAHAGM---  412 (654)
Q Consensus       347 ~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~--------~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~---  412 (654)
                      +++++++++++.+   +|..+|+.-.-.+.+.|.++        ++++.++++++..+. |...|+.....+.+.+.   
T Consensus       141 ~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          141 PVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             CHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccccc
Confidence            7888888888776   36677777666666666666        888999998887543 77778777777777775   


Q ss_pred             ----HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCH--------------------HHHHHHHHhCC-C------
Q 006246          413 ----IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYL--------------------AEAEEVISSMP-M------  461 (654)
Q Consensus       413 ----~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~m~-~------  461 (654)
                          ++++++.+.++...  -+-|...|+-+-.++.+.|+.                    .+..++..++. .      
T Consensus       220 ~~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  297 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDT  297 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSC
T ss_pred             chHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhccccccc
Confidence                68888888888763  234566677777777776653                    44455555552 1      


Q ss_pred             -CCCHHHHHHHHHHHHHhCChHHHHHHHHHHH-hcCCC
Q 006246          462 -EPNAAVWEALLGACRKHGEVEFGERLGKILL-EMEPQ  497 (654)
Q Consensus       462 -~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-~~~p~  497 (654)
                       .+....+..|...|...|+.++|.++++.+. +.+|-
T Consensus       298 ~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpi  335 (349)
T 3q7a_A          298 PLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQM  335 (349)
T ss_dssp             CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGG
T ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChH
Confidence             2578889999999999999999999999986 45664

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.42  E-value=1e-06  Score=76.75  Aligned_cols=105  Identities=9%  Similarity=-0.077  Sum_probs=80.1

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 006246          397 RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGA  474 (654)
Q Consensus       397 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~  474 (654)
                      ...+..+...+...|++++|...|+.....  -+.+...|..+..+|.+.|++++|++.|++. ...| ++..|..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHH
Confidence            345666667777788888888888877763  2335566777778888888888888888876 2233 57788889999


Q ss_pred             HHHhCChHHHHHHHHHHHhcCCCCCCchH
Q 006246          475 CRKHGEVEFGERLGKILLEMEPQNRRCDD  503 (654)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  503 (654)
                      +...|++++|+..+++++++.|+++.+..
T Consensus        99 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~  127 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQELIANXPEFXE  127 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTCGGGHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCCCcchH
Confidence            99999999999999999999998875543

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.41  E-value=2.1e-06  Score=77.13  Aligned_cols=134  Identities=10%  Similarity=0.094  Sum_probs=99.1

Q ss_pred             HHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHH-HHHcCCH--
Q 006246          373 AMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDL-LGRAGYL--  449 (654)
Q Consensus       373 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~-~~~~g~~--  449 (654)
                      ...|++++|+..|++..+.. +.+...+..+...+...|++++|...|+++.+..  +.+...+..+..+ +...|++  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            34677888888888877753 3356678888888888889999998888887742  2345667777777 7788888  


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 006246          450 AEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRK  509 (654)
Q Consensus       450 ~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~  509 (654)
                      ++|...+++. ...| +...|..+...+...|++++|...+++++++.|++...........
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~i~  159 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQLVESIN  159 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHHHHHHHH
Confidence            9999988876 2334 5788899999999999999999999999999999874433333333

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.39  E-value=2.6e-06  Score=78.15  Aligned_cols=154  Identities=12%  Similarity=0.009  Sum_probs=93.8

Q ss_pred             HcCCHHHHHH---HHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhh----cCCCC-CHHHHHHHHHHHHccCCHH
Q 006246          343 KCGRLDMAWK---VFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQR----EKMRP-DRITFACVLSACAHAGMID  414 (654)
Q Consensus       343 ~~g~~~~A~~---~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~----~g~~p-~~~t~~~ll~~~~~~g~~~  414 (654)
                      ..|++++|.+   .+..-+.....++..+...+...|++++|+..+++..+    .+..| ...++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            3466666666   44332223445666666667777777777777766654    11112 2235666666777777777


Q ss_pred             HHHHHHHHHHHHcCCCC-C----cchHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC----HHHHHHHHHHHHHhCCh
Q 006246          415 RGLQALTYMQQMYGIDP-E----VEHYGCIVDLLGRAGYLAEAEEVISSM----PMEPN----AAVWEALLGACRKHGEV  481 (654)
Q Consensus       415 ~a~~~~~~~~~~~g~~p-~----~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~----~~~~~~ll~~~~~~g~~  481 (654)
                      +|...+++..+...-.+ +    ...+..+...+...|++++|.+.+++.    +..++    ..++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            77777777665322122 1    234666777777788888887777664    11112    33457778888888899


Q ss_pred             HHHHHHHHHHHhcCC
Q 006246          482 EFGERLGKILLEMEP  496 (654)
Q Consensus       482 ~~a~~~~~~~~~~~p  496 (654)
                      ++|...+++++++..
T Consensus       164 ~~A~~~~~~al~~~~  178 (203)
T 3gw4_A          164 LEAQQHWLRARDIFA  178 (203)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            998888888887543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.38  E-value=9e-07  Score=84.68  Aligned_cols=126  Identities=14%  Similarity=0.023  Sum_probs=89.8

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHHH
Q 006246          366 NAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIVD  441 (654)
Q Consensus       366 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~  441 (654)
                      -.....+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+...+    .|+    ...+..+..
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~----~~d~~~~~~a~~~LG~  179 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGK----WPDKFLAGAAGVAHGV  179 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG----CSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhc----cCCcccHHHHHHHHHH
Confidence            345566777788888888887776643  5444444555567778888888888864432    222    235667778


Q ss_pred             HHHHcCCHHHHHHHHHhCC---CCCC--HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          442 LLGRAGYLAEAEEVISSMP---MEPN--AAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m~---~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                      ++.+.|++++|++.|++..   ..|.  ...+..+..++.+.|+.++|...|+++++.+|+
T Consensus       180 al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          180 AAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            8888888888888888762   2143  346777888899999999999999999999986

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.37  E-value=9.8e-06  Score=79.51  Aligned_cols=58  Identities=12%  Similarity=0.165  Sum_probs=29.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCcc-----hHHHHHHHHHhcCChhHHHHHHHHHH
Q 006246          266 AIIDGYTKDGYYKEALEVFNEMQRDKIKPRKF-----VLSCVLAACASLGALDQGIWIHDHVK  323 (654)
Q Consensus       266 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-----t~~~ll~~~~~~g~~~~a~~~~~~~~  323 (654)
                      .+...+...|++++|+..|++........+..     ++..+..++...|++++|...+..+.
T Consensus       120 ~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al  182 (293)
T 3u3w_A          120 YVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQIL  182 (293)
T ss_dssp             HHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555555667777777777766532221111     34444444555555555555554444

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.35  E-value=0.00011  Score=71.90  Aligned_cols=144  Identities=8%  Similarity=-0.036  Sum_probs=67.5

Q ss_pred             CCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChH--HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC------h
Q 006246          244 GRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYK--EALEVFNEMQRDKIKPRKFVLSCVLAACASLGA------L  312 (654)
Q Consensus       244 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~------~  312 (654)
                      +++++++.+++.+.+   +|..+|+.-.-.+.+.|.++  ++++.++++.+.. +-|...|+.-...+...+.      +
T Consensus       124 ~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhH
Confidence            445555555555542   34555555555555556555  6666666666543 2233344333333333333      4


Q ss_pred             hHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHH-HHHHHhhcCC------CCHHHHHHHHHHHHHcCChhHHHHHH
Q 006246          313 DQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDM-AWKVFEDMKM------KEVFTWNAMIGGLAMHGRADDAIELF  385 (654)
Q Consensus       313 ~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~-A~~~~~~m~~------~~~~~~~~li~~~~~~g~~~~A~~l~  385 (654)
                      +++.+.+..++... +.|...|+-+...+.+.|+..+ +..+.+++..      ++...+..+...|.+.|+.++|++++
T Consensus       203 ~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~  281 (306)
T 3dra_A          203 DEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVY  281 (306)
T ss_dssp             HHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            44444444444443 2344445444444444444222 2223333221      23344444555555555555555555


Q ss_pred             HHHh
Q 006246          386 FKMQ  389 (654)
Q Consensus       386 ~~m~  389 (654)
                      +.+.
T Consensus       282 ~~l~  285 (306)
T 3dra_A          282 DLLK  285 (306)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.31  E-value=1.7e-06  Score=84.42  Aligned_cols=188  Identities=12%  Similarity=-0.054  Sum_probs=107.2

Q ss_pred             cchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHH
Q 006246          296 KFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGL  372 (654)
Q Consensus       296 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~  372 (654)
                      ...+..+...+...|++++|...+..+++.. +.+...+..+...|.+.|++++|.+.|++...   .+...|..+..+|
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3455666677777888888888888777764 33666777777778888888888888877665   2566777777778


Q ss_pred             HHcCChhHHHHHHHHHhhcCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHH
Q 006246          373 AMHGRADDAIELFFKMQREKMRPDR-ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAE  451 (654)
Q Consensus       373 ~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  451 (654)
                      ...|++++|+..|++..+..  |+. ..+...+....+   ..++.. +..... ....++......+...  ..|+.++
T Consensus        83 ~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~-~~~~~~~~i~~~l~~l--~~~~~~~  153 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEE-RRIHQESELHSYLTRL--IAAERER  153 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHH-TCCCCCCHHHHHHHHH--HHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHH-HHHhhhHHHHHHHHHH--HHHHHHH
Confidence            88888888888887776642  221 111111111111   111111 122222 1334444444444332  2577777


Q ss_pred             HHHHHHhC-CCCCCH-HHHHHHHHHHHHh-CChHHHHHHHHHHHh
Q 006246          452 AEEVISSM-PMEPNA-AVWEALLGACRKH-GEVEFGERLGKILLE  493 (654)
Q Consensus       452 A~~~~~~m-~~~p~~-~~~~~ll~~~~~~-g~~~~a~~~~~~~~~  493 (654)
                      |++.+++. ...|+. .....+...+... +.+++|.++|+++.+
T Consensus       154 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            77777665 444543 3333333333333 445666666665544

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.31  E-value=1e-05  Score=71.29  Aligned_cols=129  Identities=9%  Similarity=-0.036  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD  441 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~  441 (654)
                      ...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...+++..+.  .+.+...+..+..
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHH
Confidence            3456677777788888888888888877753 235667777777888888888888888888764  2334567777888


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-CHHHHHH--HHHHHHHhCChHHHHHHHHHHHh
Q 006246          442 LLGRAGYLAEAEEVISSM-PMEP-NAAVWEA--LLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~--ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      ++.+.|++++|.+.+++. ...| +...+..  ++..+...|++++|...+++..+
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            888888888888888776 2223 4555533  33447778888888888877654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.30  E-value=4.5e-06  Score=76.51  Aligned_cols=48  Identities=13%  Similarity=0.045  Sum_probs=25.1

Q ss_pred             hcCCHHHHHH---HHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006246          242 RFGRFEEARK---LFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQR  289 (654)
Q Consensus       242 ~~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  289 (654)
                      ..|++++|.+   ++..-+......+..+...+...|++++|+..+++...
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~   54 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQ   54 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            3455556655   44332222344566666666666666666666666544

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.29  E-value=1.1e-05  Score=77.06  Aligned_cols=123  Identities=10%  Similarity=-0.010  Sum_probs=71.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHhcCC--CCcchHHHHHHHHHhcCCHHHHHHHHHhcCCC-C----HhHHHHHHHHHHhcCC
Q 006246          204 ALIDGYLKCGDIEGAKELFKSTKD--KNTGSYNAMISGFARFGRFEEARKLFNEMNDK-D----EITWSAIIDGYTKDGY  276 (654)
Q Consensus       204 ~li~~~~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~----~~~~~~li~~~~~~g~  276 (654)
                      .+...+...|++++|.++|+.+..  |+......+...+.+.+++++|+..|+..... +    ...+..+..++.+.|+
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG~  186 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLAL  186 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCCC
Confidence            344555666666666666666654  32224444555666667777777777655432 1    2245666667777777


Q ss_pred             hHHHHHHHHHHHhCCCCCCc--chHHHHHHHHHhcCChhHHHHHHHHHHHcC
Q 006246          277 YKEALEVFNEMQRDKIKPRK--FVLSCVLAACASLGALDQGIWIHDHVKRNS  326 (654)
Q Consensus       277 ~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~  326 (654)
                      +++|+..|++.......|..  ........++.+.|+.++|...|+++....
T Consensus       187 ~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          187 FTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            77777777766643221431  133344455666667777777666666654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.27  E-value=2.8e-05  Score=76.24  Aligned_cols=27  Identities=15%  Similarity=0.101  Sum_probs=17.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006246          264 WSAIIDGYTKDGYYKEALEVFNEMQRD  290 (654)
Q Consensus       264 ~~~li~~~~~~g~~~~A~~~~~~m~~~  290 (654)
                      +...+..+...|++++|++.+++..+.
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~  104 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKK  104 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhcc
Confidence            344556666777777777777666654

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.25  E-value=1.3e-05  Score=70.70  Aligned_cols=124  Identities=6%  Similarity=-0.090  Sum_probs=82.9

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 006246          332 VLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACA  408 (654)
Q Consensus       332 ~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~  408 (654)
                      ..+..+...|...|++++|...|++...   .+...|..+...+...|++++|+..|++..+.. +.+...+..+..++.
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            3455566667777777777777776543   356677777777778888888888887777653 235566777777777


Q ss_pred             ccCCHHHHHHHHHHHHHHcCCCCCcchH--HHHHHHHHHcCCHHHHHHHHHh
Q 006246          409 HAGMIDRGLQALTYMQQMYGIDPEVEHY--GCIVDLLGRAGYLAEAEEVISS  458 (654)
Q Consensus       409 ~~g~~~~a~~~~~~~~~~~g~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~  458 (654)
                      ..|++++|...|+++.+..  +.+...+  ..++..+.+.|++++|++.+++
T Consensus        93 ~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  142 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDEH  142 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence            8888888888888777641  1222333  3333446677788888777765

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.25  E-value=7e-06  Score=80.02  Aligned_cols=178  Identities=8%  Similarity=-0.084  Sum_probs=119.4

Q ss_pred             chhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 006246          330 DAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSA  406 (654)
Q Consensus       330 ~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  406 (654)
                      +...+..+...|.+.|++++|...|++...   .+...|..+...|.+.|++++|+..+++..+.. +.+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            455677788889999999999999987764   377888999999999999999999999988763 2356678888888


Q ss_pred             HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHH
Q 006246          407 CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGER  486 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~  486 (654)
                      +...|++++|...|+...+...-.+  ..+...+....+.++...... .......++..+...+.. + ..|+.++|.+
T Consensus        82 ~~~~g~~~~A~~~~~~al~l~p~~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~~-l-~~~~~~~A~~  156 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYSLAKEQR--LNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLTR-L-IAAERERELE  156 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTT--CCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHHH-H-HHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHHhCccch--hhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHH-H-HHHHHHHHHH
Confidence            9999999999999988876421111  112222222222222222222 222233344444444433 2 3688899999


Q ss_pred             HHHHHHhcCCCCC---------------CchHHHHHHHHHHh
Q 006246          487 LGKILLEMEPQNR---------------RCDDVAKMRKLMKE  513 (654)
Q Consensus       487 ~~~~~~~~~p~~~---------------~~~~a~~~~~~m~~  513 (654)
                      .++++++++|++.               .++++.+++....+
T Consensus       157 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          157 ECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             TTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            9999999988864               45566666665543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.23  E-value=2.3e-05  Score=64.91  Aligned_cols=34  Identities=29%  Similarity=0.421  Sum_probs=15.5

Q ss_pred             HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          465 AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       465 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      ..+|..+...+...|++++|...++++++..|++
T Consensus        77 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~  110 (125)
T 1na0_A           77 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNN  110 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCc
Confidence            3344444444444444444444444444444443

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.22  E-value=0.0001  Score=72.59  Aligned_cols=225  Identities=10%  Similarity=0.045  Sum_probs=142.9

Q ss_pred             hcCChH-HHHHHHHHHHhCCCCCCcch-HHHHHHHHHhcCC----------hhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          273 KDGYYK-EALEVFNEMQRDKIKPRKFV-LSCVLAACASLGA----------LDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       273 ~~g~~~-~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      +.|.++ +|++++..++..  .|+..| ++.--..+...+.          ++++..++..+.... +-+..+|+.-.-.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           41 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            444443 677777777654  344333 2222122222221          566777777777655 3466777766666


Q ss_pred             HHHcC--CHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCC-hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHcc----
Q 006246          341 YAKCG--RLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGR-ADDAIELFFKMQREKMRPDRITFACVLSACAHA----  410 (654)
Q Consensus       341 y~~~g--~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~----  410 (654)
                      +.+.|  .+++++++++++.+   +|..+|+.-.-.+...|. ++++++.+.++++..+. |...|+.....+.+.    
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhcc
Confidence            67777  47888888887765   477788887777777787 58888888888887533 666666655555444    


Q ss_pred             ----------CCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHc-----------CCHHHHHHHHHhC-CCCCCHHHH
Q 006246          411 ----------GMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRA-----------GYLAEAEEVISSM-PMEPNAAVW  468 (654)
Q Consensus       411 ----------g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~-----------g~~~~A~~~~~~m-~~~p~~~~~  468 (654)
                                +.++++++.+......  -+-|...|+-+-..+.+.           +.++++++.++++ ...||. .|
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~-~w  273 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN-KW  273 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC-HH
T ss_pred             ccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc-ch
Confidence                      4577888888888763  233455566555555554           4678888888877 455653 45


Q ss_pred             HHHHHHH-----HHhCChHHHHHHHHHHHhcCCCCC-CchHH
Q 006246          469 EALLGAC-----RKHGEVEFGERLGKILLEMEPQNR-RCDDV  504 (654)
Q Consensus       469 ~~ll~~~-----~~~g~~~~a~~~~~~~~~~~p~~~-~~~~a  504 (654)
                      ..+..+.     ...|..++....+.++.+++|-.. +|.+.
T Consensus       274 ~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~  315 (331)
T 3dss_A          274 CLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  315 (331)
T ss_dssp             HHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHH
Confidence            4322222     235777888899999999999765 45443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.22  E-value=1e-05  Score=69.55  Aligned_cols=101  Identities=9%  Similarity=-0.073  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACR  476 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~  476 (654)
                      .+..+...+.+.|++++|...|+.....  -+.+...|..+..+|.+.|++++|+..|++. ...| ++..|..+..++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            4455556667777777777777777663  1234556667777777788888888777766 2223 5677888888899


Q ss_pred             HhCChHHHHHHHHHHHhcCCCCCCc
Q 006246          477 KHGEVEFGERLGKILLEMEPQNRRC  501 (654)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~p~~~~~  501 (654)
                      ..|++++|...+++++++.|+++.+
T Consensus        98 ~~g~~~~A~~~~~~al~~~p~~~~~  122 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARALAAAQPAH  122 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHTCGGG
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCcch
Confidence            9999999999999999998887733

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.21  E-value=7.4e-06  Score=71.24  Aligned_cols=102  Identities=7%  Similarity=-0.111  Sum_probs=68.4

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHH
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIV  440 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li  440 (654)
                      +...|..+...+.+.|++++|+..|++..+.. +-+...|..+..++...|++++|+..|++..+.  -+.+...|..+.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l--~P~~~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFAL--GKNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CCCCcHHHHHHH
Confidence            44566667777777777777777777777653 224556677777777777777777777777663  122355677777


Q ss_pred             HHHHHcCCHHHHHHHHHhC-CCCCCH
Q 006246          441 DLLGRAGYLAEAEEVISSM-PMEPNA  465 (654)
Q Consensus       441 ~~~~~~g~~~~A~~~~~~m-~~~p~~  465 (654)
                      .+|.+.|++++|++.|++. ...|+.
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCH
Confidence            7777777777777777765 333444

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.19  E-value=1.5e-05  Score=66.10  Aligned_cols=115  Identities=19%  Similarity=0.200  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD  441 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~  441 (654)
                      ...|..+...+...|++++|+++|+++.+.. +.+..++..+...+...|++++|..+++.+.+.  .+.+...+..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHH
Confidence            6788999999999999999999999998864 346778888999999999999999999999874  2345678889999


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhC
Q 006246          442 LLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHG  479 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g  479 (654)
                      .|...|++++|.+.++++ ...| +...+..+...+...|
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            999999999999999987 2333 5666776666665543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.18  E-value=1.9e-05  Score=66.38  Aligned_cols=93  Identities=9%  Similarity=0.003  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHH
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLL  443 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~  443 (654)
                      .|......|.+.|++++|++.|++.++.. +.+...|..+..++.+.|++++|+..|++..+.  -+.+...|..+..+|
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~   91 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRL--DSKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHh--hhhhhHHHHHHHHHH
Confidence            34444555555555555555555555432 223445555555555555555555555555542  122234455555555


Q ss_pred             HHcCCHHHHHHHHHhC
Q 006246          444 GRAGYLAEAEEVISSM  459 (654)
Q Consensus       444 ~~~g~~~~A~~~~~~m  459 (654)
                      ...|++++|++.|++.
T Consensus        92 ~~~~~~~~A~~~~~~a  107 (126)
T 4gco_A           92 VAMREWSKAQRAYEDA  107 (126)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            5555555555555544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.18  E-value=2.1e-05  Score=69.45  Aligned_cols=102  Identities=11%  Similarity=0.007  Sum_probs=73.5

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 006246          397 RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGA  474 (654)
Q Consensus       397 ~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~  474 (654)
                      ...+..+...+...|++++|+..|++..+.  .+.+...|..+..+|.+.|++++|++.+++. ...| +...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            345555666666667777777777666653  1224556667777777777777777777765 2233 57888889999


Q ss_pred             HHHhCChHHHHHHHHHHHhcCCCCCC
Q 006246          475 CRKHGEVEFGERLGKILLEMEPQNRR  500 (654)
Q Consensus       475 ~~~~g~~~~a~~~~~~~~~~~p~~~~  500 (654)
                      +...|++++|+..++++++++|++..
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~  114 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGS  114 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCC
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchH
Confidence            99999999999999999999999874

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.17  E-value=3e-05  Score=64.83  Aligned_cols=116  Identities=15%  Similarity=0.033  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD  441 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~  441 (654)
                      ...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++...+.  .+.+...+..+..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~   88 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICI--DPAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhc--CccCHHHHHHHHH
Confidence            3445555566666666666666666665542 224445555566666666666666666666552  1222445555555


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCC
Q 006246          442 LLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGE  480 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~  480 (654)
                      .+.+.|++++|.+.+++. ...| +...+..+...+...|+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhc
Confidence            566666666666655554 1122 44555555555555544

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.13  E-value=2.7e-05  Score=77.97  Aligned_cols=131  Identities=8%  Similarity=-0.061  Sum_probs=98.6

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC--------------HHHHHHHHHHHHccCCHHHHHHHHHHHHHH
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD--------------RITFACVLSACAHAGMIDRGLQALTYMQQM  426 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--------------~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  426 (654)
                      +...|..+...|.+.|++++|+..|++.++......              ...|..+..++.+.|++++|+..++++.+.
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345677777777788888888888888776532211              367888888888888888888888888874


Q ss_pred             cCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHH-HHHHHHHHh
Q 006246          427 YGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFG-ERLGKILLE  493 (654)
Q Consensus       427 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a-~~~~~~~~~  493 (654)
                        -+.+...|..+..+|...|++++|++.|++. ...| +..++..+...+...|+.++| ...++++++
T Consensus       226 --~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          226 --DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              2335667888888888899999999888876 3334 577888888889999988888 556777765

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.13  E-value=1.5e-05  Score=68.83  Aligned_cols=65  Identities=14%  Similarity=0.080  Sum_probs=49.2

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCC-HHHH----HHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          435 HYGCIVDLLGRAGYLAEAEEVISSM--------PMEPN-AAVW----EALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       435 ~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-~~~~----~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .|..+..++.+.|++++|+..+++.        .+.|+ ...|    .....++...|++++|+..|+++++++|++.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~  136 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  136 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcH
Confidence            4555555555555555555555443        23675 6788    9999999999999999999999999999987

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.13  E-value=1.8e-05  Score=83.49  Aligned_cols=119  Identities=7%  Similarity=-0.063  Sum_probs=93.2

Q ss_pred             HHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC
Q 006246          336 ALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM  412 (654)
Q Consensus       336 ~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  412 (654)
                      .+...|.+.|++++|.+.|++..+   .+..+|..+..+|.+.|++++|++.+++..+.. +.+...+..+..++...|+
T Consensus        11 ~lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           11 TQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            344567788999999999998764   367899999999999999999999999999863 2356788889999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCcchHHHHHHH--HHHcCCHHHHHHHHH
Q 006246          413 IDRGLQALTYMQQMYGIDPEVEHYGCIVDL--LGRAGYLAEAEEVIS  457 (654)
Q Consensus       413 ~~~a~~~~~~~~~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~  457 (654)
                      +++|.+.|+++.+..  +.+...+..+..+  +.+.|++++|++.++
T Consensus        90 ~~eA~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHS--TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999998752  2234456666655  888999999999998

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.13  E-value=2.8e-05  Score=65.31  Aligned_cols=96  Identities=9%  Similarity=0.005  Sum_probs=52.5

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHH
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIV  440 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li  440 (654)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..+.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQL--EPTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCchHHHHHHH
Confidence            34556666666666666666666666666542 224455555566666666666666666666552  112233444444


Q ss_pred             HHHHHcCCHHHHHHHHHhC
Q 006246          441 DLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       441 ~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+|.+.|++++|.+.+++.
T Consensus        92 ~~~~~~~~~~~A~~~~~~~  110 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKA  110 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHH
Confidence            4555555555555555443

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.13  E-value=5.1e-05  Score=61.99  Aligned_cols=99  Identities=15%  Similarity=0.027  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PME-PNAAVWEALLGACR  476 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~ll~~~~  476 (654)
                      .+..+...+...|++++|...|+...+.  .+.+...+..+...+.+.|++++|.+.+++. ... .+...|..+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3444444455555555555555555442  1223444555555555566666666555554 112 24666667777777


Q ss_pred             HhCChHHHHHHHHHHHhcCCCCC
Q 006246          477 KHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ..|++++|...++++++.+|++.
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~  106 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNP  106 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCH
Confidence            77777777777777777777653

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.12  E-value=3.8e-05  Score=68.72  Aligned_cols=116  Identities=6%  Similarity=-0.037  Sum_probs=72.8

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHH-HHHcCCh--hHH
Q 006246          308 SLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGG-LAMHGRA--DDA  381 (654)
Q Consensus       308 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~-~~~~g~~--~~A  381 (654)
                      ..|++++|...+....+.. +.+...+..+...|...|++++|...|++...   .+...|..+... |...|++  ++|
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            4556666666666666554 33556666677777777777777777766553   355666666666 6667776  777


Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          382 IELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       382 ~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      +..|+++.+.. +.+...+..+...+...|++++|...|+.+.+
T Consensus       101 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          101 RAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            77777776653 22445666666677777777777777777765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.10  E-value=2.1e-05  Score=63.81  Aligned_cols=100  Identities=15%  Similarity=0.004  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC---CHHHHHHHHH
Q 006246          398 ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP---NAAVWEALLG  473 (654)
Q Consensus       398 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p---~~~~~~~ll~  473 (654)
                      ..+..+...+...|++++|...|++..+.  .+.+...+..+...+.+.|++++|++.+++. ...|   +..+|..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            45556666677777777777777777763  2234556777777888888888888888766 2223   5788888888


Q ss_pred             HHHHh-CChHHHHHHHHHHHhcCCCCC
Q 006246          474 ACRKH-GEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       474 ~~~~~-g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+... |++++|.+.++++++..|.++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            99999 999999999999999888753

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.09  E-value=1.6e-05  Score=68.92  Aligned_cols=95  Identities=13%  Similarity=-0.006  Sum_probs=56.2

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSAC  407 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  407 (654)
                      ...+..+...+.+.|++++|...|++...   .+...|..+..+|...|++++|+..|++..+.. +.+...+..+..++
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            34444555566666666666666665532   255566666666666666666666666666542 12344555566666


Q ss_pred             HccCCHHHHHHHHHHHHHH
Q 006246          408 AHAGMIDRGLQALTYMQQM  426 (654)
Q Consensus       408 ~~~g~~~~a~~~~~~~~~~  426 (654)
                      ...|++++|...|+...+.
T Consensus       100 ~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            6666666666666666553

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.08  E-value=9.1e-06  Score=74.46  Aligned_cols=121  Identities=7%  Similarity=-0.033  Sum_probs=60.1

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC-CC--------------HH
Q 006246          337 LVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR-PD--------------RI  398 (654)
Q Consensus       337 li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~--------------~~  398 (654)
                      .+......|.+++|.+.|+.-...   ....|..+...+...|++++|+..|++..+.... |+              ..
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            344445567777777776644332   4456777888888899999999999888774211 11              13


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+..+..++...|++++|+..++...+.  -+.+...+..+..+|...|++++|++.|++.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~a  148 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKI--DKNNVKALYKLGVANMYFGFLEEAKENLYKA  148 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            4444444555555555555555555442  1122334444444444444444444444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.08  E-value=3.6e-05  Score=64.50  Aligned_cols=96  Identities=13%  Similarity=0.011  Sum_probs=67.9

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHHcCCCCCc----chHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-C---HHHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQMYGIDPEV----EHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-N---AAVWEALL  472 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~---~~~~~~ll  472 (654)
                      .+...+...|++++|...|+.+.+.   .|+.    ..+..+..++.+.|++++|...+++. ...| +   ...+..+.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            3445566677777777777777663   2332    25666677777778888877777765 2223 2   56677888


Q ss_pred             HHHHHhCChHHHHHHHHHHHhcCCCCCC
Q 006246          473 GACRKHGEVEFGERLGKILLEMEPQNRR  500 (654)
Q Consensus       473 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~  500 (654)
                      ..+...|++++|...++++++..|++..
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~  111 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQYPGSDA  111 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTSHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCChH
Confidence            8889999999999999999999988753

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.07  E-value=2e-05  Score=65.99  Aligned_cols=95  Identities=11%  Similarity=-0.071  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACR  476 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~  476 (654)
                      .+..+...+.+.|++++|...|++..+.  .+.+...|..+..+|.+.|++++|++.+++. ...| +...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            3444444555555555555555555542  1223445555666666666666666666554 2223 4667777777788


Q ss_pred             HhCChHHHHHHHHHHHhcC
Q 006246          477 KHGEVEFGERLGKILLEME  495 (654)
Q Consensus       477 ~~g~~~~a~~~~~~~~~~~  495 (654)
                      ..|++++|...++++++++
T Consensus        84 ~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           84 AVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhC
Confidence            8888888888888888877

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.05  E-value=4.5e-05  Score=64.06  Aligned_cols=115  Identities=8%  Similarity=-0.098  Sum_probs=80.1

Q ss_pred             CchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 006246          329 VDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLS  405 (654)
Q Consensus       329 ~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  405 (654)
                      .+...+..+...|.+.|++++|...|++...   .+...|..+...|...|++++|+..|++..+.. +.+...+..+..
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   92 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAA   92 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            3455666677777777788888777777654   256677777778888888888888888877753 235667777777


Q ss_pred             HHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcC
Q 006246          406 ACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAG  447 (654)
Q Consensus       406 ~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g  447 (654)
                      .+...|++++|.+.|++..+.   .| +...+..+..++.+.|
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDL---DSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CGGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHHhc
Confidence            888888888888888887763   23 2345555555555544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.05  E-value=6.6e-05  Score=62.63  Aligned_cols=93  Identities=8%  Similarity=-0.052  Sum_probs=44.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      ..|..+...+...|++++|+..|++..... +.+...+..+...+...|++++|...+..+.+.. +.+...+..+...|
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            345555556666666666666666655432 1233344444444445555555555555444432 12233344444444


Q ss_pred             HHcCCHHHHHHHHhh
Q 006246          342 AKCGRLDMAWKVFED  356 (654)
Q Consensus       342 ~~~g~~~~A~~~~~~  356 (654)
                      .+.|++++|...|++
T Consensus        91 ~~~~~~~~A~~~~~~  105 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKK  105 (131)
T ss_dssp             HHTTCHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHH
Confidence            444444444444443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.04  E-value=5e-05  Score=64.41  Aligned_cols=101  Identities=3%  Similarity=-0.228  Sum_probs=69.8

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 006246          396 DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLG  473 (654)
Q Consensus       396 ~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~  473 (654)
                      +...+..+...+...|++++|...|+...+.  .+.+...|..+..+|...|++++|+..+++. ...| +...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            4455666666666667777777777666653  1223556666677777777777777777665 2223 5778888888


Q ss_pred             HHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          474 ACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       474 ~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      .+...|++++|+..+++++++.|++
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~p~~  110 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLAKEQ  110 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHHHChhH
Confidence            8888888888888888888887773

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.04  E-value=2.1e-05  Score=65.54  Aligned_cols=97  Identities=12%  Similarity=-0.036  Sum_probs=71.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHH
Q 006246          400 FACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRK  477 (654)
Q Consensus       400 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~  477 (654)
                      +..+...+.+.|++++|...|+...+.  -+.+...|..+..++.+.|++++|+..+++. ...| +...|..+...+..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            445556677788888888888888764  2235667777888888888888888888876 3334 57788889999999


Q ss_pred             hCChHHHHHHHHHHHhcCCCC
Q 006246          478 HGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      .|++++|+..++++++++|++
T Consensus        98 ~g~~~~A~~~~~~al~~~P~~  118 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQY  118 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-----
T ss_pred             cCCHHHHHHHHHHHHHhCcCC
Confidence            999999999999999988875

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.03  E-value=0.00013  Score=62.50  Aligned_cols=99  Identities=14%  Similarity=-0.000  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHH
Q 006246          398 ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEAL  471 (654)
Q Consensus       398 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~l  471 (654)
                      ..+..+...+...|++++|...|++..+   ..|+    ...+..+...|...|++++|++.+++. ...| +...|..+
T Consensus        29 ~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           29 EQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            3444444445555555555555554443   2333    344555566666666666666666654 2223 56777788


Q ss_pred             HHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          472 LGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       472 l~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ...+...|++++|...++++++++|++.
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~  133 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNK  133 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcH
Confidence            8888888888888888888888888763

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.02  E-value=2.4e-05  Score=68.22  Aligned_cols=97  Identities=8%  Similarity=-0.030  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC-------CCCC-CHH
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM-------PMEP-NAA  466 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p-~~~  466 (654)
                      ++..+...+...|++++|...++...+...-.++    ...+..+...+...|++++|.+.+++.       +..+ ...
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            3444444455555555555555544432111111    234455556666666666666666544       1111 145


Q ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          467 VWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       467 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      ++..+...+...|++++|...+++++++.
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            66778888888899999999888887754

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.01  E-value=6.4e-05  Score=63.12  Aligned_cols=106  Identities=9%  Similarity=-0.031  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHH
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVD  441 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~  441 (654)
                      .+|..+...+.+.|++++|++.|++.++.. +-+...|..+..+|...|++++|++.+++..+.   .|+ ...+..+  
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~~--   82 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEV---GRETRADYKLI--   82 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHHTTCCHHHH--
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHh---CcccchhhHHH--
Confidence            345556666666666666666666666542 223445666666666666666666666665542   111 1111111  


Q ss_pred             HHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          442 LLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                                             ..+|..+...+...|++++|++.|+++++..|+
T Consensus        83 -----------------------a~~~~~lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           83 -----------------------AKAMSRAGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             -----------------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             -----------------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence                                   123445555666666666666666666666554

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.01  E-value=6.6e-05  Score=62.69  Aligned_cols=102  Identities=8%  Similarity=-0.037  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHH
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLL  443 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~  443 (654)
                      .|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++.+.+..   |+           
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~---~~-----------   70 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG---RE-----------   70 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH---HH-----------
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc---cc-----------
Confidence            44455555555555555555555555432 2233444444444555555555555555444321   00           


Q ss_pred             HHcCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          444 GRAGYLAEAEEVISSMPMEPN----AAVWEALLGACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       444 ~~~g~~~~A~~~~~~m~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                                       ..++    ..+|..+...+...|++++|...++++++..|+
T Consensus        71 -----------------~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  111 (131)
T 1elr_A           71 -----------------NREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHRT  111 (131)
T ss_dssp             -----------------STTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             -----------------cchhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence                             0112    455666666777777777777777777777664

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.00  E-value=5.2e-05  Score=63.67  Aligned_cols=62  Identities=6%  Similarity=0.037  Sum_probs=29.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          437 GCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       437 ~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      ..+...+.+.|++++|++.|++. ...| +...|..+..+|...|++++|+..++++++++|++
T Consensus        12 ~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~   75 (127)
T 4gcn_A           12 KDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRET   75 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCccc
Confidence            33444444455555555444443 1122 34445555555555555555555555555554443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.99  E-value=0.0016  Score=64.41  Aligned_cols=129  Identities=11%  Similarity=-0.028  Sum_probs=53.4

Q ss_pred             HHHHHHHHHhcCCC---CcchHHHHHHHHHhc-C-CHHHHHHHHHhcCCC---CHhHHHHHHHHHHhcCChH--------
Q 006246          215 IEGAKELFKSTKDK---NTGSYNAMISGFARF-G-RFEEARKLFNEMNDK---DEITWSAIIDGYTKDGYYK--------  278 (654)
Q Consensus       215 ~~~A~~~~~~m~~~---~~~~~~~li~~~~~~-g-~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~--------  278 (654)
                      +++++.+++.+...   +..+|+.-...+.+. + ++++++++++.+.+.   |..+|+--.-.+.+.|.++        
T Consensus       105 l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~  184 (349)
T 3q7a_A          105 LEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWG  184 (349)
T ss_dssp             HHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHH
Confidence            44444444444332   222333333333333 3 444455555554432   3334444333333333333        


Q ss_pred             HHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCC-------hhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcC
Q 006246          279 EALEVFNEMQRDKIKPRKFVLSCVLAACASLGA-------LDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCG  345 (654)
Q Consensus       279 ~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~-------~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g  345 (654)
                      ++++.++++.+.. +-|...|+.....+.+.+.       ++++.+....++... +.|...|+-+-..+.+.|
T Consensus       185 eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~  256 (349)
T 3q7a_A          185 SELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFS  256 (349)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            5555555555543 2233344444444444433       344444444444433 234444444444444333

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=97.99  E-value=6e-05  Score=75.47  Aligned_cols=143  Identities=10%  Similarity=-0.069  Sum_probs=81.7

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          261 EITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       261 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      ...|..+...|.+.|++++|+..|++.....  |+...+           ..+.+.++-        +....++..+..+
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~-----------~~~~~~~~~--------~~~~~~~~nla~~  205 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSF-----------SNEEAQKAQ--------ALRLASHLNLAMC  205 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCC-----------CSHHHHHHH--------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccC-----------ChHHHHHHH--------HHHHHHHHHHHHH
Confidence            4456677777777888888888887777643  222100           001111100        0013355556666


Q ss_pred             HHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHH-
Q 006246          341 YAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRG-  416 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a-  416 (654)
                      |.+.|++++|...|++...   .+...|..+..+|...|++++|+..|++.++.. +.+...+..+..++...|+.+++ 
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  284 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLARE  284 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666665543   355666666667777777777777777766642 22445566666666666666666 


Q ss_pred             HHHHHHHHH
Q 006246          417 LQALTYMQQ  425 (654)
Q Consensus       417 ~~~~~~~~~  425 (654)
                      ...+..|..
T Consensus       285 ~~~~~~~~~  293 (336)
T 1p5q_A          285 KKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            345555544

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.97  E-value=0.00022  Score=74.03  Aligned_cols=208  Identities=10%  Similarity=-0.061  Sum_probs=110.0

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCH
Q 006246          268 IDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRL  347 (654)
Q Consensus       268 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~  347 (654)
                      ...+.+.|++++|++.|.++.+..........        ..+.........           ...+..|+..|.+.|++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~--------~~~~~~~~~~~~-----------~~al~~l~~~y~~~~~~   71 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAA--------GASVDDKRRNEQ-----------ETSILELGQLYVTMGAK   71 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSS--------SSSBCSHHHHHH-----------HHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHH--------HHHHHHHHhhhH-----------HHHHHHHHHHHHHCCCH
Confidence            45567788888888888888775422211100        000000000000           01233455566666666


Q ss_pred             HHHHHHHhhcCCC-----CH----HHHHHHHHHHHHcCChhHHHHHHHHHhh----cCCCCC-HHHHHHHHHHHHccCCH
Q 006246          348 DMAWKVFEDMKMK-----EV----FTWNAMIGGLAMHGRADDAIELFFKMQR----EKMRPD-RITFACVLSACAHAGMI  413 (654)
Q Consensus       348 ~~A~~~~~~m~~~-----~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~----~g~~p~-~~t~~~ll~~~~~~g~~  413 (654)
                      ++|.+.+..+...     +.    ...+.+...+...|+.++|++++++...    .+..+. ..++..+...+...|++
T Consensus        72 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  151 (434)
T 4b4t_Q           72 DKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQY  151 (434)
T ss_dssp             HHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccCh
Confidence            6666665554320     11    1223333333345666666666665543    222222 23555666667777777


Q ss_pred             HHHHHHHHHHHHHcCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC-------CCCCC--HHHHHHHHHHHHHhCC
Q 006246          414 DRGLQALTYMQQMYGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM-------PMEPN--AAVWEALLGACRKHGE  480 (654)
Q Consensus       414 ~~a~~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m-------~~~p~--~~~~~~ll~~~~~~g~  480 (654)
                      ++|..+++.+.....-..+    ...|..++.+|...|++++|..++++.       +.+|.  ...+..++..+...|+
T Consensus       152 ~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  231 (434)
T 4b4t_Q          152 KDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKD  231 (434)
T ss_dssp             HHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSC
T ss_pred             HHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHh
Confidence            7777777666553222111    335666677777777777777776654       11111  3445555666667777


Q ss_pred             hHHHHHHHHHHHhc
Q 006246          481 VEFGERLGKILLEM  494 (654)
Q Consensus       481 ~~~a~~~~~~~~~~  494 (654)
                      ++.|...+.++++.
T Consensus       232 y~~A~~~~~~a~~~  245 (434)
T 4b4t_Q          232 YKTAFSYFFESFES  245 (434)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            77777777777663

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.94  E-value=0.00019  Score=74.52  Aligned_cols=53  Identities=17%  Similarity=0.199  Sum_probs=41.2

Q ss_pred             HHHHHhcCCHHHHHHHHHhcCCCC--------------------HhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006246          237 ISGFARFGRFEEARKLFNEMNDKD--------------------EITWSAIIDGYTKDGYYKEALEVFNEMQR  289 (654)
Q Consensus       237 i~~~~~~g~~~~A~~~~~~~~~~~--------------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~  289 (654)
                      ...+.+.|++++|.+.|..+.+.+                    ..++..+...|...|++++|.+++.++..
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~   83 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTE   83 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            456788999999999999876421                    11467788888899999999988887765

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=97.93  E-value=0.00011  Score=61.41  Aligned_cols=93  Identities=11%  Similarity=-0.049  Sum_probs=54.8

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHH
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLL  443 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~  443 (654)
                      .|..+...+.+.|++++|+..|++.++.. +.+...|..+..++.+.|++++|+..+++..+.  -+.+...|..+..+|
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHH
Confidence            45555556666666666666666665542 224455666666666666666666666666653  122344556666666


Q ss_pred             HHcCCHHHHHHHHHhC
Q 006246          444 GRAGYLAEAEEVISSM  459 (654)
Q Consensus       444 ~~~g~~~~A~~~~~~m  459 (654)
                      ...|++++|.+.|++.
T Consensus        83 ~~~~~~~~A~~~~~~a   98 (126)
T 3upv_A           83 IAVKEYASALETLDAA   98 (126)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHH
Confidence            6666666666666654

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.92  E-value=0.00048  Score=67.74  Aligned_cols=190  Identities=14%  Similarity=0.065  Sum_probs=141.4

Q ss_pred             hcCCh-hHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCC----------HHHHHHHHhhcCC---CCHHHHHHHHHHHH
Q 006246          308 SLGAL-DQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGR----------LDMAWKVFEDMKM---KEVFTWNAMIGGLA  373 (654)
Q Consensus       308 ~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~----------~~~A~~~~~~m~~---~~~~~~~~li~~~~  373 (654)
                      +.|.+ ++|.+....++..+ +.+..+|+.--..+...|.          +++++.+++.+..   ++..+|+.-...+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            44444 47888888888766 3355566554444433333          6788888887764   57889999888888


Q ss_pred             HcCC--hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC-HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHc----
Q 006246          374 MHGR--ADDAIELFFKMQREKMRPDRITFACVLSACAHAGM-IDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRA----  446 (654)
Q Consensus       374 ~~g~--~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~-~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~----  446 (654)
                      ..|+  ++++++++.++.+...+ |...|+.-...+...|. ++++++.+..+.+.  -+-|...|+....++.+.    
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHHSCCC
T ss_pred             ccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhhhcc
Confidence            8884  89999999999997644 77788877777788888 69999999999984  244566777777666665    


Q ss_pred             ----------CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHh-----------CChHHHHHHHHHHHhcCCCCCCch
Q 006246          447 ----------GYLAEAEEVISSM-PMEP-NAAVWEALLGACRKH-----------GEVEFGERLGKILLEMEPQNRRCD  502 (654)
Q Consensus       447 ----------g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~-----------g~~~~a~~~~~~~~~~~p~~~~~~  502 (654)
                                +.++++++.+++. ...| |...|+-+-..+.+.           +.++++++.++++++++|++ +|.
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~-~w~  274 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN-KWC  274 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC-HHH
T ss_pred             ccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc-chH
Confidence                      5688999999877 2334 788998666666555           45889999999999999998 564

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=97.92  E-value=0.00022  Score=58.12  Aligned_cols=107  Identities=15%  Similarity=0.090  Sum_probs=67.5

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD  441 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~  441 (654)
                      ...|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...+++..+.  .+.+...+..+..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh--CcccHHHHHHHHH
Confidence            3455666666777777777777777776642 224556666666777777777777777777663  1223556667777


Q ss_pred             HHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHH
Q 006246          442 LLGRAGYLAEAEEVISSM-PMEP-NAAVWEAL  471 (654)
Q Consensus       442 ~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~l  471 (654)
                      ++...|++++|.+.+++. ...| +...+..+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l  112 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHEANNPQLKEGL  112 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            777777777777777765 3334 34444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.92  E-value=0.00014  Score=64.14  Aligned_cols=92  Identities=7%  Similarity=-0.122  Sum_probs=42.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAH  409 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  409 (654)
                      .+..+...|.+.|++++|.+.|++...   .+...|..+...|.+.|++++|+..|++.++.. +-+...|..+..++..
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   91 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLARFD   91 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            334444444444555555444444332   234444444445555555555555555544432 1123344444444445


Q ss_pred             cCCHHHHHHHHHHHHH
Q 006246          410 AGMIDRGLQALTYMQQ  425 (654)
Q Consensus       410 ~g~~~~a~~~~~~~~~  425 (654)
                      .|++++|...|++..+
T Consensus        92 ~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           92 MADYKGAKEAYEKGIE  107 (164)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHH
Confidence            5555555555544444

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.91  E-value=1.9e-05  Score=72.30  Aligned_cols=158  Identities=9%  Similarity=-0.019  Sum_probs=79.3

Q ss_pred             HHHhcCCHHHHHHHHHhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHH
Q 006246          239 GFARFGRFEEARKLFNEMNDK---DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQG  315 (654)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  315 (654)
                      .....|+++.|.+.|+.-.+.   ....+..+...+...|++++|+..|++.....  |+...+....        ...-
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~~--------~~~~   82 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEWDDQI--------LLDK   82 (198)
T ss_dssp             ---------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTCCCHH--------HHHH
T ss_pred             hhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--hcccccchhh--------HHHH
Confidence            334445555555555433221   34467777788888888888888888887642  2111000000        0000


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC
Q 006246          316 IWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREK  392 (654)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  392 (654)
                      .   .       .....++..+..+|.+.|++++|...|++...   .+...|..+..+|...|++++|++.|++..+..
T Consensus        83 ~---~-------~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~  152 (198)
T 2fbn_A           83 K---K-------NIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  152 (198)
T ss_dssp             H---H-------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             H---H-------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence            0   0       00123445556666666666666666665543   345566666666666677777777666666542


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHH
Q 006246          393 MRPDRITFACVLSACAHAGMIDRGL  417 (654)
Q Consensus       393 ~~p~~~t~~~ll~~~~~~g~~~~a~  417 (654)
                       +-+...+..+..++...++.+++.
T Consensus       153 -p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          153 -PNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             -TTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             -CCcHHHHHHHHHHHHHHHHHHHHH
Confidence             123445555555555555555544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.89  E-value=2.7e-05  Score=78.08  Aligned_cols=99  Identities=7%  Similarity=0.006  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH-H
Q 006246          399 TFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN-AAVWEALLGA-C  475 (654)
Q Consensus       399 t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~-~~~~~~ll~~-~  475 (654)
                      .|..+..++.+.|++++|+..+++..+.  -+.+...|..+..+|...|++++|++.|++. ...|+ ...+..|... .
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~  309 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAE  309 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            6777778888888888888888888773  2234667888888888888888888888887 44453 4555555544 3


Q ss_pred             HHhCChHHHHHHHHHHHhcCCCCC
Q 006246          476 RKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       476 ~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ...+..+.+...|+++++..|+++
T Consensus       310 ~~~~~~~~a~~~~~~~l~~~p~~~  333 (338)
T 2if4_A          310 QEKALYQKQKEMYKGIFKGKDEGG  333 (338)
T ss_dssp             ------------------------
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCCC
Confidence            445667778888888888888763

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=97.89  E-value=9.4e-05  Score=61.71  Aligned_cols=108  Identities=13%  Similarity=0.010  Sum_probs=84.9

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC--CCC----HHHHH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKM--RPD----RITFA  401 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~p~----~~t~~  401 (654)
                      ...+..+...|...|++++|...|++...   .+...|..+...|...|++++|+..|++..+...  .++    ..++.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            45677889999999999999999998764   4678899999999999999999999999987532  122    56777


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVD  441 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~  441 (654)
                      .+...+...|++++|.+.|+.+.+.   .|+......+..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~l~~  120 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE---HRTPDVLKKCQQ  120 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CCCHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh---CCCHHHHHHHHH
Confidence            7888888888888888888888774   355444444433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.87  E-value=0.00018  Score=61.60  Aligned_cols=94  Identities=20%  Similarity=0.069  Sum_probs=54.4

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDL  442 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~  442 (654)
                      ..+..+...+.+.|++++|+..|++..... +.+...|..+..++...|++++|...|+...+.  -+.+...+..+..+
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~   95 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALM--DINEPRFPFHAAEC   95 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHHHH
Confidence            344455555666666666666666665542 224445555666666666666666666666653  12234455566666


Q ss_pred             HHHcCCHHHHHHHHHhC
Q 006246          443 LGRAGYLAEAEEVISSM  459 (654)
Q Consensus       443 ~~~~g~~~~A~~~~~~m  459 (654)
                      |...|++++|.+.|++.
T Consensus        96 ~~~~g~~~~A~~~~~~a  112 (142)
T 2xcb_A           96 HLQLGDLDGAESGFYSA  112 (142)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHH
Confidence            66666666666666654

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=97.83  E-value=0.00034  Score=59.10  Aligned_cols=96  Identities=6%  Similarity=-0.084  Sum_probs=51.6

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHH
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIV  440 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li  440 (654)
                      +...|..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|...++...+.  .+.+...+..+.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CchhHHHHHHHH
Confidence            34455555555555556666666555555542 223445555555555566666666666555542  122344555555


Q ss_pred             HHHHHcCCHHHHHHHHHhC
Q 006246          441 DLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       441 ~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+|...|++++|++.|++.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a  103 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRA  103 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHH
Confidence            5666666666666555544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.76  E-value=0.00036  Score=59.65  Aligned_cols=95  Identities=11%  Similarity=-0.029  Sum_probs=61.1

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchH
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD----RITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHY  436 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~  436 (654)
                      +...|..+...+...|++++|+..|++..+.  .|+    ...+..+...+...|++++|...++...+.  .+.+...+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHHH
Confidence            4556666666666777777777777776654  344    455666666666777777777777766653  12234556


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC
Q 006246          437 GCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       437 ~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      ..+..+|...|++++|.+.+++.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~a  125 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRC  125 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666777777777777777665

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.74  E-value=0.00012  Score=64.30  Aligned_cols=113  Identities=19%  Similarity=0.132  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcC------CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcch
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREK------MRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEH  435 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g------~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~  435 (654)
                      ...|......+.+.|++++|+..|.+.+..-      -.|+...+                    ..+.     +.+...
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~--------------------~~~~-----~~~~~~   65 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEW--------------------VELD-----RKNIPL   65 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHH--------------------HHHH-----HTHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHH--------------------HHHH-----HHHHHH
Confidence            3456666777777777777777777766530      00110000                    0000     112356


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          436 YGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      |..+..+|.+.|++++|+..+++. ...| +...|..+..++...|++++|...++++++++|++.
T Consensus        66 ~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~  131 (162)
T 3rkv_A           66 YANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAA  131 (162)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCH
Confidence            777888888888888888888876 3334 688899999999999999999999999999999975

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.73  E-value=0.0003  Score=56.66  Aligned_cols=88  Identities=14%  Similarity=0.041  Sum_probs=38.5

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC--CHHHHHHHHHHHHcc-
Q 006246          337 LVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP--DRITFACVLSACAHA-  410 (654)
Q Consensus       337 li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p--~~~t~~~ll~~~~~~-  410 (654)
                      +...|.+.|++++|...|++...   .+...|..+...+...|++++|++.|++..+.. +.  +...+..+...+... 
T Consensus        12 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~~~~   90 (112)
T 2kck_A           12 EGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALRYIE   90 (112)
T ss_dssp             HHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHHHHh
Confidence            33334444444444444433321   233344444444444555555555555444431 11  233444444445555 


Q ss_pred             CCHHHHHHHHHHHHH
Q 006246          411 GMIDRGLQALTYMQQ  425 (654)
Q Consensus       411 g~~~~a~~~~~~~~~  425 (654)
                      |++++|.+.++....
T Consensus        91 ~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           91 GKEVEAEIAEARAKL  105 (112)
T ss_dssp             SCSHHHHHHHHHHGG
T ss_pred             CCHHHHHHHHHHHhh
Confidence            555555555554443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.72  E-value=0.00017  Score=62.60  Aligned_cols=62  Identities=13%  Similarity=0.054  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhc----CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQRE----KMRP-DRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .+..+...+...|++++|.+.+++..+.    +..+ ...++..+...+...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            4444555555555665555555554432    1111 123455566666666777777777666654

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.65  E-value=0.00027  Score=73.95  Aligned_cols=121  Identities=8%  Similarity=-0.094  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC--------------HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcC
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD--------------RITFACVLSACAHAGMIDRGLQALTYMQQMYG  428 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--------------~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g  428 (654)
                      ..|..+...|.+.|++++|+..|++.++......              ...|..+..++.+.|++++|+..++++.+.  
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~--  346 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL--  346 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--
Confidence            3455555555566666666666665555311100              345555666666666666666666666653  


Q ss_pred             CCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHH
Q 006246          429 IDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGE  485 (654)
Q Consensus       429 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~  485 (654)
                      -+.+...|..+..+|...|++++|+..|++. ...| +..+|..+...+...|+.+++.
T Consensus       347 ~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          347 DSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            1223445566666666666666666666655 3333 3455566666666666655554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.64  E-value=0.00026  Score=58.70  Aligned_cols=87  Identities=15%  Similarity=0.014  Sum_probs=38.9

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCH
Q 006246          337 LVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMI  413 (654)
Q Consensus       337 li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~  413 (654)
                      +...+.+.|++++|...|++...   .+...|..+...+...|++++|+..|++..+.. +-+...+..+..++...|++
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            33444444555555554444432   134444444444444455555555444444432 11233444444444444444


Q ss_pred             HHHHHHHHHHH
Q 006246          414 DRGLQALTYMQ  424 (654)
Q Consensus       414 ~~a~~~~~~~~  424 (654)
                      ++|...+++..
T Consensus       102 ~~A~~~~~~al  112 (121)
T 1hxi_A          102 NAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            44444444443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.64  E-value=4e-05  Score=66.00  Aligned_cols=96  Identities=9%  Similarity=0.064  Sum_probs=59.0

Q ss_pred             CHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCC----------HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHh-
Q 006246          412 MIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGY----------LAEAEEVISSM-PMEP-NAAVWEALLGACRKH-  478 (654)
Q Consensus       412 ~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~----------~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~-  478 (654)
                      .+++|++.++...+.  -+.+...|..+..++...|+          +++|+..|++. .+.| +..+|..+..+|... 
T Consensus        17 ~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           17 LFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            344444444444432  12233444444444444443          45777777665 3444 466777777777766 


Q ss_pred             ----------CChHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 006246          479 ----------GEVEFGERLGKILLEMEPQNRRCDDVAKMRK  509 (654)
Q Consensus       479 ----------g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~  509 (654)
                                |++++|+..|+++++++|++..+..+.++..
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~~~~  135 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTA  135 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence                      4899999999999999999975555544433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.63  E-value=3.5e-05  Score=63.63  Aligned_cols=65  Identities=17%  Similarity=0.109  Sum_probs=39.0

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          435 HYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       435 ~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+..+..+|.+.|++++|++.+++. ...| +..++..+..++...|++++|+..++++++..|+++
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~   95 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKIIAETSDDE   95 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcH
Confidence            3444555555555555555555544 1122 456666667777777777777777777777777664

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.62  E-value=0.00032  Score=73.80  Aligned_cols=117  Identities=9%  Similarity=-0.037  Sum_probs=92.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChh
Q 006246          303 LAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRAD  379 (654)
Q Consensus       303 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  379 (654)
                      ...+.+.|++++|.+.++++.+.. +.+..++..+..+|.+.|++++|.+.|++..+   .+..+|..+..+|...|+++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            345678899999999999999875 44688899999999999999999999998765   36789999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCHHHHHHHHHH--HHccCCHHHHHHHHH
Q 006246          380 DAIELFFKMQREKMRPDRITFACVLSA--CAHAGMIDRGLQALT  421 (654)
Q Consensus       380 ~A~~l~~~m~~~g~~p~~~t~~~ll~~--~~~~g~~~~a~~~~~  421 (654)
                      +|++.|++..+.... +...+..+..+  +.+.|++++|.+.++
T Consensus        92 eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            999999999886321 33344445444  778899999998887

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.56  E-value=0.0007  Score=70.80  Aligned_cols=125  Identities=12%  Similarity=0.010  Sum_probs=97.6

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CC---------------HHHHHHHHHHHHHcCChhHHHHHHHHHhhcC
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKM---KE---------------VFTWNAMIGGLAMHGRADDAIELFFKMQREK  392 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~---------------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  392 (654)
                      ...+..+...|.+.|++++|...|++...   .+               ...|..+..+|.+.|++++|+..|++.++..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            34556667777777777777777776653   12               5788999999999999999999999998864


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHH-HHHhC
Q 006246          393 MRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEE-VISSM  459 (654)
Q Consensus       393 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~-~~~~m  459 (654)
                       +.+...|..+..++...|++++|+..|+++.+   +.| +...+..+..++.+.|+.++|.. ++.+|
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~---l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  412 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE---VNPQNKAARLQISMCQKKAKEHNERDRRIYANM  412 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---TC----CHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             33677888999999999999999999999976   344 46788889999999999988874 45555

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.52  E-value=0.0012  Score=54.82  Aligned_cols=86  Identities=13%  Similarity=0.046  Sum_probs=42.4

Q ss_pred             HHHHHHcCChhHHHHHHHHHhhcCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC----cchHHHHH
Q 006246          369 IGGLAMHGRADDAIELFFKMQREKMRPDR----ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE----VEHYGCIV  440 (654)
Q Consensus       369 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~----~~~~~~li  440 (654)
                      ...+...|++++|+..|++..+..  |+.    ..+..+..++...|++++|...|+.+.+.   .|+    ...+..+.
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~la   83 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR---YPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTSTTHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH---CCCCcccHHHHHHHH
Confidence            344445555555555555555432  211    24444445555555555555555555543   122    23344455


Q ss_pred             HHHHHcCCHHHHHHHHHhC
Q 006246          441 DLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       441 ~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+|.+.|++++|.+.|+++
T Consensus        84 ~~~~~~g~~~~A~~~~~~~  102 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQV  102 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            5555555555555555544

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.48  E-value=0.00078  Score=68.16  Aligned_cols=116  Identities=9%  Similarity=0.034  Sum_probs=63.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCC-------------------CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKM-------------------KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMR  394 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~-------------------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  394 (654)
                      +..+...|.+.|++++|.+.|++...                   .+...|..+..+|.+.|++++|++.+++.++.. +
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  304 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  304 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-c
Confidence            34455555566666666655554432                   133456666666666666666666666666542 1


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHH
Q 006246          395 PDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       395 p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~  453 (654)
                      .+...+..+..++...|++++|...|+++.+.   .| +...+..+..++.+.++.+++.
T Consensus       305 ~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l---~P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          305 SNTKALYRRAQGWQGLKEYDQALADLKKAQEI---APEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            23445556666666666666666666666552   23 3334444445555555554443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.48  E-value=0.00013  Score=60.09  Aligned_cols=83  Identities=11%  Similarity=0.023  Sum_probs=37.7

Q ss_pred             cCChhHHHHHHHHHhhcCC-CC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHH
Q 006246          375 HGRADDAIELFFKMQREKM-RP-DRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEA  452 (654)
Q Consensus       375 ~g~~~~A~~l~~~m~~~g~-~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  452 (654)
                      .|++++|+..|++.++.+. .| +...+..+...+...|++++|...|++..+.  .+-+...+..+..+|.+.|++++|
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQ--FPNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHcCCHHHH
Confidence            3445555555555554321 01 2234444555555555555555555555542  112234444555555555555555


Q ss_pred             HHHHHhC
Q 006246          453 EEVISSM  459 (654)
Q Consensus       453 ~~~~~~m  459 (654)
                      ++.+++.
T Consensus        81 ~~~~~~a   87 (117)
T 3k9i_A           81 VELLLKI   87 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555543

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.46  E-value=0.0038  Score=66.91  Aligned_cols=151  Identities=10%  Similarity=-0.013  Sum_probs=120.4

Q ss_pred             CHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCC----------hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccC-
Q 006246          346 RLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGR----------ADDAIELFFKMQREKMRPDRITFACVLSACAHAG-  411 (654)
Q Consensus       346 ~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~----------~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g-  411 (654)
                      .-++|.+.++++..   .+..+|+.--..+...|+          ++++++.++++.+...+ +...|..-...+.+.| 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccc
Confidence            34567888877764   356778887777777777          89999999999987533 6778888888888888 


Q ss_pred             -CHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcC-CHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHh---------
Q 006246          412 -MIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAG-YLAEAEEVISSM-PMEP-NAAVWEALLGACRKH---------  478 (654)
Q Consensus       412 -~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~---------  478 (654)
                       +++++++.++++.+.  -+-+...|+.-..++.+.| .++++++.++++ ...| |...|+.....+...         
T Consensus       123 ~~~~~el~~~~k~l~~--d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhh--ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccccc
Confidence             779999999999884  2335666777777888888 899999999988 4444 789999888887774         


Q ss_pred             -----CChHHHHHHHHHHHhcCCCCC
Q 006246          479 -----GEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       479 -----g~~~~a~~~~~~~~~~~p~~~  499 (654)
                           +.++++.+.++++++++|++.
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~~~  226 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPNDQ  226 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSSCS
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCCCc
Confidence                 567999999999999999986

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.44  E-value=0.00073  Score=70.75  Aligned_cols=124  Identities=9%  Similarity=-0.052  Sum_probs=81.5

Q ss_pred             HHHHHcCChhHHHHHHHHHhhc---CCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHHHc--CCCCC----cchH
Q 006246          370 GGLAMHGRADDAIELFFKMQRE---KMRPDR----ITFACVLSACAHAGMIDRGLQALTYMQQMY--GIDPE----VEHY  436 (654)
Q Consensus       370 ~~~~~~g~~~~A~~l~~~m~~~---g~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~--g~~p~----~~~~  436 (654)
                      ..+..+|++++|+.++++.++.   -+-|+.    .+++.|..+|...|++++|..++++..+.+  -+.|+    ..++
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            3456678888888888877652   233443    367777888888888888888888776532  11222    3457


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          437 GCIVDLLGRAGYLAEAEEVISSM---------PMEPN-AAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       437 ~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      +.|..+|..+|++++|+.++++.         +..|+ ..+.+.+..++...+.++.|+..|+++.+
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77888888888888888887765         22333 23344455566677777777777776644

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.39  E-value=0.00075  Score=59.09  Aligned_cols=94  Identities=11%  Similarity=0.003  Sum_probs=57.1

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---------------------CHHHHHHHHHHHHHcCChhHHHHHHHHHh
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKMK---------------------EVFTWNAMIGGLAMHGRADDAIELFFKMQ  389 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---------------------~~~~~~~li~~~~~~g~~~~A~~l~~~m~  389 (654)
                      ...+......+.+.|++++|...|++....                     +...|..+..+|.+.|++++|+..+++.+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456778889999999999999999876531                     12345555555555555555555555555


Q ss_pred             hcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          390 REKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       390 ~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      +.. +.+...|..+..++...|++++|...|+...+
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            542 12334455555555555555555555555544

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.35  E-value=0.0012  Score=66.79  Aligned_cols=91  Identities=13%  Similarity=-0.043  Sum_probs=61.6

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      +...|..+..+|.+.|++++|++.+++.++.. +.+...+..+..++...|++++|...++.+.+.. +.+..++..+..
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~  349 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45567778888888888888888888887653 2244566666677777777777777777777654 234556666666


Q ss_pred             HHHHcCCHHHHHH
Q 006246          340 MYAKCGRLDMAWK  352 (654)
Q Consensus       340 ~y~~~g~~~~A~~  352 (654)
                      .+.+.++.+++.+
T Consensus       350 ~~~~~~~~~~a~k  362 (370)
T 1ihg_A          350 VKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666655543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.35  E-value=0.0012  Score=68.97  Aligned_cols=121  Identities=12%  Similarity=0.004  Sum_probs=76.1

Q ss_pred             HHHHHcCCHHHHHHHHhhcCC-------C----CHHHHHHHHHHHHHcCChhHHHHHHHHHhhc-----C-CCCCH-HHH
Q 006246          339 DMYAKCGRLDMAWKVFEDMKM-------K----EVFTWNAMIGGLAMHGRADDAIELFFKMQRE-----K-MRPDR-ITF  400 (654)
Q Consensus       339 ~~y~~~g~~~~A~~~~~~m~~-------~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-----g-~~p~~-~t~  400 (654)
                      ..+...|++++|+.++++...       +    -..+++.|...|...|++++|+.++++.++-     | -.|+. .++
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            345567777777777765542       1    1246777777788888888888887776541     2 12222 367


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHHc--CCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          401 ACVLSACAHAGMIDRGLQALTYMQQMY--GIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       401 ~~ll~~~~~~g~~~~a~~~~~~~~~~~--g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      +.|...|...|++++|..++++..+..  -+-|+    ..+.+.+..++...|.+++|+.++.++
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~  461 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKM  461 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777778888888887777765432  12233    223445556666677777777777665

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.34  E-value=0.00078  Score=54.97  Aligned_cols=67  Identities=9%  Similarity=0.035  Sum_probs=44.9

Q ss_pred             cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          433 VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       433 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ...+..+...|.+.|++++|++.+++. ...| +...|..+...+...|++++|...+++++++.|++.
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~   87 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAAAQSRG   87 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc
Confidence            445556666666666666666666654 2223 466777777778888888888888888887776544

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.33  E-value=0.0012  Score=56.87  Aligned_cols=62  Identities=13%  Similarity=0.037  Sum_probs=33.6

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhc-----CCCCCH-HHH----HHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQRE-----KMRPDR-ITF----ACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~-----g~~p~~-~t~----~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .|+.+..++.+.|++++|+..+++.++.     .+.|+. ..|    .....++...|++++|+..|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            5666666666666666666666655542     113433 244    4555555555555555555555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.27  E-value=0.00038  Score=55.35  Aligned_cols=83  Identities=6%  Similarity=0.002  Sum_probs=61.0

Q ss_pred             CcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHH
Q 006246          432 EVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRK  509 (654)
Q Consensus       432 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~  509 (654)
                      +...+..+..+|.+.|++++|++.|++. ...| +...|..+..+|...|++++|+..+++++++.|++.....+.++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l~~   85 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSELQD   85 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHHHH
Confidence            3456677777788888888888888776 2233 4677888888888888888898888888888777665555666655


Q ss_pred             HHHhc
Q 006246          510 LMKER  514 (654)
Q Consensus       510 ~m~~~  514 (654)
                      .+.+.
T Consensus        86 ~l~~~   90 (100)
T 3ma5_A           86 AKLKA   90 (100)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            55544

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.25  E-value=0.0012  Score=56.11  Aligned_cols=111  Identities=9%  Similarity=-0.112  Sum_probs=88.9

Q ss_pred             CChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHH----cCCHHH
Q 006246          376 GRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGR----AGYLAE  451 (654)
Q Consensus       376 g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~  451 (654)
                      +++++|+++|++..+.| .|+..    |...|...+.+++|.++|++..+.    -+...+..|..+|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46788999999998887 34443    666667777888899999998873    456778888888888    889999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHH----hCChHHHHHHHHHHHhcC
Q 006246          452 AEEVISSMPMEPNAAVWEALLGACRK----HGEVEFGERLGKILLEME  495 (654)
Q Consensus       452 A~~~~~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~  495 (654)
                      |.+.|++.-..-++..+..|...|..    .++.++|...++++.+..
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            99999987333578888888888888    889999999999988864

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.24  E-value=0.00089  Score=66.88  Aligned_cols=142  Identities=13%  Similarity=0.012  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYA  342 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~  342 (654)
                      .|..+...+.+.|++++|+..|++....  .|+...       +...++.+++...+          ....+..+..+|.
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~~~  241 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHHHH
Confidence            3455556666666777777766666543  232211       11111222211111          0124455555666


Q ss_pred             HcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH-HHHHHHHH-HHccCCHHHHH
Q 006246          343 KCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI-TFACVLSA-CAHAGMIDRGL  417 (654)
Q Consensus       343 ~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~-~~~~g~~~~a~  417 (654)
                      +.|++++|...|++...   .+...|..+..+|...|++++|+..|++..+.  .|+.. .+..+... ....+..+++.
T Consensus       242 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-----------------------------
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666655542   24556666666666666666666666666553  33322 22222222 12234455555


Q ss_pred             HHHHHHHH
Q 006246          418 QALTYMQQ  425 (654)
Q Consensus       418 ~~~~~~~~  425 (654)
                      ..|..|..
T Consensus       320 ~~~~~~l~  327 (338)
T 2if4_A          320 EMYKGIFK  327 (338)
T ss_dssp             --------
T ss_pred             HHHHHhhC
Confidence            66665543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.16  E-value=0.0051  Score=52.11  Aligned_cols=109  Identities=11%  Similarity=-0.084  Sum_probs=61.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH----cCCHHHHH
Q 006246          276 YYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK----CGRLDMAW  351 (654)
Q Consensus       276 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~----~g~~~~A~  351 (654)
                      ++++|++.|++..+.| .|+..    +...+...+..++|.+.+....+.|   ++..+..|..+|..    .++.++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4566777776666665 22222    4444455555666666666666654   44555556666655    55666666


Q ss_pred             HHHhhcCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHhhcC
Q 006246          352 KVFEDMKM-KEVFTWNAMIGGLAM----HGRADDAIELFFKMQREK  392 (654)
Q Consensus       352 ~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g  392 (654)
                      +.|++..+ .+..++..|...|..    .++.++|+++|++..+.|
T Consensus        82 ~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            66655543 245555555555555    555666666666655554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.13  E-value=0.00041  Score=55.96  Aligned_cols=94  Identities=9%  Similarity=0.021  Sum_probs=52.1

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-------cc
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-------VE  434 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-------~~  434 (654)
                      ...|..+...+...|++++|++.|++..+.. +.+...+..+..++...|++++|+..+++..+   +.|+       ..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~   79 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLR---YTSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SCSSTTSHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCccHHHHHHH
Confidence            3455566666666666666766666666542 22455566666666666666666666666654   2343       22


Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          435 HYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       435 ~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+..+..++...|++++|.+.++++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHHHh
Confidence            3334444444444444444444433

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.06  E-value=0.0059  Score=62.81  Aligned_cols=87  Identities=10%  Similarity=-0.015  Sum_probs=57.0

Q ss_pred             HHccCCHHHHHHHHHHHHHHcC--CCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCC-HHHHHH
Q 006246          407 CAHAGMIDRGLQALTYMQQMYG--IDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM---------PMEPN-AAVWEA  470 (654)
Q Consensus       407 ~~~~g~~~~a~~~~~~~~~~~g--~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~  470 (654)
                      +.+.|++++|..++++..+...  +.|+    ..+++.|..+|...|++++|+.++++.         +..|+ ..+++.
T Consensus       297 ~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~n  376 (429)
T 3qwp_A          297 LKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMK  376 (429)
T ss_dssp             HHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHH
T ss_pred             HHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHH
Confidence            3445556666666555543211  1122    234666666777777777777766654         23343 567889


Q ss_pred             HHHHHHHhCChHHHHHHHHHHHh
Q 006246          471 LLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       471 ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      |...|...|++++|+.+++++++
T Consensus       377 La~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          377 VGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH
Confidence            99999999999999999998876

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.05  E-value=0.026  Score=63.52  Aligned_cols=154  Identities=15%  Similarity=0.150  Sum_probs=104.5

Q ss_pred             HHHHhcCCHHHHHH-HHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHH
Q 006246          176 QMYACFGCVNKARQ-ILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFN  254 (654)
Q Consensus       176 ~~y~~~g~~~~A~~-~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~  254 (654)
                      ......+++++|.+ ++..++.  ......++..+.+.|.+++|+++.+.     .   ..-.......|++++|.++.+
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i~~--~~~~~~~~~~l~~~~~~~~a~~~~~~-----~---~~~f~~~l~~~~~~~A~~~~~  676 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNVEG--KDSLTKIARFLEGQEYYEEALNISPD-----Q---DQKFELALKVGQLTLARDLLT  676 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGCCC--HHHHHHHHHHHHHTTCHHHHHHHCCC-----H---HHHHHHHHHHTCHHHHHHHHT
T ss_pred             hHHHHhCCHHHHHHHHHhcCCc--hHHHHHHHHHHHhCCChHHheecCCC-----c---chheehhhhcCCHHHHHHHHH
Confidence            33456788888888 6644441  12237777778888999888877532     1   122445677899999999887


Q ss_pred             hcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHH
Q 006246          255 EMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLG  334 (654)
Q Consensus       255 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  334 (654)
                      .+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...++.+...++-+.+...|.      +
T Consensus       677 ~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~  739 (814)
T 3mkq_A          677 DES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------F  739 (814)
T ss_dssp             TCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------H
T ss_pred             hhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------h
Confidence            663  567899999999999999999999988753         44555556667777766666555555441      2


Q ss_pred             HHHHHHHHHcCCHHHHHHHHhh
Q 006246          335 TALVDMYAKCGRLDMAWKVFED  356 (654)
Q Consensus       335 ~~li~~y~~~g~~~~A~~~~~~  356 (654)
                      +.-..+|.++|++++|.+++.+
T Consensus       740 ~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          740 NLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            3344456667777777665443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.04  E-value=0.0039  Score=64.06  Aligned_cols=90  Identities=11%  Similarity=-0.029  Sum_probs=64.6

Q ss_pred             cCCHHHHHHHHHHHHHHcC--CCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHH
Q 006246          410 AGMIDRGLQALTYMQQMYG--IDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM---------PMEPN-AAVWEALLG  473 (654)
Q Consensus       410 ~g~~~~a~~~~~~~~~~~g--~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m---------~~~p~-~~~~~~ll~  473 (654)
                      .|++++|..++++..+...  +.|+    ..+++.|..+|...|++++|+.++++.         +..|+ ..+++.|..
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            4667777777766655321  1222    345777778888888888888777765         23444 567899999


Q ss_pred             HHHHhCChHHHHHHHHHHHh-----cCCCCC
Q 006246          474 ACRKHGEVEFGERLGKILLE-----MEPQNR  499 (654)
Q Consensus       474 ~~~~~g~~~~a~~~~~~~~~-----~~p~~~  499 (654)
                      .|...|++++|+.+++++++     +.|+++
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp  421 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIMEVAHGKDHP  421 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHHHHcCCCCh
Confidence            99999999999999999988     467764

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.03  E-value=0.00042  Score=55.87  Aligned_cols=63  Identities=16%  Similarity=0.047  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          436 YGCIVDLLGRAGYLAEAEEVISSM-PME-PNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~~~~m-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      +..+...+.+.|++++|++.+++. ... .+...|..+..++...|++++|+..++++++++|++
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~   71 (111)
T 2l6j_A            7 QKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTA   71 (111)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSST
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCc
Confidence            333444444444444444444433 111 134444444444555555555555555555555444

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.02  E-value=0.019  Score=61.43  Aligned_cols=196  Identities=7%  Similarity=-0.021  Sum_probs=91.1

Q ss_pred             hHHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcCC----------hhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcC
Q 006246          277 YKEALEVFNEMQRDKIKPRK-FVLSCVLAACASLGA----------LDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCG  345 (654)
Q Consensus       277 ~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g  345 (654)
                      .++|++.++++...  .|+. ..|+.--.++...++          ++++.+.++.+.+.. +-+..+|+.-.-.+.+.|
T Consensus        45 ~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           45 DESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             SHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCS
T ss_pred             CHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            34556666666654  2332 223332333333333          455555555555443 223444444444444445


Q ss_pred             --CHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcC-ChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 006246          346 --RLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHG-RADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQA  419 (654)
Q Consensus       346 --~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g-~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~  419 (654)
                        +++++.+.++++.+   +|..+|+.-...+.+.| .++++++.+.++++..+. |...|+.....+.+.+..      
T Consensus       122 ~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~------  194 (567)
T 1dce_A          122 EPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQ------  194 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCC------
T ss_pred             cccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccc------
Confidence              44555555555443   34455555555555555 455555555555544322 333444333332221000      


Q ss_pred             HHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHH------------HH
Q 006246          420 LTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEF------------GE  485 (654)
Q Consensus       420 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~------------a~  485 (654)
                              .-..+..        -...+.+++|++.+++. ...| |...|.-+...+.+.+..++            |.
T Consensus       195 --------~~~~~~~--------~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~  258 (567)
T 1dce_A          195 --------PDSGPQG--------RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDVLCCVHVSREEACLS  258 (567)
T ss_dssp             --------CCSSSCC--------SSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSCEEEEEEETTTTEEE
T ss_pred             --------ccccccc--------cccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccceeeeeeccCCceEE
Confidence                    0000000        00014466777776655 2233 57777777777776666544            34


Q ss_pred             HHHHHHHhcCCCC
Q 006246          486 RLGKILLEMEPQN  498 (654)
Q Consensus       486 ~~~~~~~~~~p~~  498 (654)
                      ..|.++++++|..
T Consensus       259 ~~f~~~i~~~~~~  271 (567)
T 1dce_A          259 VCFSRPLTVGSRM  271 (567)
T ss_dssp             EEEEEEECTTBTT
T ss_pred             EEeccceeccccc
Confidence            4456666666663

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.88  E-value=0.0032  Score=51.14  Aligned_cols=26  Identities=15%  Similarity=-0.013  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHh
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQ  389 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~  389 (654)
                      .|..+...|...|++++|+..|++..
T Consensus        21 ~~~~lg~~~~~~g~~~~A~~~~~~al   46 (115)
T 2kat_A           21 LRFTLGKTYAEHEQFDAALPHLRAAL   46 (115)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33333333333444444444444333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.81  E-value=0.0039  Score=49.30  Aligned_cols=63  Identities=16%  Similarity=0.097  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ...|..+...|...|++++|+..|++..+.. +.+...|..+..++...|++++|.+.|++..+
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3444455555555555555555555554432 11233444455555555555555555554443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.76  E-value=0.011  Score=45.13  Aligned_cols=61  Identities=16%  Similarity=0.202  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...+++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            44444455555555555555555554432 11333444455555555555555555555544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.75  E-value=0.007  Score=51.41  Aligned_cols=84  Identities=18%  Similarity=0.112  Sum_probs=52.1

Q ss_pred             CCcchHHHHHHHHHHcC---CHHHHHHHHHhC-CCC-C--CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchH
Q 006246          431 PEVEHYGCIVDLLGRAG---YLAEAEEVISSM-PME-P--NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDD  503 (654)
Q Consensus       431 p~~~~~~~li~~~~~~g---~~~~A~~~~~~m-~~~-p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  503 (654)
                      ++..+.-.+..++.+.+   ++++++.++++. ... |  +...+-.|.-+|.+.|++++|.+.++++++++|++.   +
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~---Q  106 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNN---Q  106 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCH---H
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCH---H
Confidence            34444444444555544   334555555443 111 3  245566778889999999999999999999999874   4


Q ss_pred             HHHHHH----HHHhcCCc
Q 006246          504 VAKMRK----LMKERGIK  517 (654)
Q Consensus       504 a~~~~~----~m~~~g~~  517 (654)
                      |..+.+    .+.+.|+.
T Consensus       107 A~~Lk~~ie~~~~kdgl~  124 (152)
T 1pc2_A          107 AKELERLIDKAMKKDGLV  124 (152)
T ss_dssp             HHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHHhhHH
Confidence            554443    34445553

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=96.68  E-value=0.0027  Score=54.51  Aligned_cols=94  Identities=16%  Similarity=0.075  Sum_probs=51.3

Q ss_pred             CChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCC----------HHHHHHHHhhcCC---CCHHHHHHHHHHHHHc-
Q 006246          310 GALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGR----------LDMAWKVFEDMKM---KEVFTWNAMIGGLAMH-  375 (654)
Q Consensus       310 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~----------~~~A~~~~~~m~~---~~~~~~~~li~~~~~~-  375 (654)
                      +.+++|.+.++..++.. +.+...++.+..++...|+          +++|+..|++..+   .+..+|..+..+|... 
T Consensus        16 ~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhc
Confidence            34444555555444443 2344444444444444443          3466666665543   2445666666666655 


Q ss_pred             ----------CChhHHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 006246          376 ----------GRADDAIELFFKMQREKMRPDRITFACVLSA  406 (654)
Q Consensus       376 ----------g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  406 (654)
                                |++++|++.|++.++.  .|+...|...+..
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~  133 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM  133 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence                      3677777777777774  5666655554443

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.62  E-value=0.044  Score=54.07  Aligned_cols=138  Identities=11%  Similarity=-0.001  Sum_probs=90.4

Q ss_pred             CCHHHHHHHHHHHH--HcC---ChhHHHHHHHHHhhcCCCCCH-HHHHHHHHHHH----ccC----CHHHHHHHHHHHHH
Q 006246          360 KEVFTWNAMIGGLA--MHG---RADDAIELFFKMQREKMRPDR-ITFACVLSACA----HAG----MIDRGLQALTYMQQ  425 (654)
Q Consensus       360 ~~~~~~~~li~~~~--~~g---~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~~~~----~~g----~~~~a~~~~~~~~~  425 (654)
                      .+...|...+.+..  ..+   ...+|+.+|++.++.  .|+. ..|..+..++.    ..+    ......+.++....
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            35666666665543  223   357888888888885  5553 33433333332    111    11111122222211


Q ss_pred             HcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          426 MYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       426 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ....+.+...|..+...+...|++++|...++++ ...|+...|..+...+...|++++|...+++++.++|...
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            1122456777888877777889999999999988 3458888888889999999999999999999999999853

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.61  E-value=0.015  Score=44.28  Aligned_cols=79  Identities=18%  Similarity=0.143  Sum_probs=40.0

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMY  341 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y  341 (654)
                      ..|..+...+...|++++|+..|++..... +.+...+..+..++...|++++|...+..+.+.. +.+...+..+...+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345555556666666666666666655542 2233344445555555555555555555555443 22333444444443


Q ss_pred             H
Q 006246          342 A  342 (654)
Q Consensus       342 ~  342 (654)
                      .
T Consensus        88 ~   88 (91)
T 1na3_A           88 Q   88 (91)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.51  E-value=0.0072  Score=47.33  Aligned_cols=61  Identities=18%  Similarity=0.241  Sum_probs=45.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CCCC-CHH-HHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          439 IVDLLGRAGYLAEAEEVISSM-PMEP-NAA-VWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       439 li~~~~~~g~~~~A~~~~~~m-~~~p-~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ....+.+.|++++|++.+++. ...| +.. .|..+...+...|++++|+..++++++++|++.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~   69 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSP   69 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcH
Confidence            445667778888888877766 2233 456 777888888888888888888888888888775

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.51  E-value=0.25  Score=55.37  Aligned_cols=103  Identities=15%  Similarity=0.171  Sum_probs=60.9

Q ss_pred             HHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQA  419 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~  419 (654)
                      ....+|++++|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...++
T Consensus       661 ~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~  729 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTL  729 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHH
Confidence            3455677777777766553  456777777777777777777777776643         23344444445666554444


Q ss_pred             HHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCC
Q 006246          420 LTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMP  460 (654)
Q Consensus       420 ~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  460 (654)
                      -+..... |      -++.-..+|.+.|++++|++++.++.
T Consensus       730 ~~~a~~~-~------~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          730 AKDAETT-G------KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHc-C------chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            4433331 1      23444445556666666666666554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.36  E-value=0.015  Score=46.37  Aligned_cols=78  Identities=17%  Similarity=0.138  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC-----C----CCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHH
Q 006246          436 YGCIVDLLGRAGYLAEAEEVISSM-----P----MEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAK  506 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~~~~m-----~----~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~  506 (654)
                      +-.|...+.+.|+++.|...++..     +    ..+...++..|..++.+.|+++.|...++++++++|++.....-..
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~~   87 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhHH
Confidence            344555556666666666655543     0    1235778899999999999999999999999999999863333333


Q ss_pred             HHHHHHh
Q 006246          507 MRKLMKE  513 (654)
Q Consensus       507 ~~~~m~~  513 (654)
                      .++.+.+
T Consensus        88 ~~~~~~~   94 (104)
T 2v5f_A           88 YFEYIMA   94 (104)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4454443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.14  E-value=0.27  Score=42.76  Aligned_cols=129  Identities=15%  Similarity=0.163  Sum_probs=90.5

Q ss_pred             HHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 006246          339 DMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQ  418 (654)
Q Consensus       339 ~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  418 (654)
                      +...++|+++.|.++.+.+  .+...|..|......+|+++-|.+.|++...         |..+.-.|.-.|+.+.-..
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            4456789999999988776  4678899999999999999999999988764         3445555666788776555


Q ss_pred             HHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCChHHHHHHHHHH
Q 006246          419 ALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEPNAAVWEALLGACRKHGEVEFGERLGKIL  491 (654)
Q Consensus       419 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  491 (654)
                      +-+..... |      -++.-...+.-.|+++++.+++.+.+.-|...      -....+|..+.|.++.+.+
T Consensus        82 la~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            54444432 2      35556666778899999999998876433222      2234577777777665544

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.07  E-value=0.0048  Score=48.38  Aligned_cols=56  Identities=13%  Similarity=0.162  Sum_probs=30.1

Q ss_pred             HHHHHHcCChhHHHHHHHHHhhcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          369 IGGLAMHGRADDAIELFFKMQREKMRPDRI-TFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       369 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ...+...|++++|+..|++..+.. +.+.. .+..+..++...|++++|.+.|++..+
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            344555566666666666655542 11333 455555555555666666666655554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.07  E-value=0.039  Score=42.77  Aligned_cols=70  Identities=13%  Similarity=0.024  Sum_probs=54.8

Q ss_pred             CCCcchHHHHHHHHHHcCC---HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          430 DPEVEHYGCIVDLLGRAGY---LAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       430 ~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +++...+..+..++...++   .++|..++++. ...| ++..+..+...+...|++++|+..++++++.+|.++
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~~   77 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNL   77 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCc
Confidence            3456667777777765554   68888888877 3444 578888889999999999999999999999999843

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=95.66  E-value=0.021  Score=58.57  Aligned_cols=57  Identities=7%  Similarity=-0.113  Sum_probs=26.8

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHhhcCC----------CC-HHHHHHHHHHHHHcCChhHHHHHHHHH
Q 006246          332 VLGTALVDMYAKCGRLDMAWKVFEDMKM----------KE-VFTWNAMIGGLAMHGRADDAIELFFKM  388 (654)
Q Consensus       332 ~~~~~li~~y~~~g~~~~A~~~~~~m~~----------~~-~~~~~~li~~~~~~g~~~~A~~l~~~m  388 (654)
                      .+++.|..+|...|++++|..++++...          |+ ..+++.|...|...|++++|+.+|++.
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~A  408 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKA  408 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHH
Confidence            3445555555555555555555444321          11 123444444455555555554444444

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=95.53  E-value=0.27  Score=48.54  Aligned_cols=70  Identities=9%  Similarity=0.088  Sum_probs=42.7

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcch
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEH  435 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~  435 (654)
                      +..+|..+...+...|++++|+..++++...+  |+...|..+...+.-.|++++|.+.+++...   +.|...+
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Alr---L~P~~~t  345 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFN---LRPGANT  345 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSCSHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCcCh
Confidence            55566666555555666666666666666653  5655565556666666666666666666654   2455443

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=95.41  E-value=0.063  Score=55.08  Aligned_cols=86  Identities=10%  Similarity=0.094  Sum_probs=45.2

Q ss_pred             HHHHcCCHHHHHHHHhhcCC-------C-C---HHHHHHHHHHHHHcCChhHHHHHHHHHhhc-----C-CCCCH-HHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKM-------K-E---VFTWNAMIGGLAMHGRADDAIELFFKMQRE-----K-MRPDR-ITFA  401 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~-------~-~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-----g-~~p~~-~t~~  401 (654)
                      -+.+.|++++|+..+++...       + +   ..+++.+...|...|++++|+.++++.++-     | -.|+. .+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            34455666666666654432       1 1   235666666666666666666666655431     1 11211 2455


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .|...|...|++++|..++++..+
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Confidence            555556666666666655555443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.39  E-value=0.18  Score=41.00  Aligned_cols=80  Identities=18%  Similarity=0.124  Sum_probs=51.6

Q ss_pred             CCcchHHHHHHHHHHcCCHHH---HHHHHHhC-CCC-C--CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchH
Q 006246          431 PEVEHYGCIVDLLGRAGYLAE---AEEVISSM-PME-P--NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDD  503 (654)
Q Consensus       431 p~~~~~~~li~~~~~~g~~~~---A~~~~~~m-~~~-p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  503 (654)
                      |+..+--.+..++.+.....+   ++.++++. ... |  .....-.|.-++.+.|+++.|.+.++.+++++|+|   ..
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP~n---~Q  109 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQN---NQ  109 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC---HH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCCC---HH
Confidence            444444445555555554444   55555554 111 2  22334567778999999999999999999999987   46


Q ss_pred             HHHHHHHHHh
Q 006246          504 VAKMRKLMKE  513 (654)
Q Consensus       504 a~~~~~~m~~  513 (654)
                      |..+.+.+.+
T Consensus       110 A~~Lk~~i~~  119 (126)
T 1nzn_A          110 AKELERLIDK  119 (126)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            6666555543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.23  E-value=2.1e-05  Score=78.81  Aligned_cols=274  Identities=15%  Similarity=0.155  Sum_probs=147.8

Q ss_pred             ChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHHHHH
Q 006246           82 NFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAHVVK  161 (654)
Q Consensus        82 ~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  161 (654)
                      +++.|.+.-++...|.  .|..|..+....++..+|++.|-+.      -|+..|..++.++.+.|.++.-...+....+
T Consensus        40 ~ldRa~eyA~~~n~p~--VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk  111 (624)
T 3lvg_A           40 NLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARK  111 (624)
T ss_dssp             CSTTTTTSSSSCCCCC--CSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTST
T ss_pred             ccHHHHHHHHHhCCcc--HHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            3444444444444444  4888888888888888887665322      2666788888888888888887777766655


Q ss_pred             hCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHH
Q 006246          162 NGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFA  241 (654)
Q Consensus       162 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~  241 (654)
                      .  ..++.+=+.|+-+|++.+++.+-.+.+   ..+|+.-...+.+-|...|.++.|.-+|..+..     |.-|...+.
T Consensus       112 ~--~ke~~IDteLi~ayAk~~rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN-----~akLAstLV  181 (624)
T 3lvg_A          112 K--ARESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLV  181 (624)
T ss_dssp             T--CCSTTTTHHHHHHHHTSCSSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC-----CTTTSSSSS
T ss_pred             H--hcccccHHHHHHHHHhhCcHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCcc-----HHHHHHHHH
Confidence            4  345566678888888888866544333   335565666777777788887777777766543     111112222


Q ss_pred             hcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHH
Q 006246          242 RFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDH  321 (654)
Q Consensus       242 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  321 (654)
                      +.|++..|.+.-++  ..++.+|-.+-.+|...+.+.-|--.--.+.   +.|  ..+..++..|...|.+++-+.+++.
T Consensus       182 ~L~~yq~AVdaArK--Ans~ktWKeV~~ACvd~~EfrLAqicGLniI---vha--deL~elv~~YE~~G~f~ELIsLlEa  254 (624)
T 3lvg_A          182 HLGEYQAAVDGARK--ANSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHA--DELEELINYYQDRGYFEELITMLEA  254 (624)
T ss_dssp             SCSGGGSSTTTTTT--CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHH---CCS--SCCSGGGSSSSTTCCCTTSTTTHHH
T ss_pred             HHHHHHHHHHHHHh--cCChhHHHHHHHHHhCchHHHHHHHhcchhc---ccH--HHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            33333333221111  1234455555555555555544432221211   111  1122334445555555555555554


Q ss_pred             HHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC----C-------CHHHHHHHHHHHHHcCChhHHH
Q 006246          322 VKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM----K-------EVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       322 ~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~----~-------~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      ..... .....+|+-|.-.|+|- ++++-.+-++..-.    |       ....|.-++-.|.+-.+++.|.
T Consensus       255 glglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          255 ALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            43211 23445556666666553 33333333332211    1       2345666666666666666554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.02  E-value=1.6  Score=37.90  Aligned_cols=127  Identities=10%  Similarity=0.084  Sum_probs=70.8

Q ss_pred             HHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHH
Q 006246          240 FARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIH  319 (654)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  319 (654)
                      ..++|+++.|.++.+.+  .+...|..+.......|+++-|.+.|.+...         |..+.-.|...|+.+.-..+-
T Consensus        15 AL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla   83 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQ   83 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHH
Confidence            34457777776666655  3456677777777777777777777766542         334444555566666555555


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 006246          320 DHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKM  388 (654)
Q Consensus       320 ~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m  388 (654)
                      +.....|      -++.-...+.-.|+++++.++|.+...-+..     .......|..+.|.++.+++
T Consensus        84 ~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA-----~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           84 NIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLA-----YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHH-----HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHH-----HHHHHHcCcHHHHHHHHHHh
Confidence            4444444      1233333444567777777766554432111     11112255566666666554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.45  E-value=0.041  Score=55.64  Aligned_cols=365  Identities=10%  Similarity=0.057  Sum_probs=223.0

Q ss_pred             CchhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHH
Q 006246           63 QDHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKA  142 (654)
Q Consensus        63 ~~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  142 (654)
                      ..+.+|+.|..++.+  .+++.+|++-|=  ...|+..|..+|.+..+.|.+++-+..+.-.++..-  ++..=+.|+-+
T Consensus        52 n~p~VWs~LgkAqL~--~~~v~eAIdsyI--kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~a  125 (624)
T 3lvg_A           52 NEPAVWSQLAKAQLQ--KGMVKEAIDSYI--KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFA  125 (624)
T ss_dssp             CCCCCSSSHHHHTTT--SSSCTTTTTSSC--CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHH
T ss_pred             CCccHHHHHHHHHHc--cCchHHHHHHHH--hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHH
Confidence            357889999999999  899999888774  345667789999999999999999988876665432  44444678889


Q ss_pred             HhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC------------------------CCCC
Q 006246          143 CSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG------------------------SKSD  198 (654)
Q Consensus       143 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~------------------------~~~~  198 (654)
                      |++.+++.+-.+.+.       .|+..-...+.+-+...|.++.|+-+|..+                        ...+
T Consensus       126 yAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns  198 (624)
T 3lvg_A          126 LAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANS  198 (624)
T ss_dssp             HHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCS
T ss_pred             HHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            999988776443321       366666777788888888888888888663                        1246


Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHH------------------------------HhcC---CCCcchHHHHHHHHHhcCC
Q 006246          199 VICWNALIDGYLKCGDIEGAKELF------------------------------KSTK---DKNTGSYNAMISGFARFGR  245 (654)
Q Consensus       199 ~~~~~~li~~~~~~g~~~~A~~~~------------------------------~~m~---~~~~~~~~~li~~~~~~g~  245 (654)
                      +.+|-.+-.+|...+.+..|...-                              +...   +.....|+-|.-.|+|- +
T Consensus       199 ~ktWKeV~~ACvd~~EfrLAqicGLniIvhadeL~elv~~YE~~G~f~ELIsLlEaglglErAHmGmFTELaILYsKY-~  277 (624)
T 3lvg_A          199 TRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKF-K  277 (624)
T ss_dssp             SCSHHHHTHHHHHSCTTTTTTHHHHHHHCCSSCCSGGGSSSSTTCCCTTSTTTHHHHTTSTTCCHHHHHHHHHHHHSS-C
T ss_pred             hhHHHHHHHHHhCchHHHHHHHhcchhcccHHHHHHHHHHHHhCCCHHHHHHHHHHHhCCCchhHHHHHHHHHHHHhc-C
Confidence            788999888888777766553322                              1111   12334577777777775 3


Q ss_pred             HHHHHHHHHhcCC----C-------CHhHHHHHHHHHHhcCChHHHHHHH-------------HHHHhCCCCCCcch---
Q 006246          246 FEEARKLFNEMND----K-------DEITWSAIIDGYTKDGYYKEALEVF-------------NEMQRDKIKPRKFV---  298 (654)
Q Consensus       246 ~~~A~~~~~~~~~----~-------~~~~~~~li~~~~~~g~~~~A~~~~-------------~~m~~~g~~p~~~t---  298 (654)
                      .++-.+.++..-.    |       ....|.-++-.|.+-.+++.|....             .+....  .+|...   
T Consensus       278 PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~ltMi~h~~~Aw~h~~Fkdii~K--VaN~EiyYK  355 (624)
T 3lvg_A          278 PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITK--VANVELYYR  355 (624)
T ss_dssp             TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTTSCHHHHCCGGGGTTTGGG--CSCSHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHhCChhhccHHHHHHHHHH--cchHHHHHH
Confidence            3333333332221    1       4456888888888888888765431             111000  122222   


Q ss_pred             ------------HHHHHHHHHhcCChhHHHHHHHHHHHc----------CCCCchhHHHHHHHHHHHcCCHHHHHHHHhh
Q 006246          299 ------------LSCVLAACASLGALDQGIWIHDHVKRN----------SICVDAVLGTALVDMYAKCGRLDMAWKVFED  356 (654)
Q Consensus       299 ------------~~~ll~~~~~~g~~~~a~~~~~~~~~~----------~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  356 (654)
                                  ++-+|.++...=+...+.+++...-..          .-..+..+-.++-+.|....+++.-+...+.
T Consensus       356 Ai~FYL~e~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~LR~SId~  435 (624)
T 3lvg_A          356 AIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTSIDA  435 (624)
T ss_dssp             HHHHHTTSCCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHHHHHTTSS
T ss_pred             HHHHHHHhChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence                        334444444444444444444332110          0112345566777788887777665554443


Q ss_pred             cCCC------------CHHHHH-HHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 006246          357 MKMK------------EVFTWN-AMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYM  423 (654)
Q Consensus       357 m~~~------------~~~~~~-~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  423 (654)
                      -..-            +..-+. .-...|.+++++++++++.++   .++      |.-.+...+.+|+.+-+.++++..
T Consensus       436 ydNFD~i~LA~rLEkHeL~eFRrIAA~LYkkn~rw~qsi~l~Kk---Dkl------ykDAietAa~S~~~elaeeLL~yF  506 (624)
T 3lvg_A          436 YDNFDNISLAQRLEKHELIEFRRIAAYLFKGNNRWKQSVELCKK---DSL------YKDAMQYASESKDTELAEELLQWF  506 (624)
T ss_dssp             CCCSCTTHHHHHHHTCSSHHHHHHHHHHHHTTCHHHHHSSCSST---TCC------TTGGGTTTTTCCCTTHHHHHHHHH
T ss_pred             hccccHHHHHHHHhhCchHHHHHHHHHHHHhcccHHHHHHHHHh---ccc------HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3222            222222 223446677788888776432   122      222344556778888888888888


Q ss_pred             HHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHH
Q 006246          424 QQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVI  456 (654)
Q Consensus       424 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  456 (654)
                      .+. |   +.+.|.+.+-.|...=+++-++++-
T Consensus       507 v~~-g---~~EcF~a~LytCYdLlrpDvVlEla  535 (624)
T 3lvg_A          507 LQE-E---KRECFGACLFTCYDLLRPDVVLETA  535 (624)
T ss_dssp             HHH-C---STHHHHHHHHHTSSSSSCHHHHHHH
T ss_pred             HHc-C---chHHHHHHHHHHhhccChHHHHHHH
Confidence            774 3   3455666655555666777777764

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=92.94  E-value=2.2  Score=34.88  Aligned_cols=84  Identities=10%  Similarity=-0.032  Sum_probs=55.5

Q ss_pred             cCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHH
Q 006246          243 FGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV  322 (654)
Q Consensus       243 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~  322 (654)
                      +|++......+-.+.. +....+..++.+...|+-++-.+++..+.. +.+|++..+..+..||.+.|+..++.+++.++
T Consensus        74 C~NlKrVi~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~A  151 (172)
T 1wy6_A           74 CQNLKSVVECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEA  151 (172)
T ss_dssp             CSCTHHHHHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hhcHHHHHHHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            4444444444443322 334456667777888888888888877544 34667777777888888888888888888887


Q ss_pred             HHcCCC
Q 006246          323 KRNSIC  328 (654)
Q Consensus       323 ~~~~~~  328 (654)
                      -+.|++
T Consensus       152 C~kG~k  157 (172)
T 1wy6_A          152 CKKGEK  157 (172)
T ss_dssp             HHTTCH
T ss_pred             HHhhhH
Confidence            777753

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=92.52  E-value=0.31  Score=46.05  Aligned_cols=51  Identities=10%  Similarity=0.017  Sum_probs=23.3

Q ss_pred             CCHHHHHHHHHhC-CCCC--CHHHHHHHHHHHHH-hCChHHHHHHHHHHHhcCCC
Q 006246          447 GYLAEAEEVISSM-PMEP--NAAVWEALLGACRK-HGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       447 g~~~~A~~~~~~m-~~~p--~~~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~p~  497 (654)
                      |+.++|.+.|++. .+.|  +..++......++. .|+.++|.+.++++++..|.
T Consensus       218 Gd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          218 GGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             CCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             CCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCC
Confidence            4444444444443 2223  13344444444444 25555555555555555554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=92.44  E-value=1.5  Score=33.62  Aligned_cols=47  Identities=4%  Similarity=0.032  Sum_probs=21.5

Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          378 ADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       378 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .++|..+|++.++.. +-+......+...+.+.|++++|+.+|+.+.+
T Consensus        25 ~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A           25 TDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            345555555554432 11223344444444555555555555555543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=92.29  E-value=0.67  Score=39.20  Aligned_cols=83  Identities=12%  Similarity=-0.009  Sum_probs=54.8

Q ss_pred             hHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHHHcCCCC--CcchHHHHHHHHHHcCCHHHHH
Q 006246          379 DDAIELFFKMQREKMRPDRITFACVLSACAHAG---MIDRGLQALTYMQQMYGIDP--EVEHYGCIVDLLGRAGYLAEAE  453 (654)
Q Consensus       379 ~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g---~~~~a~~~~~~~~~~~g~~p--~~~~~~~li~~~~~~g~~~~A~  453 (654)
                      ..+.+-|.+..+.|. ++..+-..+..++.+++   ++++|+.+|+...+. . .|  ....+-.|.-+|.+.|++++|.
T Consensus        15 ~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-S-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            455556666655553 56666666777777777   566888888887774 2 24  2445555666778888888888


Q ss_pred             HHHHhC-CCCCC
Q 006246          454 EVISSM-PMEPN  464 (654)
Q Consensus       454 ~~~~~m-~~~p~  464 (654)
                      +.++.+ ..+|+
T Consensus        92 ~y~~~lL~ieP~  103 (152)
T 1pc2_A           92 KYVRGLLQTEPQ  103 (152)
T ss_dssp             HHHHHHHHHCTT
T ss_pred             HHHHHHHhcCCC
Confidence            888876 44553

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.37  E-value=3.7  Score=34.00  Aligned_cols=48  Identities=25%  Similarity=0.368  Sum_probs=36.2

Q ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHH----HHHHhcCCc
Q 006246          467 VWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMR----KLMKERGIK  517 (654)
Q Consensus       467 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~----~~m~~~g~~  517 (654)
                      ..-.|.-++.+.|+++.|.++.+.+++++|+|   ..|..+.    +.|.+.|+.
T Consensus        79 cLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n---~QA~~Lk~~Ie~~i~kdGli  130 (144)
T 1y8m_A           79 CLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN---KQVGALKSMVEDKIQKETLK  130 (144)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCC---HHHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCc---HHHHHHHHHHHHHHHHhchh
Confidence            34456778999999999999999999999987   4555554    444555653

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=91.20  E-value=1.2  Score=36.37  Aligned_cols=46  Identities=24%  Similarity=0.376  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHh
Q 006246          465 AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKE  513 (654)
Q Consensus       465 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~~  513 (654)
                      ...+--|.-|+.+.|+++.|.+..+.+++++|+|   ..|..+.+.+.+
T Consensus        78 Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N---~QA~~Lk~~Ie~  123 (134)
T 3o48_A           78 RECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN---KQVGALKSMVED  123 (134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTC---HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCC---HHHHHHHHHHHH
Confidence            4455667788999999999999999999999987   566666665544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=90.85  E-value=1.5  Score=34.22  Aligned_cols=59  Identities=8%  Similarity=-0.055  Sum_probs=27.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhcC------CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          367 AMIGGLAMHGRADDAIELFFKMQREK------MRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       367 ~li~~~~~~g~~~~A~~l~~~m~~~g------~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .|...+.+.|++..|...|++..+.-      -.+....+..+..++.+.|+++.|..+++.+.+
T Consensus        10 ~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A           10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            44445555555555555555544320      011233444444555555555555555555543

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=90.68  E-value=1.8  Score=36.27  Aligned_cols=112  Identities=17%  Similarity=0.180  Sum_probs=76.1

Q ss_pred             CCCcchHHHHHHHHHhCCCc------hHHHHHHHHhHhCCCCCCcc----cHHHHHH---HHhccCCcHHHHHHHHHHHH
Q 006246           95 KPNVFVWNSVLRACLEHNEP------WRVISLYSEMVGVDSKPNKF----TYPTVFK---ACSITEADKEGVQVHAHVVK  161 (654)
Q Consensus        95 ~~~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~~g~~p~~~----t~~~ll~---~~~~~~~~~~a~~~~~~~~~  161 (654)
                      ..|..+|-..+...-+.|++      ++.+++|++.... ++|+..    .|..+.-   .+...+|.+.|+++|..+++
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            45777888888888888888      8888888888764 566532    1211111   12334789999999999987


Q ss_pred             hCCCCChhhHHHHHHHHHhcCCHHHHHHHHhc---CCCCChhhHHHHHHH
Q 006246          162 NGLCGDVHVKSSGIQMYACFGCVNKARQILDD---GSKSDVICWNALIDG  208 (654)
Q Consensus       162 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~  208 (654)
                      ..-.- ..+|......-.+.|++..|++++.+   |.+.+.....+.++-
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~n  137 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALRN  137 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHHH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHHh
Confidence            63222 66777777888889999999998876   344455554444443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=89.73  E-value=7.4  Score=31.88  Aligned_cols=63  Identities=14%  Similarity=0.109  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCC
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGI  429 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~  429 (654)
                      .+.-+..+...|+-++-.+++..+.. +-+|++.....+..||.+.|+..++.+++.++-+. |+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK-GE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hh
Confidence            44456666777777777777777544 23666777777777777777777777777777663 54

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=89.27  E-value=1.5  Score=36.72  Aligned_cols=53  Identities=13%  Similarity=0.010  Sum_probs=39.7

Q ss_pred             cCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Q 006246          446 AGYLAEAEEVISSM-P-MEPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQN  498 (654)
Q Consensus       446 ~g~~~~A~~~~~~m-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  498 (654)
                      .++.++|.++|+.+ . .+.=+.+|-....--.++|++..|.+++.+++.+.|.+
T Consensus        73 i~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             hcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            36667777777666 1 11117788877777889999999999999999988875

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=88.69  E-value=17  Score=34.76  Aligned_cols=132  Identities=12%  Similarity=0.051  Sum_probs=71.9

Q ss_pred             HHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHH----HHHhHhCCCCCCcccHHHHHHH
Q 006246           67 VSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISL----YSEMVGVDSKPNKFTYPTVFKA  142 (654)
Q Consensus        67 ~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~g~~p~~~t~~~ll~~  142 (654)
                      .+-++..-|.+  .+++++|++++-..           ...+.+.|+...|-++    .+-..+.++++|..+...++..
T Consensus        35 ~~Rtl~~Ry~~--~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l  101 (312)
T 2wpv_A           35 TLRTIANRYVR--SKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRL  101 (312)
T ss_dssp             HHHHHHHHHHH--TTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            45566777777  88899998887542           2344556766655554    4444556777777777777666


Q ss_pred             HhccCCcH-HHHHHHHHHH----HhCC--CCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHH
Q 006246          143 CSITEADK-EGVQVHAHVV----KNGL--CGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLK  211 (654)
Q Consensus       143 ~~~~~~~~-~a~~~~~~~~----~~g~--~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  211 (654)
                      +.....-+ .=..+...++    +.|-  ..|+.....+...|.+.|++.+|+.-|-.....|...+..++.-+.+
T Consensus       102 ~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~  177 (312)
T 2wpv_A          102 IAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLC  177 (312)
T ss_dssp             HTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHH
Confidence            54432111 1122222332    2321  23555666666666666666666665543333334444444433333

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=87.72  E-value=7.8  Score=29.63  Aligned_cols=86  Identities=12%  Similarity=0.136  Sum_probs=63.5

Q ss_pred             ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhh
Q 006246          311 ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQR  390 (654)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  390 (654)
                      ..++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+....||+..|-+|-.  .+.|..+++...+.++..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            56777777777776653  33333333455778999999999999999999999988754  567888888888888887


Q ss_pred             cCCCCCHHHHH
Q 006246          391 EKMRPDRITFA  401 (654)
Q Consensus       391 ~g~~p~~~t~~  401 (654)
                      +| .|....|.
T Consensus        98 sg-~p~~q~Fa  107 (116)
T 2p58_C           98 SQ-DPRIQTFV  107 (116)
T ss_dssp             CC-CHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            76 45555554

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.54  E-value=21  Score=34.44  Aligned_cols=130  Identities=12%  Similarity=0.087  Sum_probs=70.0

Q ss_pred             HHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHH----HHhHhCCCCCCcccHHHHHHH
Q 006246           67 VSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLY----SEMVGVDSKPNKFTYPTVFKA  142 (654)
Q Consensus        67 ~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~~  142 (654)
                      .+-++..-|.+  .+++++|++++-.-           ...+.+.|+...|-++-    +-..+.++++|..+...++..
T Consensus        37 ~~RTi~~Ry~~--~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L  103 (336)
T 3lpz_A           37 ETRLVAARYSK--QGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGC  103 (336)
T ss_dssp             HHHHHHHHHHH--TTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--hcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            34455666777  88899998886432           23455667666555543    444556777887777777766


Q ss_pred             HhccCCcH-HHHHHHHHHH----HhC--CCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHH
Q 006246          143 CSITEADK-EGVQVHAHVV----KNG--LCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGY  209 (654)
Q Consensus       143 ~~~~~~~~-~a~~~~~~~~----~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~  209 (654)
                      +.....-+ .=..+...++    +.|  ...|+.....+...|.+.+++.+|+.-|=....+++..+..++.-+
T Consensus       104 ~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew  177 (336)
T 3lpz_A          104 LRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEW  177 (336)
T ss_dssp             HTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHH
T ss_pred             HHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHH
Confidence            65544311 1122222222    223  2235555556666666666666666555333322334443333333

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.42  E-value=7.3  Score=29.73  Aligned_cols=86  Identities=15%  Similarity=0.144  Sum_probs=63.5

Q ss_pred             ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhh
Q 006246          311 ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQR  390 (654)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  390 (654)
                      ..++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+....||+.+|-+|-.  .+.|..+++...+.++..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            56777777777776653  33333333455778999999999999999999999988754  578888888888888887


Q ss_pred             cCCCCCHHHHH
Q 006246          391 EKMRPDRITFA  401 (654)
Q Consensus       391 ~g~~p~~~t~~  401 (654)
                      +| .|....|.
T Consensus        97 sg-~p~~q~Fa  106 (115)
T 2uwj_G           97 SS-DPALADFA  106 (115)
T ss_dssp             CS-SHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            76 45555554

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=86.83  E-value=2.6  Score=39.85  Aligned_cols=66  Identities=12%  Similarity=-0.042  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhc-CChhHHHHHHHHHHHcCCC
Q 006246          263 TWSAIIDGYTKD-----GYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASL-GALDQGIWIHDHVKRNSIC  328 (654)
Q Consensus       263 ~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~  328 (654)
                      .|..+...|.+.     |+.++|.+.|++.++.+..-+..++......++.. |+.+.+.+.++++++....
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCC
Confidence            455555555553     56666666666665542111234444444444442 5566666666665554443

>3mv2_A Coatomer subunit alpha; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_A

Probab=85.97  E-value=5.2  Score=38.21  Aligned_cols=61  Identities=10%  Similarity=0.163  Sum_probs=47.4

Q ss_pred             HHHhCCCCCC--HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHhcC
Q 006246          455 VISSMPMEPN--AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKERG  515 (654)
Q Consensus       455 ~~~~m~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~~~g  515 (654)
                      +|...+++|.  .-+..+-+..+.+++|+..|...+++++++.|....-+.|.++...-.+.+
T Consensus       195 YFT~c~LQp~H~~LaLr~AM~~a~K~KNy~tAa~fArrLLel~p~~~~a~qArkil~~ce~~~  257 (325)
T 3mv2_A          195 YFTKAKLSPIHRTNALQVAMSQHFKHKNFLQASYFAGEFLKIISSGPRAEQARKIKNKADSMA  257 (325)
T ss_dssp             HGGGSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSHHHHHHHHHHHHHHTSC
T ss_pred             HhccCCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCC
Confidence            4445566664  566788889999999999999999999999997666667777776665543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.02  E-value=36  Score=34.63  Aligned_cols=185  Identities=11%  Similarity=0.091  Sum_probs=115.7

Q ss_pred             CChHHHHHHHHHHHhC-----CCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHc-CCCCchh--HHHHHHHHHHHcCC
Q 006246          275 GYYKEALEVFNEMQRD-----KIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRN-SICVDAV--LGTALVDMYAKCGR  346 (654)
Q Consensus       275 g~~~~A~~~~~~m~~~-----g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~--~~~~li~~y~~~g~  346 (654)
                      |++++|++.+..+.+.     +..........++..|...++++...+.+..+.+. |......  ..+.++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            6789998887666542     23444556778889999999999988877766553 3222211  11222333323332


Q ss_pred             H--HHHHHHHhhcCC---C-------CHHHHHHHHHHHHHcCChhHHHHHHHHHhhc--CCCCC---HHHHHHHHHHHHc
Q 006246          347 L--DMAWKVFEDMKM---K-------EVFTWNAMIGGLAMHGRADDAIELFFKMQRE--KMRPD---RITFACVLSACAH  409 (654)
Q Consensus       347 ~--~~A~~~~~~m~~---~-------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p~---~~t~~~ll~~~~~  409 (654)
                      .  +.-..+.+....   .       .......|...|...|++.+|.+++.++...  |..+.   ...+...+..|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            2  222333333322   1       1123456778888999999999999998653  32222   1245666778889


Q ss_pred             cCCHHHHHHHHHHHHHH-cCCCCC----cchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          410 AGMIDRGLQALTYMQQM-YGIDPE----VEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       410 ~g~~~~a~~~~~~~~~~-~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      .+++.+|..++.++... +...+.    ...|.+++..+...+++.+|...|.+.
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            99999999999887532 122222    235677888888899999988776654

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=85.00  E-value=44  Score=35.61  Aligned_cols=249  Identities=10%  Similarity=0.021  Sum_probs=126.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChh
Q 006246          234 NAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALD  313 (654)
Q Consensus       234 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  313 (654)
                      +.-+..+.+.+++......+.. ...+...-.....+....|+..+|....+.+-..| .........++..+.+.|.+.
T Consensus        76 ~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~~~~~g~lt  153 (618)
T 1qsa_A           76 SRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSVWRASGKQD  153 (618)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHCCCCC
Confidence            3344555666677766665554 33344444455566666777666766666665554 334455666666666555443


Q ss_pred             HH--HHHHHHHHHcC-----------CCCch-hHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHH---HHHHHHHHHHHcC
Q 006246          314 QG--IWIHDHVKRNS-----------ICVDA-VLGTALVDMYAKCGRLDMAWKVFEDMKMKEVF---TWNAMIGGLAMHG  376 (654)
Q Consensus       314 ~a--~~~~~~~~~~~-----------~~~~~-~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~---~~~~li~~~~~~g  376 (654)
                      ..  .+=+..+...|           ++++. .....++..+.+   ...+....... .++..   .+..-+.-+.+. 
T Consensus       154 ~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~---p~~~~~~~~~~-~~~~~~~~~~~~~~~rlar~-  228 (618)
T 1qsa_A          154 PLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFARTT-GATDFTRQMAAVAFASVARQ-  228 (618)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHHS-CCCHHHHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhC---hHhHHHHHhcc-CCChhhHHHHHHHHHHHHhc-
Confidence            21  11112222211           11111 111222222221   12222222221 11111   111122233333 


Q ss_pred             ChhHHHHHHHHHhhcCCCCCHHHHH----HHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHH
Q 006246          377 RADDAIELFFKMQREKMRPDRITFA----CVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEA  452 (654)
Q Consensus       377 ~~~~A~~l~~~m~~~g~~p~~~t~~----~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A  452 (654)
                      +.+.|..+|....+.. ..+.....    .+.......+...++...+......   .++.....-.+....+.|+++.|
T Consensus       229 d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             CHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHHH
Confidence            6788999888876543 22332222    2222333344345566666654432   23333333344445578999999


Q ss_pred             HHHHHhCCCCC--CHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Q 006246          453 EEVISSMPMEP--NAAVWEALLGACRKHGEVEFGERLGKILLE  493 (654)
Q Consensus       453 ~~~~~~m~~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  493 (654)
                      ...|+.|+..+  .....--+..+....|+.++|..+|+++.+
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            99999996433  233334566677888999999999988875

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=84.80  E-value=6.4  Score=30.26  Aligned_cols=64  Identities=14%  Similarity=0.193  Sum_probs=52.3

Q ss_pred             ChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 006246          377 RADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDL  442 (654)
Q Consensus       377 ~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~  442 (654)
                      +.-+..+-++.+....+-|+.......+.||.+.+++..|.++|+.++.+.  .+...+|..+++-
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~--~~~~~iY~~~lqE   88 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQE   88 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCchhhHHHHHHH
Confidence            445667777777788899999999999999999999999999999998854  3445678887753

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=84.38  E-value=57  Score=36.45  Aligned_cols=214  Identities=12%  Similarity=0.047  Sum_probs=100.2

Q ss_pred             HHhcCCHHHHHHHHHhcCC----CCH--hHHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCC---c--chHHHHHHHH
Q 006246          240 FARFGRFEEARKLFNEMND----KDE--ITWSAIIDGYTKDGYYKEALEVFNEMQRDKI--KPR---K--FVLSCVLAAC  306 (654)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~----~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~---~--~t~~~ll~~~  306 (654)
                      ....|+.+++..+++.-..    .+.  ..-..+.-+....|..++++.++.......-  .-+   .  ..-..+.-+.
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            3445666667777666553    121  2223334455666666677777666554321  000   1  1111121222


Q ss_pred             HhcCC-hhHHHHHHHHHHHcCCCCch--hHHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhH
Q 006246          307 ASLGA-LDQGIWIHDHVKRNSICVDA--VLGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADD  380 (654)
Q Consensus       307 ~~~g~-~~~a~~~~~~~~~~~~~~~~--~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~  380 (654)
                      +-.|. -+++.+.+..+....- ...  ...-+|...|.-.|+-+....++..+.+.   ++.-.-++.-++...|+.+.
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e~  542 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQEL  542 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGGG
T ss_pred             HhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChHH
Confidence            22232 2344444444443221 011  11123333344556666666666544321   22233344445556788888


Q ss_pred             HHHHHHHHhhcCCCCCHH-HHH---HHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHH
Q 006246          381 AIELFFKMQREKMRPDRI-TFA---CVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVI  456 (654)
Q Consensus       381 A~~l~~~m~~~g~~p~~~-t~~---~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  456 (654)
                      +..+.+.+...   .|.. -|.   .+.-+|+..|+.....+++..+.++  ...++.-...+.-++.-.|+.+.+.+++
T Consensus       543 ~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          543 ADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             HHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            87777777653   2322 232   3344667778877777788777762  2222222222222333345544455555


Q ss_pred             HhC
Q 006246          457 SSM  459 (654)
Q Consensus       457 ~~m  459 (654)
                      +.+
T Consensus       618 ~~L  620 (963)
T 4ady_A          618 QLL  620 (963)
T ss_dssp             TTG
T ss_pred             HHH
Confidence            443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=84.34  E-value=2.7  Score=45.81  Aligned_cols=121  Identities=12%  Similarity=0.060  Sum_probs=64.2

Q ss_pred             HHHHHHhCCC-chHHHHHHHHhHhCCCCCCccc-HH-HHHHHHhccCC-cHHHHHHHHHHHHh------CCCC-Ch----
Q 006246          104 VLRACLEHNE-PWRVISLYSEMVGVDSKPNKFT-YP-TVFKACSITEA-DKEGVQVHAHVVKN------GLCG-DV----  168 (654)
Q Consensus       104 li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~t-~~-~ll~~~~~~~~-~~~a~~~~~~~~~~------g~~~-~~----  168 (654)
                      ++..+...|+ ++.|+++|+++....  |.... |. .++..+...++ --+|.+++.+.++.      ...+ +.    
T Consensus       254 Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          254 LKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            3444444555 477999999988753  43332 22 22333322222 22344444333321      1111 11    


Q ss_pred             ------hhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHHHHHhcC
Q 006246          169 ------HVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKELFKSTK  226 (654)
Q Consensus       169 ------~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  226 (654)
                            .....-++.+...|+++.|.++-++.   .+.+-.+|..|..+|.+.|+++.|+-.++.+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                  11222234455667777777777664   44556677777777777777777777777765

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=84.04  E-value=36  Score=38.01  Aligned_cols=260  Identities=10%  Similarity=-0.001  Sum_probs=128.9

Q ss_pred             HHHhcCCHHHHHHHHhcCCC----CChh--hHHHHHHHHHHcCCHHHHHHHHHhcCC-CC--------c--chHHHHHHH
Q 006246          177 MYACFGCVNKARQILDDGSK----SDVI--CWNALIDGYLKCGDIEGAKELFKSTKD-KN--------T--GSYNAMISG  239 (654)
Q Consensus       177 ~y~~~g~~~~A~~~~~~~~~----~~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~-~~--------~--~~~~~li~~  239 (654)
                      +....|+.++++.+++.-..    .+..  .-..+.-+....|..+++..++..... ++        .  ..-.++.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            45667888888888887543    2222  223334455666666667776665443 22        1  112222222


Q ss_pred             H--HhcCCHHHHHHHHHhcCCCCHhH--HH--HHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHH--HHhcCC
Q 006246          240 F--ARFGRFEEARKLFNEMNDKDEIT--WS--AIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA--CASLGA  311 (654)
Q Consensus       240 ~--~~~g~~~~A~~~~~~~~~~~~~~--~~--~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~--~~~~g~  311 (654)
                      +  .-.++-+-...+...+.+.+...  ..  +|...|+..|+.+....++..+.+..   +......+.-+  +...|+
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTC
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCC
Confidence            2  33344333333333333343321  12  22233445666666666666655431   22333333333  346778


Q ss_pred             hhHHHHHHHHHHHcCCCCchhHHH--HHHHHHHHcCCHHHHHHHHhhcCC-C--CHHHHHHHHHHHHHcCChhHHHHHHH
Q 006246          312 LDQGIWIHDHVKRNSICVDAVLGT--ALVDMYAKCGRLDMAWKVFEDMKM-K--EVFTWNAMIGGLAMHGRADDAIELFF  386 (654)
Q Consensus       312 ~~~a~~~~~~~~~~~~~~~~~~~~--~li~~y~~~g~~~~A~~~~~~m~~-~--~~~~~~~li~~~~~~g~~~~A~~l~~  386 (654)
                      .+.+..+.+.+.... .|......  ++.-+|+..|+.....+++..+.. .  ++...-.+.-++...|+.+.+.++++
T Consensus       540 ~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          540 QELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             hHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            888887777776532 22222222  344556677787777667776653 2  33333333344555677666777776


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHccCCH-HHHHHHHHHHHHHcCCCCCcchHHHHHHHHHH
Q 006246          387 KMQREKMRPDRITFACVLSACAHAGMI-DRGLQALTYMQQMYGIDPEVEHYGCIVDLLGR  445 (654)
Q Consensus       387 ~m~~~g~~p~~~t~~~ll~~~~~~g~~-~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~  445 (654)
                      .+.+.+ .|....-..+.-+....|.. .++...+..+..    .+|..+-..-+.+++.
T Consensus       619 ~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~----D~d~~Vrq~Ai~ALG~  673 (963)
T 4ady_A          619 LLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK----DPVDFVRQAAMIALSM  673 (963)
T ss_dssp             TGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT----CSSHHHHHHHHHHHHH
T ss_pred             HHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc----CCCHHHHHHHHHHHHH
Confidence            665543 33333223333333333332 566677777764    3444444333344443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=83.48  E-value=13  Score=28.39  Aligned_cols=78  Identities=14%  Similarity=0.112  Sum_probs=52.8

Q ss_pred             CcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC
Q 006246          148 ADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD  227 (654)
Q Consensus       148 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  227 (654)
                      ..++|..|-+.+...+.  ...+.-.-+..+...|++++|..+.+....||.+.|-+|..  .+.|..+++...+..+..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            45667777666666542  33333334445677888999988888888888888888765  567777777776655544


Q ss_pred             CC
Q 006246          228 KN  229 (654)
Q Consensus       228 ~~  229 (654)
                      .+
T Consensus        97 sg   98 (115)
T 2uwj_G           97 SS   98 (115)
T ss_dssp             CS
T ss_pred             CC
Confidence            33

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=83.46  E-value=23  Score=31.28  Aligned_cols=59  Identities=10%  Similarity=0.059  Sum_probs=23.0

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhh
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQR  390 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  390 (654)
                      ..+-...+.++++.|..+....+.+.+..++...-...+.++.+.+. .++...+.++.+
T Consensus       126 ~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~-~~~~~~L~~~l~  184 (211)
T 3ltm_A          126 WFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIGG-ERVRAAMEKLAE  184 (211)
T ss_dssp             HHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCS-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc-hhHHHHHHHHHh
Confidence            33333344444444433222222222233344333444444444443 344444444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=83.13  E-value=2.9  Score=33.95  Aligned_cols=83  Identities=11%  Similarity=-0.071  Sum_probs=47.2

Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHH---HHHHHHHHHHHcCCCC--CcchHHHHHHHHHHcCCHHHH
Q 006246          378 ADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDR---GLQALTYMQQMYGIDP--EVEHYGCIVDLLGRAGYLAEA  452 (654)
Q Consensus       378 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~---a~~~~~~~~~~~g~~p--~~~~~~~li~~~~~~g~~~~A  452 (654)
                      ...+.+-|.+....|. |+..+-..+..++.++.....   |+.+++.+.+.  -.|  .....-.|.-++.|.|++++|
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~--~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK--GSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT--SCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            3344455555544443 555555566667777665544   66777666542  112  222333455567777777777


Q ss_pred             HHHHHhC-CCCC
Q 006246          453 EEVISSM-PMEP  463 (654)
Q Consensus       453 ~~~~~~m-~~~p  463 (654)
                      .+.++.+ ..+|
T Consensus        94 ~~~~~~lL~~eP  105 (126)
T 1nzn_A           94 LKYVRGLLQTEP  105 (126)
T ss_dssp             HHHHHHHHHHCT
T ss_pred             HHHHHHHHHhCC
Confidence            7777766 3445

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=83.04  E-value=14  Score=28.31  Aligned_cols=78  Identities=14%  Similarity=0.063  Sum_probs=49.5

Q ss_pred             CcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCC
Q 006246          148 ADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKD  227 (654)
Q Consensus       148 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  227 (654)
                      ..++|..|-+.+...+.  ...+.-.-+..+...|++++|..+.+....||.+.|-+|..  .+.|..+++...+..+..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            45666666666665542  33333333444667788888888888888888888877765  456666666666655544


Q ss_pred             CC
Q 006246          228 KN  229 (654)
Q Consensus       228 ~~  229 (654)
                      .+
T Consensus        98 sg   99 (116)
T 2p58_C           98 SQ   99 (116)
T ss_dssp             CC
T ss_pred             CC
Confidence            33

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=82.42  E-value=41  Score=33.39  Aligned_cols=91  Identities=16%  Similarity=0.101  Sum_probs=52.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCcch-----HHHHHHHHHhcCChhHHHHHHHHHHHc--CCCCchhHHHH--
Q 006246          266 AIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFV-----LSCVLAACASLGALDQGIWIHDHVKRN--SICVDAVLGTA--  336 (654)
Q Consensus       266 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-----~~~ll~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~--  336 (654)
                      -++..|...|++.+|++++.++.+.=-+.|..+     +..-+..|...+++.+++..+......  .+.+++.+...  
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            577888899999999998888876422223222     333445566777777777777766542  22233332211  


Q ss_pred             --HHHHHH-HcCCHHHHHHHHhh
Q 006246          337 --LVDMYA-KCGRLDMAWKVFED  356 (654)
Q Consensus       337 --li~~y~-~~g~~~~A~~~~~~  356 (654)
                        -.-++. ..+++..|...|-+
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~e  206 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYE  206 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHH
Confidence              122233 45666666555543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=82.37  E-value=27  Score=40.53  Aligned_cols=164  Identities=10%  Similarity=0.075  Sum_probs=92.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChh
Q 006246          234 NAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALD  313 (654)
Q Consensus       234 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  313 (654)
                      ..++..+.+.+..+.|.++..-.+ .+...--.+..+|...|++++|.+.|++.-. |+..+......+.          
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~-~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~----------  883 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLN-SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLR----------  883 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHH----------
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcc-CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhc----------
Confidence            345566677777777776555443 4544445667788889999999999977532 2322221110000          


Q ss_pred             HHHHHHHHHHHcC--CCCchhHHHHHHHHHHHcCCHHHHHHHHhhcC----CCC----HHHHHHHHHHHHHcCChhHHHH
Q 006246          314 QGIWIHDHVKRNS--ICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK----MKE----VFTWNAMIGGLAMHGRADDAIE  383 (654)
Q Consensus       314 ~a~~~~~~~~~~~--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~----~~~----~~~~~~li~~~~~~g~~~~A~~  383 (654)
                      .    +..+....  ...-..-|.-++..+.+.|.++.+.++-....    ..+    ...|..+..++...|++++|..
T Consensus       884 ~----~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~  959 (1139)
T 4fhn_B          884 E----FQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHV  959 (1139)
T ss_dssp             H----HHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGH
T ss_pred             c----cccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHH
Confidence            0    01111110  01122345566666777777666655443221    222    1257888888888888888888


Q ss_pred             HHHHHhhcCCCCCHHHHHHHHHHHHccCCHHH
Q 006246          384 LFFKMQREKMRPDRITFACVLSACAHAGMIDR  415 (654)
Q Consensus       384 l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  415 (654)
                      .+-.+.....+  ...+..|+...+..|..+.
T Consensus       960 aL~~~pd~~~r--~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          960 ALMVLSTTPLK--KSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHHHSSSC--HHHHHHHHHHHHHHCCHHH
T ss_pred             HHHhCCCHHHH--HHHHHHHHHHHHhCCChhh
Confidence            88777654333  3455666666666665543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=81.26  E-value=14  Score=40.29  Aligned_cols=121  Identities=15%  Similarity=0.049  Sum_probs=74.6

Q ss_pred             HHHHHhcCC-HHHHHHHHHhcCCCCHh--H--HHHHHHHHHhcC-ChHHHHHHHHHHHhC------CCCCCcch------
Q 006246          237 ISGFARFGR-FEEARKLFNEMNDKDEI--T--WSAIIDGYTKDG-YYKEALEVFNEMQRD------KIKPRKFV------  298 (654)
Q Consensus       237 i~~~~~~g~-~~~A~~~~~~~~~~~~~--~--~~~li~~~~~~g-~~~~A~~~~~~m~~~------g~~p~~~t------  298 (654)
                      +..+...++ ++.|..+|+++...+..  .  ...+|..+.+.+ +--+|.+++.+..+.      ...+....      
T Consensus       255 l~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~  334 (754)
T 4gns_B          255 KSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMN  334 (754)
T ss_dssp             HHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHH
T ss_pred             HHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccC
Confidence            333344455 57788888887654332  1  222333333322 233455655554421      22222110      


Q ss_pred             H-HHHH----HHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcC
Q 006246          299 L-SCVL----AACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMK  358 (654)
Q Consensus       299 ~-~~ll----~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~  358 (654)
                      + ..+|    .-|.+.|+++.|.++-++.+... +.+-.+|..|...|.+.|+++.|+-.++.++
T Consensus       335 ~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          335 CMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            0 1122    33567899999999999988875 5578899999999999999999999999886

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=80.38  E-value=10  Score=37.93  Aligned_cols=69  Identities=19%  Similarity=0.145  Sum_probs=49.7

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH----HcCCCCCcch
Q 006246          366 NAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ----MYGIDPEVEH  435 (654)
Q Consensus       366 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~----~~g~~p~~~~  435 (654)
                      ..++..+...|++++|+..+..+.... +-+...+..++.++.+.|+..+|.+.|+...+    ..|+.|...+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            345566777788888888777776653 34677888888888888888888888877654    3577777654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=80.20  E-value=10  Score=32.37  Aligned_cols=123  Identities=11%  Similarity=-0.011  Sum_probs=63.4

Q ss_pred             HHHHHHHcCCHHHHHHHHhhcCC-----CCH-------HHHHHHHHHHHHcCChhHHHHHHHHHhhcC-CCCCHH-HHHH
Q 006246          337 LVDMYAKCGRLDMAWKVFEDMKM-----KEV-------FTWNAMIGGLAMHGRADDAIELFFKMQREK-MRPDRI-TFAC  402 (654)
Q Consensus       337 li~~y~~~g~~~~A~~~~~~m~~-----~~~-------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~-t~~~  402 (654)
                      -+..+...|.++.|+-+.+.+..     +++       .+...+..++...|++..|...|++.++.. .-|... +...
T Consensus        26 qik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~  105 (167)
T 3ffl_A           26 HVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPS  105 (167)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---------
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcccc
Confidence            35556667777777766655432     221       244556667777777777777777764421 111111 1111


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhCCCCC-CHHHHHHHHH
Q 006246          403 VLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSMPMEP-NAAVWEALLG  473 (654)
Q Consensus       403 ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p-~~~~~~~ll~  473 (654)
                      +-.    .....          ......++.+.---+...|.+.|++++|+.+++.+|.+- ++.+-..|..
T Consensus       106 ~~~----~ss~p----------~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~Rt~kvnm~Lak  163 (167)
T 3ffl_A          106 TGN----SASTP----------QSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQRTPKINMLLAN  163 (167)
T ss_dssp             -------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGGCCHHHHHHHHH
T ss_pred             ccc----cCCCc----------ccccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchhcCHHHHHHHHH
Confidence            100    00000          001122333444457788889999999999999986432 4444444443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	654
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	1e-04
d2onda1	308	a.118.8.7 (A:242-549) Cleavage stimulation factor	8e-04

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (98), Expect = 1e-04
 Identities = 53/334 (15%), Positives = 104/334 (31%), Gaps = 48/334 (14%)

Query: 209 YLKCGDIEGAKELFK---STKDKNTGSYNAMISGFARFGRFEEARKLFN---EMNDKDEI 262
             + GD E A+         +  NTG    + S   +  R + +        + N     
Sbjct: 9   EYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAE 68

Query: 263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHV 322
            +S + + Y + G  +EA+E +    R K       ++   A  A+             +
Sbjct: 69  AYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSAL 128

Query: 323 KRNSICV--------------------------------DAVLGTALVDMYAKCGRLDMA 350
           + N                                     AV  + L  ++   G + +A
Sbjct: 129 QYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLA 188

Query: 351 WKVFE---DMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSAC 407
              FE    +    +  +  +   L      D A+  + +          +    +    
Sbjct: 189 IHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVV-HGNLACVY 247

Query: 408 AHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVI--SSMPMEPN 464
              G+ID    A+   ++   + P   + Y  + + L   G +AEAE+    +      +
Sbjct: 248 YEQGLID---LAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTH 304

Query: 465 AAVWEALLGACRKHGEVEFGERLGKILLEMEPQN 498
           A     L    R+ G +E   RL +  LE+ P+ 
Sbjct: 305 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEF 338

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 308

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.6 bits (91), Expect = 8e-04
 Identities = 32/211 (15%), Positives = 60/211 (28%), Gaps = 21/211 (9%)

Query: 73  KCHANSRFSNFELALKVFN---SVHKPNVFVWNSVLRACLEHNEPW-RVISLYSEMVGVD 128
           K   N+     + A  ++    S       +         E    + +V S+Y+ ++ ++
Sbjct: 70  KGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE 129

Query: 129 SKPNKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKAR 188
                  Y    K     E  K G  +     ++         ++ +  Y C    + A 
Sbjct: 130 DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAF 189

Query: 189 QILDDGSK---SDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGR 245
           +I + G K          A ID      +    + LF+      +         +ARF  
Sbjct: 190 KIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLA 249

Query: 246 FEE--------------ARKLFNEMNDKDEI 262
           FE                   F E  +  E 
Sbjct: 250 FESNIGDLASILKVEKRRFTAFREEYEGKET 280

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	654
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.86
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.85
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.49
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.39
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.1
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.99
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.98
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.96
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.91
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.91
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.88
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.74
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.63
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.62
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.52
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.35
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.33
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.31
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.25
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.25
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.01
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.97
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.93
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.92
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.9
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.88
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.87
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.87
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.83
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.73
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.7
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.67
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.66
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.64
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.6
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.59
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.55
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.53
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.49
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.46
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.42
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.24
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.22
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.2
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.19
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.12
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.91
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.9
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.87
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.54
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.52
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.44
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.0
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	94.95
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.13
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.88
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.66
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	90.04
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	89.69
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	83.57

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=6.1e-19  Score=179.39  Aligned_cols=354  Identities=11%  Similarity=0.045  Sum_probs=234.5

Q ss_pred             HHHhCCCchHHHHHHHHhHhCCCCC-CcccHHHHHHHHhccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHH
Q 006246          107 ACLEHNEPWRVISLYSEMVGVDSKP-NKFTYPTVFKACSITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVN  185 (654)
Q Consensus       107 ~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  185 (654)
                      .+.+.|++++|++.|+++.+.  .| +...+..+...+...|++++|...+..+++..                      
T Consensus         8 ~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~----------------------   63 (388)
T d1w3ba_           8 REYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN----------------------   63 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC----------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC----------------------
Confidence            344555666666666555543  23 23344444444555555555555555555443                      


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCC---CcchHHHHHHHHHhcCCHHHHHHHHHhc---CCC
Q 006246          186 KARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDK---NTGSYNAMISGFARFGRFEEARKLFNEM---NDK  259 (654)
Q Consensus       186 ~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~  259 (654)
                                +.+..+|..+...|.+.|++++|+..+....+.   +..............+....+.......   ...
T Consensus        64 ----------p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  133 (388)
T d1w3ba_          64 ----------PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD  133 (388)
T ss_dssp             ----------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT
T ss_pred             ----------CCCHHHHHHHHHHhhhhccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence                      223344444455555555555555555544431   2222222222333333333322222222   123


Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      ...............+....+...+.+..... +-+...+..+...+...|+++.|...+..+.+.. +.+...+..+..
T Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~  211 (388)
T d1w3ba_         134 LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGN  211 (388)
T ss_dssp             CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhh
Confidence            44445555566666777777777776666542 2234556666677777788888888888777754 345667778888


Q ss_pred             HHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHH
Q 006246          340 MYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRG  416 (654)
Q Consensus       340 ~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  416 (654)
                      .|...|++++|...|++...   .+...|..+...+.+.|++++|+..|++..+.. +-+..++..+...+...|++++|
T Consensus       212 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A  290 (388)
T d1w3ba_         212 VLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEA  290 (388)
T ss_dssp             HHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHH
T ss_pred             hhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            88888888888888877654   466778888888999999999999999988753 22456788888899999999999


Q ss_pred             HHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Q 006246          417 LQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEM  494 (654)
Q Consensus       417 ~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  494 (654)
                      .+.++.....  .+.+...+..+...+.+.|++++|++.+++. ...| +..+|..+...+...|++++|+..+++++++
T Consensus       291 ~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         291 EDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999988874  4556677888889999999999999999886 4555 5778899999999999999999999999999


Q ss_pred             CCCCC
Q 006246          495 EPQNR  499 (654)
Q Consensus       495 ~p~~~  499 (654)
                      +|+++
T Consensus       369 ~P~~~  373 (388)
T d1w3ba_         369 SPTFA  373 (388)
T ss_dssp             CTTCH
T ss_pred             CCCCH
Confidence            99875

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=2.2e-18  Score=175.23  Aligned_cols=371  Identities=13%  Similarity=0.059  Sum_probs=235.6

Q ss_pred             HHhcccccCCChHHHHHHHhcCC--CC-CcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCC
Q 006246           72 VKCHANSRFSNFELALKVFNSVH--KP-NVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEA  148 (654)
Q Consensus        72 i~~y~~~~~g~~~~A~~~f~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~  148 (654)
                      ...+.+  .|++++|++.|+++.  .| +..+|..+...|.+.|++++|+..|++..+.. +-+..++..+..++...|+
T Consensus         6 a~~~~~--~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           6 AHREYQ--AGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHH--HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHH--cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            344556  799999999999876  34 57789999999999999999999999998753 2245677888888899999


Q ss_pred             cHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhc---CCCCChhhHHHHHHHHHHcCCHHHHHHHHHhc
Q 006246          149 DKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDD---GSKSDVICWNALIDGYLKCGDIEGAKELFKST  225 (654)
Q Consensus       149 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  225 (654)
                      +++|...+....+... .+..........+...+....+......   ........+..........+....+...+...
T Consensus        83 ~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccccc-ccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHh
Confidence            9999999999888753 3333333333334333333333322222   12222333333333334444444444333332


Q ss_pred             CCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHH
Q 006246          226 KDKNTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAA  305 (654)
Q Consensus       226 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  305 (654)
                      ...                            ...+...+..+...+...|++++|...+++..... +-+...+..+...
T Consensus       162 ~~~----------------------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  212 (388)
T d1w3ba_         162 IET----------------------------QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNV  212 (388)
T ss_dssp             HHH----------------------------CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hcc----------------------------CcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhh
Confidence            210                            01234455555566666666666666666655532 1233345555566


Q ss_pred             HHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHH
Q 006246          306 CASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAI  382 (654)
Q Consensus       306 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~  382 (654)
                      +...|++++|...+....+.. +.+...+..+...|.+.|++++|...|++..+   .+..+|..+...+...|++++|+
T Consensus       213 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~  291 (388)
T d1w3ba_         213 LKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAE  291 (388)
T ss_dssp             HHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHH
T ss_pred             hhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            666666666666666665554 23445556666777777777777777766543   35567777777777777777777


Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC-C
Q 006246          383 ELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM-P  460 (654)
Q Consensus       383 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~  460 (654)
                      +.|+...... +.+...+..+...+...|++++|+..|++..+   +.|+ ...+..+..+|.+.|++++|++.|++. .
T Consensus       292 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         292 DCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALE---VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT---SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7777776652 44556677777777777788888777777654   3443 456677777777888888888877765 4


Q ss_pred             CCC-CHHHHHHHHHHHHHhCC
Q 006246          461 MEP-NAAVWEALLGACRKHGE  480 (654)
Q Consensus       461 ~~p-~~~~~~~ll~~~~~~g~  480 (654)
                      ..| +..+|..|+..+.+.||
T Consensus       368 l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         368 ISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TCTTCHHHHHHHHHHHHHTCC
T ss_pred             hCCCCHHHHHHHHHHHHHcCC
Confidence            555 46677777777777664

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=1.1e-12  Score=129.51  Aligned_cols=244  Identities=14%  Similarity=0.027  Sum_probs=153.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHhcCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCCh
Q 006246          236 MISGFARFGRFEEARKLFNEMND--K-DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGAL  312 (654)
Q Consensus       236 li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~  312 (654)
                      ....+.+.|++++|...|+++.+  | +..+|..+...|...|++++|+..|.+..+.. +-+...+..+...+...|++
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccc
Confidence            44445556666666666665543  2 34455556666666666666666666555432 11233444444555555555


Q ss_pred             hHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC
Q 006246          313 DQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREK  392 (654)
Q Consensus       313 ~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  392 (654)
                      ++|.+.+..+....... ............                ..+.......+..+...+...+|.+.|.+..+..
T Consensus       104 ~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~  166 (323)
T d1fcha_         104 RQACEILRDWLRYTPAY-AHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD  166 (323)
T ss_dssp             HHHHHHHHHHHHTSTTT-GGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred             cccccchhhHHHhccch-HHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHHHh
Confidence            55555555554432110 000000000000                0001111112233445566788889988887643


Q ss_pred             C-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHH
Q 006246          393 M-RPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWE  469 (654)
Q Consensus       393 ~-~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~  469 (654)
                      . .++...+..+...+...|++++|+..|+.....  .+-+...|..+...|.+.|++++|++.|++. ...| +..+|.
T Consensus       167 p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~  244 (323)
T d1fcha_         167 PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRY  244 (323)
T ss_dssp             TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             hcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHH
Confidence            2 235667788888899999999999999998874  2334677889999999999999999999987 3445 588899


Q ss_pred             HHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          470 ALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       470 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .++.+|...|++++|+..|+++++++|++.
T Consensus       245 ~lg~~~~~~g~~~~A~~~~~~al~l~p~~~  274 (323)
T d1fcha_         245 NLGISCINLGAHREAVEHFLEALNMQRKSR  274 (323)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHTC-
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCcCh
Confidence            999999999999999999999999999876

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=3.5e-11  Score=118.34  Aligned_cols=266  Identities=13%  Similarity=0.032  Sum_probs=164.6

Q ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHhcCC--C-CcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHH
Q 006246          198 DVICWNALIDGYLKCGDIEGAKELFKSTKD--K-NTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGY  271 (654)
Q Consensus       198 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~  271 (654)
                      +...+-.....+.+.|++++|+..|+++.+  | +..+|..+...|...|++++|...|++..+   .+...|..+...|
T Consensus        18 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~   97 (323)
T d1fcha_          18 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSF   97 (323)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccccccccccccccc
Confidence            334444567778999999999999999876  3 466899999999999999999999998764   3678899999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHH
Q 006246          272 TKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAW  351 (654)
Q Consensus       272 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~  351 (654)
                      ...|++++|.+.+++....  .|+................                   .......+..+.+.+...+|.
T Consensus        98 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~a~  156 (323)
T d1fcha_          98 TNESLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAG-------------------LGPSKRILGSLLSDSLFLEVK  156 (323)
T ss_dssp             HHTTCHHHHHHHHHHHHHT--STTTGGGCC----------------------------------CTTHHHHHHHHHHHHH
T ss_pred             cccccccccccchhhHHHh--ccchHHHHHhhhhhhhhcc-------------------cccchhhHHHHHHhhHHHHHH
Confidence            9999999999999999875  3332211111000000000                   000001111222333444555


Q ss_pred             HHHhhcCC-----CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHH
Q 006246          352 KVFEDMKM-----KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQM  426 (654)
Q Consensus       352 ~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  426 (654)
                      +.|.+...     .+...|..+...+...|++++|+..|++..... +-+...|..+...+...|++++|.+.|+++.+.
T Consensus       157 ~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  235 (323)
T d1fcha_         157 ELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALEL  235 (323)
T ss_dssp             HHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHH
Confidence            55544331     234556666666666666666666666665542 123445666666666667777777666666653


Q ss_pred             cCCCC-CcchHHHHHHHHHHcCCHHHHHHHHHhC----C---------CCCCHHHHHHHHHHHHHhCChHHHHHHH
Q 006246          427 YGIDP-EVEHYGCIVDLLGRAGYLAEAEEVISSM----P---------MEPNAAVWEALLGACRKHGEVEFGERLG  488 (654)
Q Consensus       427 ~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~---------~~p~~~~~~~ll~~~~~~g~~~~a~~~~  488 (654)
                         .| +...|..+..+|.+.|++++|++.|++.    |         ..-....|..+-.++...|+.+.+....
T Consensus       236 ---~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~~  308 (323)
T d1fcha_         236 ---QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAAD  308 (323)
T ss_dssp             ---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHH
T ss_pred             ---hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence               23 2445666666677777777776666654    1         1112446777777777777766554443

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.10  E-value=7.6e-09  Score=100.49  Aligned_cols=193  Identities=8%  Similarity=0.057  Sum_probs=156.6

Q ss_pred             ChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C-C-HHHHHHHHHHHHHcCChhHHHHHHH
Q 006246          311 ALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K-E-VFTWNAMIGGLAMHGRADDAIELFF  386 (654)
Q Consensus       311 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~-~~~~~~li~~~~~~g~~~~A~~l~~  386 (654)
                      ..+++..+++..++...+.+...+..++..+.+.|+++.|..+|+++..  + + ...|...+....+.|+.+.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            4577888999888766566777888899999999999999999998765  2 3 3579999999999999999999999


Q ss_pred             HHhhcCCCCCHHHHHHHHHH-HHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC----CC
Q 006246          387 KMQREKMRPDRITFACVLSA-CAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM----PM  461 (654)
Q Consensus       387 ~m~~~g~~p~~~t~~~ll~~-~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~  461 (654)
                      ++.+.+.. +...|...... +...|+.+.|..+|+.+.+.  .+.+...|...++.+.+.|++++|..+|++.    +.
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            99887533 33444443332 34568999999999999985  3445678999999999999999999999986    33


Q ss_pred             CCC--HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHH
Q 006246          462 EPN--AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAK  506 (654)
Q Consensus       462 ~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~  506 (654)
                      .|+  ...|...+.--..+|+.+.+..+++++.++.|+....++...
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~~~~~~~~  282 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYEGKETAL  282 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTSSCHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccccccchHHH
Confidence            443  578999999999999999999999999999998876665443

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.99  E-value=6.8e-08  Score=94.96  Aligned_cols=227  Identities=11%  Similarity=0.032  Sum_probs=124.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhcCC-----CC----HhHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCCc---
Q 006246          233 YNAMISGFARFGRFEEARKLFNEMND-----KD----EITWSAIIDGYTKDGYYKEALEVFNEMQRD----KIKPRK---  296 (654)
Q Consensus       233 ~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~---  296 (654)
                      +..+...|...|++++|...|++..+     ++    ...+..+...+...|++..|...+.+....    +..+..   
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~  133 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHE  133 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHH
Confidence            34444455555555555555554432     11    223445555666666666666666655431    111111   


Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHHcCC----CCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC-------C---CH
Q 006246          297 FVLSCVLAACASLGALDQGIWIHDHVKRNSI----CVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM-------K---EV  362 (654)
Q Consensus       297 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~-------~---~~  362 (654)
                      ..+..+...+...|+++.+...+........    ......+..+...+...|....+...+.+...       .   ..
T Consensus       134 ~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~  213 (366)
T d1hz4a_         134 FLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWIS  213 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             HHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHH
Confidence            1233344555666777777666666655321    11233344455556666666666555544321       1   12


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCC---HHHHHHHHHHHHccCCHHHHHHHHHHHHHH---cCCCCC-cch
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPD---RITFACVLSACAHAGMIDRGLQALTYMQQM---YGIDPE-VEH  435 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~---~g~~p~-~~~  435 (654)
                      ..+..+...+...|+.++|...+++........+   ...+..+..++...|++++|...++.+...   .+..|+ ...
T Consensus       214 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  293 (366)
T d1hz4a_         214 NANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRN  293 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHH
Confidence            3455566667777777777777777655432222   234455666777777888887777766532   122232 345


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          436 YGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       436 ~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                      +..+..+|.+.|++++|.+.+++.
T Consensus       294 ~~~la~~~~~~g~~~~A~~~l~~A  317 (366)
T d1hz4a_         294 LLLLNQLYWQAGRKSDAQRVLLDA  317 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHH
Confidence            666777777788888877777654

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=1.8e-08  Score=97.93  Aligned_cols=221  Identities=10%  Similarity=0.088  Sum_probs=133.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCc-chHHHHHHHHHhcC-ChhHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRK-FVLSCVLAACASLG-ALDQGIWIHDHVKRNSICVDAVLGTALVDM  340 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  340 (654)
                      .|+.+...+.+.+.+++|+++++++++.  .|+. ..|.....++...| ++++|...++.+++.. +-+..+|+.+...
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            4555666666777777777777777764  3433 34455555555555 4677777777776665 3456677777777


Q ss_pred             HHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCC-----
Q 006246          341 YAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGM-----  412 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~-----  412 (654)
                      +.+.|++++|++.|+++.+   .+...|+.+...+.+.|++++|++.|+++++.... +...|+.+...+.+.+.     
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~~  200 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDRA  200 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchhh
Confidence            7777777777777777664   36677777777777778888888888887775322 45556655555444443     


Q ss_pred             -HHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHHHHHhC----CCCCCHHHHHHHHHHHHHh--CChHHH
Q 006246          413 -IDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEEVISSM----PMEPNAAVWEALLGACRKH--GEVEFG  484 (654)
Q Consensus       413 -~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~~~~~~~ll~~~~~~--g~~~~a  484 (654)
                       +++|++.+..+.+.   .| +...|..+..++...| .+++.+.++..    +...+...+..+...|...  ++.+.+
T Consensus       201 ~~~~ai~~~~~al~~---~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~  276 (315)
T d2h6fa1         201 VLEREVQYTLEMIKL---VPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNK  276 (315)
T ss_dssp             HHHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hhHHhHHHHHHHHHh---CCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHH
Confidence             56677777776653   33 3445555555544333 45555555443    2233455555565555332  344444


Q ss_pred             HHHHHHH
Q 006246          485 ERLGKIL  491 (654)
Q Consensus       485 ~~~~~~~  491 (654)
                      ...++++
T Consensus       277 ~~~~~ka  283 (315)
T d2h6fa1         277 EDILNKA  283 (315)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.96  E-value=3.2e-09  Score=100.22  Aligned_cols=217  Identities=12%  Similarity=-0.002  Sum_probs=135.4

Q ss_pred             hHHHHHHHHHHHhCCCCC---CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHH
Q 006246          277 YKEALEVFNEMQRDKIKP---RKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKV  353 (654)
Q Consensus       277 ~~~A~~~~~~m~~~g~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~  353 (654)
                      .+.|+.-+++........   ...++..+..++.+.|++++|.+.|..+++.. +.++.+++.+..+|.+.|++++|.+.
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            445555555555432111   11345555666777777777777777777664 34677778888888888888888888


Q ss_pred             HhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCC
Q 006246          354 FEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGID  430 (654)
Q Consensus       354 ~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~  430 (654)
                      |+++..   .+..+|..+...|...|++++|++.|++..+.. +.+......+..++.+.+..+....+......   ..
T Consensus        94 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~  169 (259)
T d1xnfa_          94 FDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SD  169 (259)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SC
T ss_pred             hhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cc
Confidence            887764   255678888888888888889998888887753 22444444444455555555555555554443   22


Q ss_pred             CCcchHHHHHHHHHHcCC----HHHHHHHHHhC-CCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          431 PEVEHYGCIVDLLGRAGY----LAEAEEVISSM-PMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       431 p~~~~~~~li~~~~~~g~----~~~A~~~~~~m-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +....++ ++..+.....    .+.+...+... ...|+ ..+|..+...+...|++++|...|+++++.+|++.
T Consensus       170 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  243 (259)
T d1xnfa_         170 KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  243 (259)
T ss_dssp             CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCH
Confidence            3332332 2222222212    22222222211 11222 45677889999999999999999999999999875

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.91  E-value=4.6e-08  Score=94.97  Aligned_cols=182  Identities=9%  Similarity=0.010  Sum_probs=84.0

Q ss_pred             HHhcCCHHHHHHHHHhcCC--C-CHhHHHHHHHHHHhcC-ChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHH
Q 006246          240 FARFGRFEEARKLFNEMND--K-DEITWSAIIDGYTKDG-YYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQG  315 (654)
Q Consensus       240 ~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  315 (654)
                      +.+.+.+++|+++++++.+  | +...|+....++...| ++++|+..++...+.. +-+..+|......+...|++++|
T Consensus        53 ~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l~~~~eA  131 (315)
T d2h6fa1          53 LQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQE  131 (315)
T ss_dssp             HHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTH
T ss_pred             HHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhhccHHHH
Confidence            3333444444444444332  1 3334444444444433 2444444444444432 11233444444444444555555


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCC------hhHHHHHHH
Q 006246          316 IWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGR------ADDAIELFF  386 (654)
Q Consensus       316 ~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~------~~~A~~l~~  386 (654)
                      .+.+..+++.. +.+..+|..+...|.+.|++++|.+.|+++.+   .+..+|+.+...+.+.+.      +++|++.+.
T Consensus       132 l~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~  210 (315)
T d2h6fa1         132 LEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTL  210 (315)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHH
T ss_pred             HHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhhhHHhHHHHH
Confidence            55555444433 22344555555555555555555555554443   244455554444444433      456666666


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          387 KMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       387 ~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      +.++.. +.|...|..+...+... ..+++.+.++...+
T Consensus       211 ~al~~~-P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~  247 (315)
T d2h6fa1         211 EMIKLV-PHNESAWNYLKGILQDR-GLSKYPNLLNQLLD  247 (315)
T ss_dssp             HHHHHS-TTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHH
T ss_pred             HHHHhC-CCchHHHHHHHHHHHhc-ChHHHHHHHHHHHH
Confidence            666542 22444555444444333 34555566665554

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.91  E-value=3.9e-09  Score=103.96  Aligned_cols=218  Identities=7%  Similarity=-0.122  Sum_probs=159.6

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcC--ChhHHHHHHHHHHHcCCCCchhHH-HHHHHHHHHcCCHHH
Q 006246          273 KDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLG--ALDQGIWIHDHVKRNSICVDAVLG-TALVDMYAKCGRLDM  349 (654)
Q Consensus       273 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~y~~~g~~~~  349 (654)
                      ..|++++|+.+++...+.. +-+...+.....++...+  +++++...+..+.+.... +...+ ..+...+...|..++
T Consensus        85 ~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHH
Confidence            3445778888888887653 224445555555555554  477888888888876533 34443 445577778899999


Q ss_pred             HHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHH
Q 006246          350 AWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQM  426 (654)
Q Consensus       350 A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  426 (654)
                      |+..++.+...   +..+|+.+...+.+.|++++|...+++..+.  .|+.   ..+...+...+..+++...+..... 
T Consensus       163 Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~-  236 (334)
T d1dcea1         163 ELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLL-  236 (334)
T ss_dssp             HHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHH-
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHH-
Confidence            99999988763   6788999999999999998887766655442  2222   2233344556777778888887776 


Q ss_pred             cCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          427 YGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       427 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                       .-+++...+..++..+...|+.++|.+.+.+. +..| +..+|..++..+...|+.++|...++++++++|++.
T Consensus       237 -~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~  310 (334)
T d1dcea1         237 -GRAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRA  310 (334)
T ss_dssp             -SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGH
T ss_pred             -hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccH
Confidence             34455667777888888999999999999876 4445 477888999999999999999999999999999765

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.88  E-value=3.4e-07  Score=89.72  Aligned_cols=163  Identities=10%  Similarity=-0.043  Sum_probs=110.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC----CcchHHHHHHHHHhcCChhHHHHHHHHHHHcCC---C-C--chh
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKP----RKFVLSCVLAACASLGALDQGIWIHDHVKRNSI---C-V--DAV  332 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~---~-~--~~~  332 (654)
                      .+..+...+...|+++.+...+..........    ....+......+...+....+...+........   . +  ...
T Consensus       135 ~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~  214 (366)
T d1hz4a_         135 LVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISN  214 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHH
T ss_pred             HHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHH
Confidence            44555666777777777777777766532111    122333444555667777777777666554211   1 1  133


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCCC-------CHHHHHHHHHHHHHcCChhHHHHHHHHHhh----cCCCCCH-HHH
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKMK-------EVFTWNAMIGGLAMHGRADDAIELFFKMQR----EKMRPDR-ITF  400 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~~-------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~----~g~~p~~-~t~  400 (654)
                      .+..+...+...|++++|...++.....       ....+..+...+...|++++|...+++...    .+..|+. .++
T Consensus       215 ~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  294 (366)
T d1hz4a_         215 ANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNL  294 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHH
Confidence            4556677788899999999999877642       234667788899999999999999998764    2444443 367


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          401 ACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       401 ~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      ..+...+...|++++|.+.+++..+
T Consensus       295 ~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         295 LLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7778889999999999999987754

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.74  E-value=7.3e-07  Score=86.04  Aligned_cols=182  Identities=14%  Similarity=0.109  Sum_probs=98.2

Q ss_pred             HHHHHHHHHhcCC----CCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHH
Q 006246          246 FEEARKLFNEMND----KDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDH  321 (654)
Q Consensus       246 ~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  321 (654)
                      .++|..+|++..+    .+...|...+..+...|++++|..+|+++++.........|...+..+.+.|+.+.|++++..
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            4555555555432    244456666666666666666666666666542222222455556666666666666666666


Q ss_pred             HHHcCCCCchhHHHHHHHH-HHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcC-CCCC
Q 006246          322 VKRNSICVDAVLGTALVDM-YAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREK-MRPD  396 (654)
Q Consensus       322 ~~~~~~~~~~~~~~~li~~-y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~  396 (654)
                      +.+... .+...+...... +...|+.+.|..+|+.+..   .+...|...+..+...|+.+.|..+|++..+.. ..|+
T Consensus       160 al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         160 AREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            665442 222333333322 2234566666666665554   244556666666666666666666666655532 2332


Q ss_pred             --HHHHHHHHHHHHccCCHHHHHHHHHHHHHHcC
Q 006246          397 --RITFACVLSACAHAGMIDRGLQALTYMQQMYG  428 (654)
Q Consensus       397 --~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g  428 (654)
                        ...|...+.--...|+.+.+..+++++.+.++
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~  272 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence              23455555555555666666666666655433

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.63  E-value=1.6e-07  Score=92.07  Aligned_cols=208  Identities=9%  Similarity=-0.015  Sum_probs=127.4

Q ss_pred             CHHHHHHHHhcC---CCCChhhHHHHHHHHHHcC--CHHHHHHHHHhcCC---CCcchHH-HHHHHHHhcCCHHHHHHHH
Q 006246          183 CVNKARQILDDG---SKSDVICWNALIDGYLKCG--DIEGAKELFKSTKD---KNTGSYN-AMISGFARFGRFEEARKLF  253 (654)
Q Consensus       183 ~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~---~~~~~~~-~li~~~~~~g~~~~A~~~~  253 (654)
                      .+++|...++..   .+.+...|..+..++...+  ++++|+..+..+.+   ++...+. .....+...+..++|...+
T Consensus        88 ~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~  167 (334)
T d1dcea1          88 LVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  167 (334)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHH
Confidence            344444444443   3445555555555555544  36677777766644   2333433 3335556677777777777


Q ss_pred             HhcCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCc
Q 006246          254 NEMNDK---DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVD  330 (654)
Q Consensus       254 ~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~  330 (654)
                      +.+...   +...|+.+...+.+.|++++|...+++....  .|+   .......+...+..+++...+....... +++
T Consensus       168 ~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~  241 (334)
T d1dcea1         168 DSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEP  241 (334)
T ss_dssp             HTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCC
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cch
Confidence            777653   5667777777888888777765555443332  111   1122333455666667777777666554 233


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHhhcCCCC---HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHH
Q 006246          331 AVLGTALVDMYAKCGRLDMAWKVFEDMKMKE---VFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRI  398 (654)
Q Consensus       331 ~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  398 (654)
                      ...+..+...+...|+.++|...|.+....+   ..+|..+...|...|+.++|++.|++..+.  .|+..
T Consensus       242 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~  310 (334)
T d1dcea1         242 LFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRA  310 (334)
T ss_dssp             SSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGH
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccH
Confidence            4445556667777788888888888777654   356677777888888888888888888774  56544

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.62  E-value=3e-07  Score=86.13  Aligned_cols=194  Identities=10%  Similarity=-0.054  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYA  342 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~  342 (654)
                      .|..+...|.+.|++++|++.|++.++.. +-+..+|..+..++...|++++|...|..+.+.. +.+..++..+..+|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHH
Confidence            44555555666666666666666655532 2233455555556666666666666666665544 223445555666666


Q ss_pred             HcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHcc----CCHHH
Q 006246          343 KCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHA----GMIDR  415 (654)
Q Consensus       343 ~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~----g~~~~  415 (654)
                      ..|++++|.+.|+...+   .+...+..+..++.+.+..+.+..+........  ++...+. ++..+...    +..+.
T Consensus       117 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~  193 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYLGNISEQTLMER  193 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHTTSSCHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHHHHHHHHHHHHH
Confidence            66666666666665543   133333333334444444444444444443321  1111111 11111111    11222


Q ss_pred             HHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC
Q 006246          416 GLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN  464 (654)
Q Consensus       416 a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~  464 (654)
                      +...+.....   ..|+ ...|..+...|...|++++|.+.|++. ...|+
T Consensus       194 ~~~~~~~~~~---~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  241 (259)
T d1xnfa_         194 LKADATDNTS---LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH  241 (259)
T ss_dssp             HHHHCCSHHH---HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHhhh---cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            2222111111   0111 234556777777888888888888765 44554

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.56  E-value=1.2e-06  Score=77.63  Aligned_cols=140  Identities=10%  Similarity=-0.017  Sum_probs=103.2

Q ss_pred             HHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 006246          338 VDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGL  417 (654)
Q Consensus       338 i~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  417 (654)
                      ...+...|+++.|++.|+++..++..+|..+...|...|++++|++.|++.++.. +-+...|..+..++.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            4556778899999999998888888888889999999999999999999988864 235668888888888999999999


Q ss_pred             HHHHHHHHHcCCCCCcc-hHHHHHHHHHHcCCHHHHHHHHHhCCCCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcC
Q 006246          418 QALTYMQQMYGIDPEVE-HYGCIVDLLGRAGYLAEAEEVISSMPMEPN-AAVWEALLGACRKHGEVEFGERLGKILLEME  495 (654)
Q Consensus       418 ~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  495 (654)
                      ..|++....  .+++.. .|..       .|           +..+++ ..++..+..++.+.|++++|.+.+++++++.
T Consensus        91 ~~~~kAl~~--~~~n~~~~~~~-------~~-----------~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          91 KDLKEALIQ--LRGNQLIDYKI-------LG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHT--TTTCSEEECGG-------GT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHh--CccCchHHHHH-------hh-----------hhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            888888762  222211 0000       00           011111 3456677788888999999999999999888


Q ss_pred             CCC
Q 006246          496 PQN  498 (654)
Q Consensus       496 p~~  498 (654)
                      |+.
T Consensus       151 ~~~  153 (192)
T d1hh8a_         151 SEP  153 (192)
T ss_dssp             CSG
T ss_pred             CCc
Confidence            875

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.52  E-value=2e-06  Score=82.02  Aligned_cols=163  Identities=9%  Similarity=-0.086  Sum_probs=86.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCC-----C----CHHHHHHHHHHHHH-cCChhHHHHHHHHHhhc----CCCCC-H
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKM-----K----EVFTWNAMIGGLAM-HGRADDAIELFFKMQRE----KMRPD-R  397 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~-----~----~~~~~~~li~~~~~-~g~~~~A~~l~~~m~~~----g~~p~-~  397 (654)
                      ++..+..+|.+.|++++|.+.+++...     .    ...++..+...|.. .|++++|++.|++..+.    +-.+. .
T Consensus        79 ~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~  158 (290)
T d1qqea_          79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSN  158 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhh
Confidence            344445555555555555555544332     0    12344455555533 47777777777766431    11111 2


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCc-----chHHHHHHHHHHcCCHHHHHHHHHhC-CCCCC------H
Q 006246          398 ITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEV-----EHYGCIVDLLGRAGYLAEAEEVISSM-PMEPN------A  465 (654)
Q Consensus       398 ~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~------~  465 (654)
                      .++..+...+...|++++|..+|+++.......+..     ..+...+..+...|+++.|...+++. ...|+      .
T Consensus       159 ~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~  238 (290)
T d1qqea_         159 KCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRES  238 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------H
T ss_pred             hHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHH
Confidence            346666777777788888888777776632111111     12334445566678888888887776 23222      2


Q ss_pred             HHHHHHHHHHHHh--CChHHHHHHHHHHHhcC
Q 006246          466 AVWEALLGACRKH--GEVEFGERLGKILLEME  495 (654)
Q Consensus       466 ~~~~~ll~~~~~~--g~~~~a~~~~~~~~~~~  495 (654)
                      .....++.++...  +.+++|+..|+++.+++
T Consensus       239 ~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD  270 (290)
T d1qqea_         239 NFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLD  270 (290)
T ss_dssp             HHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcC
Confidence            2344555555442  34566666666555554

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.35  E-value=1.1e-05  Score=71.27  Aligned_cols=83  Identities=16%  Similarity=0.104  Sum_probs=56.8

Q ss_pred             HHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCCHHHHHHHHHhcCC---CCHhHHHHHHHHHHhcCChHHHHHH
Q 006246          207 DGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGRFEEARKLFNEMND---KDEITWSAIIDGYTKDGYYKEALEV  283 (654)
Q Consensus       207 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~  283 (654)
                      ..+...|+++.|++.|.++..++..+|..+...|.+.|++++|.+.|++..+   .+...|..+..+|.+.|++++|++.
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~   92 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKD   92 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHH
Confidence            3446666777777777766666666666677777777777777777776653   3556677777777777777777777


Q ss_pred             HHHHHh
Q 006246          284 FNEMQR  289 (654)
Q Consensus       284 ~~~m~~  289 (654)
                      |++...
T Consensus        93 ~~kAl~   98 (192)
T d1hh8a_          93 LKEALI   98 (192)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777654

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.33  E-value=4.8e-06  Score=66.94  Aligned_cols=94  Identities=16%  Similarity=0.033  Sum_probs=75.4

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCCh
Q 006246          404 LSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEV  481 (654)
Q Consensus       404 l~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~  481 (654)
                      ...+...|++++|+..|....+.  -+.+...|..+..+|...|++++|++.+++. .. +.++..|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc--CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            45567778888888888888763  2344667888888888888888888888876 22 34688899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCC
Q 006246          482 EFGERLGKILLEMEPQNR  499 (654)
Q Consensus       482 ~~a~~~~~~~~~~~p~~~  499 (654)
                      ++|+..++++++++|+++
T Consensus        88 ~~A~~~~~~a~~~~p~~~  105 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANNP  105 (117)
T ss_dssp             HHHHHHHHHHHTTCTTCH
T ss_pred             HHHHHHHHHHHHhCCCCH
Confidence            999999999999999984

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.31  E-value=2e-06  Score=69.57  Aligned_cols=108  Identities=15%  Similarity=0.082  Sum_probs=81.5

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCC---HHHHHHHHHhC-CCCCCH---HHHHHHHH
Q 006246          401 ACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGY---LAEAEEVISSM-PMEPNA---AVWEALLG  473 (654)
Q Consensus       401 ~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m-~~~p~~---~~~~~ll~  473 (654)
                      ..+++.+...+++++|.+.|++..+.  -+.+..++..+..+|.+.++   +++|+.+++++ ...|+.   .+|..|..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            45677777888888888888888773  23456777778888876554   45688888876 334433   47888999


Q ss_pred             HHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHHHHHHh
Q 006246          474 ACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMRKLMKE  513 (654)
Q Consensus       474 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~~~m~~  513 (654)
                      +|.+.|++++|++.++++++++|++.   +|..++..+.+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~---~A~~l~~~I~~  117 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNN---QAKELERLIDK  117 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCH---HHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCH---HHHHHHHHHHH
Confidence            99999999999999999999999984   56666555543

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.25  E-value=9.2e-06  Score=77.24  Aligned_cols=194  Identities=9%  Similarity=-0.015  Sum_probs=91.7

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCC-------C--ChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCC
Q 006246          175 IQMYACFGCVNKARQILDDGSK-------S--DVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGR  245 (654)
Q Consensus       175 i~~y~~~g~~~~A~~~~~~~~~-------~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~  245 (654)
                      ..+|...|++++|.+.|.+...       +  -..+|+.+..+|.+.|++++|+..+++..+           .+.+.|+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~-----------~~~~~~~  112 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQ-----------IFTHRGQ  112 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------HHHHTTC
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhH-----------Hhhhccc
Confidence            4556677777777776655310       0  123455555555555555555555443321           1111111


Q ss_pred             HHHHHHHHHhcCCCCHhHHHHHHHHHHh-cCChHHHHHHHHHHHhC----CCCC-CcchHHHHHHHHHhcCChhHHHHHH
Q 006246          246 FEEARKLFNEMNDKDEITWSAIIDGYTK-DGYYKEALEVFNEMQRD----KIKP-RKFVLSCVLAACASLGALDQGIWIH  319 (654)
Q Consensus       246 ~~~A~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~  319 (654)
                      ...+           ...+..+...|.. .|++++|++.|++..+.    +-.+ -..++..+...+...|++++|...+
T Consensus       113 ~~~~-----------~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~  181 (290)
T d1qqea_         113 FRRG-----------ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIY  181 (290)
T ss_dssp             HHHH-----------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             chhH-----------HHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHH
Confidence            1111           1233334444432 35566666555554321    1111 1123444555566666666666666


Q ss_pred             HHHHHcCCCCc------hhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCH--------HHHHHHHHHHHHc--CChhHHHH
Q 006246          320 DHVKRNSICVD------AVLGTALVDMYAKCGRLDMAWKVFEDMKMKEV--------FTWNAMIGGLAMH--GRADDAIE  383 (654)
Q Consensus       320 ~~~~~~~~~~~------~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~--------~~~~~li~~~~~~--g~~~~A~~  383 (654)
                      +.+.+......      ...+...+..+...|+++.|.+.|++..+.++        .....++.++...  +.+++|+.
T Consensus       182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~  261 (290)
T d1qqea_         182 SKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCK  261 (290)
T ss_dssp             HHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHH
T ss_pred             HHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            66555322111      01223344455566777777777777655321        2334455555442  34667777


Q ss_pred             HHHHHhh
Q 006246          384 LFFKMQR  390 (654)
Q Consensus       384 l~~~m~~  390 (654)
                      .|+++.+
T Consensus       262 ~y~~~~~  268 (290)
T d1qqea_         262 EFDNFMR  268 (290)
T ss_dssp             HHTTSSC
T ss_pred             HHHHHhh
Confidence            6665543

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.25  E-value=4.6e-06  Score=74.32  Aligned_cols=103  Identities=5%  Similarity=-0.184  Sum_probs=82.7

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHH
Q 006246          395 PDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALL  472 (654)
Q Consensus       395 p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll  472 (654)
                      |+...+......+.+.|++++|+..|.++.+.  -+.+...|..+..+|.+.|++++|+..|++. .+.| +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~--~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            56666667777888888888888888887763  2344667888888888888888888888876 4556 478889999


Q ss_pred             HHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          473 GACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       473 ~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+|...|++++|+..++++++++|++.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~  106 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQR  106 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccH
Confidence            999999999999999999999888765

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.01  E-value=0.0021  Score=59.10  Aligned_cols=222  Identities=10%  Similarity=-0.089  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHh----cCChhHHHHHHHHHHHcCCCCchhHHHHHH
Q 006246          263 TWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACAS----LGALDQGIWIHDHVKRNSICVDAVLGTALV  338 (654)
Q Consensus       263 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  338 (654)
                      .+..+...+.+.+++++|++.|++..+.|   +...+..+...+..    ..+...+...+....+.+   +......|.
T Consensus         4 ~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~   77 (265)
T d1ouva_           4 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   77 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccc
Confidence            34444444444555555555555554443   22233333333332    234445555555544443   222223333


Q ss_pred             HHHHH----cCCHHHHHHHHhhcCCC-CHHHHHHHHHHHHH----cCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc
Q 006246          339 DMYAK----CGRLDMAWKVFEDMKMK-EVFTWNAMIGGLAM----HGRADDAIELFFKMQREKMRPDRITFACVLSACAH  409 (654)
Q Consensus       339 ~~y~~----~g~~~~A~~~~~~m~~~-~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  409 (654)
                      ..+..    ..+.+.|...++..... .......+...+..    ......+...+.+....   .+...+..|...+..
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~  154 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDA  154 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhcc
Confidence            33322    23445555555544332 22222223222222    22345555555555443   244445555555543


Q ss_pred             ----cCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHH----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHH----
Q 006246          410 ----AGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGR----AGYLAEAEEVISSMPMEPNAAVWEALLGACRK----  477 (654)
Q Consensus       410 ----~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~ll~~~~~----  477 (654)
                          ..+...+..+++...+.    .+......|...|..    ..++++|+..|++....-++..+..|...|..    
T Consensus       155 ~~~~~~~~~~~~~~~~~a~~~----g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~  230 (265)
T d1ouva_         155 GRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNGEGV  230 (265)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS
T ss_pred             CCCcccccccchhhhhccccc----cccccccchhhhcccCcccccchhhhhhhHhhhhcccCHHHHHHHHHHHHcCCCC
Confidence                34556666666666542    244455555555554    45788888888876322356677777777764    


Q ss_pred             hCChHHHHHHHHHHHhcCCC
Q 006246          478 HGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       478 ~g~~~~a~~~~~~~~~~~p~  497 (654)
                      ..+.++|.+.|+++.+..+.
T Consensus       231 ~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         231 TRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             SCCSTTHHHHHHHHHHHTCH
T ss_pred             ccCHHHHHHHHHHHHHCcCH
Confidence            34788899999998887653

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.97  E-value=3.2e-05  Score=65.78  Aligned_cols=92  Identities=9%  Similarity=0.026  Sum_probs=52.8

Q ss_pred             HHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHH
Q 006246          406 ACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEF  483 (654)
Q Consensus       406 ~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~  483 (654)
                      .|.+.|++++|...|+++.+.  -+-+...|..+..+|...|++++|++.|++. ...| +..+|..++.++...|++++
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHH
Confidence            444555555555555555542  1223445555555666666666666666554 2223 45566666666666666666


Q ss_pred             HHHHHHHHHhcCCCCC
Q 006246          484 GERLGKILLEMEPQNR  499 (654)
Q Consensus       484 a~~~~~~~~~~~p~~~  499 (654)
                      |...++++++++|++.
T Consensus        97 A~~~~~~a~~~~p~~~  112 (159)
T d1a17a_          97 ALRDYETVVKVKPHDK  112 (159)
T ss_dssp             HHHHHHHHHHHSTTCH
T ss_pred             HHHHHHHHHHcCCCCH
Confidence            6666666666666654

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.93  E-value=8.7e-05  Score=59.20  Aligned_cols=83  Identities=12%  Similarity=0.024  Sum_probs=35.1

Q ss_pred             HHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 006246          341 YAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGL  417 (654)
Q Consensus       341 y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  417 (654)
                      +.+.|++++|...|++..+   .+...|..+..+|...|++++|+..+.+.++.+ +.+...|..+..++...|++++|+
T Consensus        13 ~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A~   91 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEAK   91 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHHH
Confidence            3344444444444444322   133344444444444444444444444444432 123334444444444444444444


Q ss_pred             HHHHHHH
Q 006246          418 QALTYMQ  424 (654)
Q Consensus       418 ~~~~~~~  424 (654)
                      ..|+...
T Consensus        92 ~~~~~a~   98 (117)
T d1elwa_          92 RTYEEGL   98 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=6.8e-05  Score=63.68  Aligned_cols=85  Identities=11%  Similarity=0.001  Sum_probs=34.1

Q ss_pred             HHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHH
Q 006246          372 LAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAE  451 (654)
Q Consensus       372 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  451 (654)
                      |.+.|++++|+..|++.++.. +-+...|..+..++...|++++|.+.|+++.+.  -+-+...|..++.+|...|++++
T Consensus        20 ~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          20 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHH--cccchHHHHHHHHHHHHcCCHHH
Confidence            334444444444444444432 112333444444444444444444444444431  11122334444444444444444


Q ss_pred             HHHHHHhC
Q 006246          452 AEEVISSM  459 (654)
Q Consensus       452 A~~~~~~m  459 (654)
                      |.+.+++.
T Consensus        97 A~~~~~~a  104 (159)
T d1a17a_          97 ALRDYETV  104 (159)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444433

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.90  E-value=0.0051  Score=58.20  Aligned_cols=206  Identities=10%  Similarity=0.058  Sum_probs=97.5

Q ss_pred             chhHHHHHHHhcccccCCChHHHHHHHhcCCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHH
Q 006246           64 DHYVSGTLVKCHANSRFSNFELALKVFNSVHKPNVFVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKAC  143 (654)
Q Consensus        64 ~~~~~~~Li~~y~~~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  143 (654)
                      +.+-.....+.+.+  .|.++.|..+|..+..     |..++..+.+.+++..|.+++.+.-      +..+|..+..+|
T Consensus        13 n~~d~~~i~~~c~~--~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l   79 (336)
T d1b89a_          13 NNAHIQQVGDRCYD--EKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFAC   79 (336)
T ss_dssp             ------------------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHH
T ss_pred             CcCCHHHHHHHHHH--CCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHH
Confidence            33333344455555  6666667666665443     6666666666677776666665431      344666666666


Q ss_pred             hccCCcHHHHHHHHHHHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHHcCCHHHHHH
Q 006246          144 SITEADKEGVQVHAHVVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDG---SKSDVICWNALIDGYLKCGDIEGAKE  220 (654)
Q Consensus       144 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~  220 (654)
                      ........+     ++.......++.....++..|-..|.+++...+++..   ...+...++-++..|++.+ .++-.+
T Consensus        80 ~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e  153 (336)
T d1b89a_          80 VDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMRE  153 (336)
T ss_dssp             HHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHH
T ss_pred             HhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHH
Confidence            555444332     1222222334444456666676777777776666653   3345555666666666654 333333


Q ss_pred             HHHhcCCC-----------CcchHHHHHHHHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006246          221 LFKSTKDK-----------NTGSYNAMISGFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQR  289 (654)
Q Consensus       221 ~~~~m~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  289 (654)
                      .++.....           ....|..++-.|.+.|++++|..+.-.-. +++......+..+.+..+++...++.....+
T Consensus       154 ~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~-~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~  232 (336)
T d1b89a_         154 HLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHP-TDAWKEGQFKDIITKVANVELYYRAIQFYLE  232 (336)
T ss_dssp             HHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHST-TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH
T ss_pred             HHHhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcc-hhhhhHHHHHHHHHccCChHHHHHHHHHHHH
Confidence            33332110           11123444445555566655554432211 1222233445556666666655555554443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.88  E-value=0.0034  Score=57.62  Aligned_cols=218  Identities=11%  Similarity=-0.022  Sum_probs=111.7

Q ss_pred             hhhHHHHHHHHHHcCCHHHHHHHHHhcCC-CCcchHHHHHHHHHh----cCCHHHHHHHHHhcCCC-CHhHHHHHHHHHH
Q 006246          199 VICWNALIDGYLKCGDIEGAKELFKSTKD-KNTGSYNAMISGFAR----FGRFEEARKLFNEMNDK-DEITWSAIIDGYT  272 (654)
Q Consensus       199 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~  272 (654)
                      +..+..|...+.+.+++++|++.|++..+ .|...+..|..+|..    ..+...|...+.....+ +...+..+...+.
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~   81 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYY   81 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhccccccc
Confidence            34455555555666666666666666543 344455555555554    45666666666665543 3444444444443


Q ss_pred             h----cCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHH----hcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH-
Q 006246          273 K----DGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACA----SLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK-  343 (654)
Q Consensus       273 ~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~-  343 (654)
                      .    ..+.+.|...++.....|...   ....+...+.    .......+...+......+   +...+..|...|.. 
T Consensus        82 ~~~~~~~~~~~a~~~~~~a~~~g~~~---a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L~~~~~~~  155 (265)
T d1ouva_          82 SGQGVSQNTNKALQYYSKACDLKYAE---GCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAG  155 (265)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT
T ss_pred             cccccchhhHHHHHHHhhhhhhhhhh---HHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhhhhhhccC
Confidence            3    345666777777666655221   1112211221    1223444445554444432   34455556555554 


Q ss_pred             ---cCCHHHHHHHHhhcCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHc----cC
Q 006246          344 ---CGRLDMAWKVFEDMKM-KEVFTWNAMIGGLAM----HGRADDAIELFFKMQREKMRPDRITFACVLSACAH----AG  411 (654)
Q Consensus       344 ---~g~~~~A~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~----~g  411 (654)
                         ..+...+...++...+ .+..++..+...|..    ..+.++|+.+|++..+.|   +...+..|...|.+    ..
T Consensus       156 ~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~  232 (265)
T d1ouva_         156 RGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTR  232 (265)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSC
T ss_pred             CCcccccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCcc
Confidence               2345555555555443 255555555555544    345666777776666655   33344444444433    22


Q ss_pred             CHHHHHHHHHHHHH
Q 006246          412 MIDRGLQALTYMQQ  425 (654)
Q Consensus       412 ~~~~a~~~~~~~~~  425 (654)
                      +.++|.++|++..+
T Consensus       233 n~~~A~~~~~kAa~  246 (265)
T d1ouva_         233 NEKQAIENFKKGCK  246 (265)
T ss_dssp             CSTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            55566666666554

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.87  E-value=0.0001  Score=63.27  Aligned_cols=115  Identities=10%  Similarity=-0.015  Sum_probs=81.2

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 006246          363 FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDL  442 (654)
Q Consensus       363 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~  442 (654)
                      ..+......+.+.|++++|+..|++.++.-  |....            ..+.-......+.        ..+|+.+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~~~------------~~~~~~~~~~~~~--------~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESS------------FSNEEAQKAQALR--------LASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCC------------CCSHHHHHHHHHH--------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHh--hhccc------------cchHHHhhhchhH--------HHHHHHHHHH
Confidence            445566777888888888888888877631  11000            0000001111111        1246778888


Q ss_pred             HHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          443 LGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       443 ~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      |.+.|++++|+..+++. ...| ++.+|..++.+|...|++++|+..|+++++++|++.
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~  130 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNK  130 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCH
Confidence            99999999999999876 3345 788999999999999999999999999999999885

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.87  E-value=7.4e-05  Score=66.09  Aligned_cols=90  Identities=4%  Similarity=-0.146  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCC-CHHHHHHHHHHHHc
Q 006246          334 GTALVDMYAKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRP-DRITFACVLSACAH  409 (654)
Q Consensus       334 ~~~li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~  409 (654)
                      .......|.+.|++++|+..|++...   .+...|+.+..+|.+.|++++|+..|++.++.  .| +..+|..+..++..
T Consensus         7 l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~lg~~~~~   84 (201)
T d2c2la1           7 LKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFLGQCQLE   84 (201)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHHHHHHHH
Confidence            33444455555555555555554432   24455555555555555555555555555543  23 23355555555555


Q ss_pred             cCCHHHHHHHHHHHHH
Q 006246          410 AGMIDRGLQALTYMQQ  425 (654)
Q Consensus       410 ~g~~~~a~~~~~~~~~  425 (654)
                      .|++++|...|+++.+
T Consensus        85 l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          85 MESYDEAIANLQRAYS  100 (201)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            5555555555555443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.83  E-value=0.00015  Score=60.97  Aligned_cols=113  Identities=13%  Similarity=0.055  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCC----CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHH
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQREKMR----PDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYG  437 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~----p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~  437 (654)
                      ...+......+.+.|++.+|+..|.+.+..-..    ++....                 .....+        ...+|.
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~-----------------~~~~~~--------~~~~~~   71 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL-----------------DKKKNI--------EISCNL   71 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH-----------------HHHHHH--------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH-----------------HhhhhH--------HHHHHh
Confidence            356777788889999999999999988763110    111100                 000001        123677


Q ss_pred             HHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          438 CIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       438 ~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .+..+|.+.|++++|++.+++. ...| +..+|..++.++...|+++.|+..++++++++|++.
T Consensus        72 Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~  135 (153)
T d2fbna1          72 NLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNL  135 (153)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCH
T ss_pred             hHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence            8889999999999999999987 3444 789999999999999999999999999999999986

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.73  E-value=0.00014  Score=58.94  Aligned_cols=61  Identities=7%  Similarity=-0.043  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          364 TWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       364 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .+..+...|.+.|++++|+..|.+.++.+ +.+...+..+..+|.+.|++++|++.++.+.+
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            34455666667777777777777766653 22455666666666667777777766666654

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.70  E-value=0.00011  Score=57.99  Aligned_cols=53  Identities=9%  Similarity=-0.016  Sum_probs=21.3

Q ss_pred             HHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 006246          371 GLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQ  424 (654)
Q Consensus       371 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~  424 (654)
                      .+.+.|++++|+..|++.++... -+...|..+..++.+.|++++|+..|++..
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al   77 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHAR   77 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhccccccc
Confidence            33444444444444444443311 123334444444444444444444444443

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.67  E-value=0.00021  Score=57.28  Aligned_cols=96  Identities=11%  Similarity=-0.050  Sum_probs=61.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCH---HHHHHHHhhcCCCC-----HHHHHHHHHHH
Q 006246          301 CVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRL---DMAWKVFEDMKMKE-----VFTWNAMIGGL  372 (654)
Q Consensus       301 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~---~~A~~~~~~m~~~~-----~~~~~~li~~~  372 (654)
                      .+++.+...+++++|++.|+.+++.+ +.++.++..+..++.+.++.   ++|+.+|+++...+     ..+|..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45566666677777777777777665 34556666677777664443   45777777765421     23566677777


Q ss_pred             HHcCChhHHHHHHHHHhhcCCCCCHHH
Q 006246          373 AMHGRADDAIELFFKMQREKMRPDRIT  399 (654)
Q Consensus       373 ~~~g~~~~A~~l~~~m~~~g~~p~~~t  399 (654)
                      .+.|++++|++.|+++++.  .|+..-
T Consensus        83 ~~~g~~~~A~~~~~~aL~~--~P~~~~  107 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT--EPQNNQ  107 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHhhhHHHHHHHHHHHHh--CcCCHH
Confidence            7777777777777777764  455443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.66  E-value=0.00038  Score=59.46  Aligned_cols=113  Identities=13%  Similarity=-0.031  Sum_probs=74.3

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHhhc---CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHH
Q 006246          362 VFTWNAMIGGLAMHGRADDAIELFFKMQRE---KMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGC  438 (654)
Q Consensus       362 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~  438 (654)
                      ...+......+.+.|++++|+..|++.+..   ...++.                +. ......+.        ...|..
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~----------------~~-~~~~~~~~--------~~~~~N   69 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSE----------------KE-SKASESFL--------LAAFLN   69 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCH----------------HH-HHHHHHHH--------HHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccch----------------hh-hhhcchhH--------HHHHHh
Confidence            345666677788888888888888776542   111110                00 00111111        224566


Q ss_pred             HHHHHHHcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          439 IVDLLGRAGYLAEAEEVISSM-PM-EPNAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       439 li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +..+|.+.|++++|+..+++. .. +.+..+|..+..++...|++++|+..++++++++|++.
T Consensus        70 la~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~  132 (168)
T d1kt1a1          70 LAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNK  132 (168)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCH
T ss_pred             HHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence            777788888888888888776 22 34677888888888888888888888888888888875

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.64  E-value=0.027  Score=52.99  Aligned_cols=274  Identities=11%  Similarity=0.068  Sum_probs=113.4

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHHHHHhcCC
Q 006246          166 GDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMISGFARFGR  245 (654)
Q Consensus       166 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~  245 (654)
                      |+..-...+.+.+.+.|.++.|..++..+.     .|..++..|.+.++++.|.+.+.+.  .+..+|..+...+.+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~~~e   84 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKE   84 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTC
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHhCcH
Confidence            343444445555556666666666665332     2444555555555555555555433  234455555555555544


Q ss_pred             HHHHHHHHHhcCCCCHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHc
Q 006246          246 FEEARKLFNEMNDKDEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRN  325 (654)
Q Consensus       246 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  325 (654)
                      ...|... ......+......++..|-..|.+++...+++..... -.++...++.++..+++.+.    .++.+.+...
T Consensus        85 ~~la~i~-~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~----~kl~e~l~~~  158 (336)
T d1b89a_          85 FRLAQMC-GLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP----QKMREHLELF  158 (336)
T ss_dssp             HHHHHHT-TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH----HHHHHHHHHH
T ss_pred             HHHHHHH-HHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh----HHHHHHHHhc
Confidence            4433221 1111123333344555555555555555555544322 12333344445554544321    1222222221


Q ss_pred             CCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHH
Q 006246          326 SICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLS  405 (654)
Q Consensus       326 ~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  405 (654)
                      +-..|.   .-++..+-+.+-                  |.-++-.|.+.|++++|+.+.-   +.  .++..-....+.
T Consensus       159 s~~y~~---~k~~~~c~~~~l------------------~~elv~Ly~~~~~~~~A~~~~i---~~--~~~~~~~~~f~e  212 (336)
T d1b89a_         159 WSRVNI---PKVLRAAEQAHL------------------WAELVFLYDKYEEYDNAIITMM---NH--PTDAWKEGQFKD  212 (336)
T ss_dssp             STTSCH---HHHHHHHHTTTC------------------HHHHHHHHHHTTCHHHHHHHHH---HS--TTTTCCHHHHHH
T ss_pred             cccCCH---HHHHHHHHHcCC------------------hHHHHHHHHhcCCHHHHHHHHH---Hc--chhhhhHHHHHH
Confidence            111110   011222222222                  3344444555555555544321   11  122222233344


Q ss_pred             HHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC-------------CCCCCHHHHHHHH
Q 006246          406 ACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM-------------PMEPNAAVWEALL  472 (654)
Q Consensus       406 ~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-------------~~~p~~~~~~~ll  472 (654)
                      .+.+.++.+...+......+.   .|  ...+.++......-+..+.++.+++-             ....+..+.++|.
T Consensus       213 ~~~k~~N~e~~~~~i~~yL~~---~p--~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n~~~vn~al~  287 (336)
T d1b89a_         213 IITKVANVELYYRAIQFYLEF---KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLN  287 (336)
T ss_dssp             HHHHCSSTHHHHHHHHHHHHH---CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHccCChHHHHHHHHHHHHc---CH--HHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcChHHHHHHHH
Confidence            445555555544444444332   22  23344444444444555555544443             1223556777888


Q ss_pred             HHHHHhCChHH
Q 006246          473 GACRKHGEVEF  483 (654)
Q Consensus       473 ~~~~~~g~~~~  483 (654)
                      ..|...+|++.
T Consensus       288 ~lyie~~d~~~  298 (336)
T d1b89a_         288 NLFITEEDYQA  298 (336)
T ss_dssp             HHHHHTTCHHH
T ss_pred             HHHhCcchhHH
Confidence            88888777544

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.60  E-value=0.00016  Score=57.14  Aligned_cols=88  Identities=13%  Similarity=0.006  Sum_probs=76.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHh
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKH  478 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~  478 (654)
                      .....+.+.|++++|...|++..+.   .| +...|..+..++.+.|++++|+..+++. ...| +..+|..+...|...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccc---ccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHC
Confidence            4556778899999999999999885   44 4778899999999999999999999987 3445 689999999999999


Q ss_pred             CChHHHHHHHHHHH
Q 006246          479 GEVEFGERLGKILL  492 (654)
Q Consensus       479 g~~~~a~~~~~~~~  492 (654)
                      |+.++|.+.+++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999999875

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.59  E-value=0.0012  Score=56.20  Aligned_cols=67  Identities=12%  Similarity=-0.012  Sum_probs=58.8

Q ss_pred             cchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          433 VEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       433 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      ...|..+..+|.+.|++++|+..+++. ...| ++..|..++.++...|++++|+..++++++++|++.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~  145 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDK  145 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCH
Confidence            445777888899999999999999887 4455 688999999999999999999999999999999985

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.55  E-value=0.00058  Score=58.36  Aligned_cols=122  Identities=9%  Similarity=0.041  Sum_probs=64.3

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCC-hhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHcc
Q 006246          332 VLGTALVDMYAKCGRLDMAWKVFEDMKMKEVFTWNAMIGGLAMHGR-ADDAIELFFKMQREKMRPDRITFACVLSACAHA  410 (654)
Q Consensus       332 ~~~~~li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  410 (654)
                      ..+......|.+.|++++|...|.+...-           +-.... ...-......+       ...+|..+..+|.+.
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~-----------~~~~~~~~~~~~~~~~~~-------~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSW-----------LEYESSFSNEEAQKAQAL-------RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----------TTTCCCCCSHHHHHHHHH-------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH-----------hhhccccchHHHhhhchh-------HHHHHHHHHHHHHhh
Confidence            34456677899999999999999876421           000000 00000000000       012344555556666


Q ss_pred             CCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHHHcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 006246          411 GMIDRGLQALTYMQQMYGIDP-EVEHYGCIVDLLGRAGYLAEAEEVISSM-PMEP-NAAVWEALLGA  474 (654)
Q Consensus       411 g~~~~a~~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p-~~~~~~~ll~~  474 (654)
                      |++++|+..++...+.   .| ++..|..+..+|...|++++|+..|++. ...| |..+...+...
T Consensus        76 ~~~~~A~~~~~~al~~---~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~  139 (170)
T d1p5qa1          76 QAFSAAIESCNKALEL---DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVC  139 (170)
T ss_dssp             TCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             hhcccccchhhhhhhc---cccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            6666666666666653   23 4555666666666666666666666655 2333 34444333333

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.53  E-value=0.00046  Score=55.78  Aligned_cols=94  Identities=7%  Similarity=-0.021  Sum_probs=49.8

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHHHHHHHHhC----CCCCC-----HHHHHHHH
Q 006246          402 CVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAEAEEVISSM----PMEPN-----AAVWEALL  472 (654)
Q Consensus       402 ~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m----~~~p~-----~~~~~~ll  472 (654)
                      .+...+...|++++|+..|.+..+.  -+.+...|..+..+|.+.|++++|++.++++    +..+.     ..+|..+.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            3444555556666666666665553  1223445555566666666666666665554    10111     23455555


Q ss_pred             HHHHHhCChHHHHHHHHHHHhcCCC
Q 006246          473 GACRKHGEVEFGERLGKILLEMEPQ  497 (654)
Q Consensus       473 ~~~~~~g~~~~a~~~~~~~~~~~p~  497 (654)
                      ..+...+++++|+..+++.+..+|+
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~~~~  111 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAEHRT  111 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCC
Confidence            5555666666666666666655544

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.49  E-value=0.00068  Score=56.94  Aligned_cols=65  Identities=12%  Similarity=-0.013  Sum_probs=43.3

Q ss_pred             hHHHHHHHHHHcCCHHHHHHHHHhC--------CCCCC-----HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          435 HYGCIVDLLGRAGYLAEAEEVISSM--------PMEPN-----AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       435 ~~~~li~~~~~~g~~~~A~~~~~~m--------~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      .|+.+..+|...|++++|.+.+++.        ...++     ..++..+..+|...|++++|+..|++++++.|+..
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence            3445555555555555555555443        11121     23567788999999999999999999999877654

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.46  E-value=7.1e-05  Score=62.36  Aligned_cols=118  Identities=7%  Similarity=0.010  Sum_probs=62.8

Q ss_pred             HHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHcCCHHH
Q 006246          372 LAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGRAGYLAE  451 (654)
Q Consensus       372 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~  451 (654)
                      |-+.+.+++|+..|++..+.. +.|...+..+..++...+++..+.+                          ..+.+++
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e--------------------------~~~~~~~   59 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISD--------------------------AKQMIQE   59 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHH--------------------------HHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhH--------------------------HHHHHHH
Confidence            445556667777777766653 2244455555555543322211110                          1122344


Q ss_pred             HHHHHHhC-CCCC-CHHHHHHHHHHHHHhC-----------ChHHHHHHHHHHHhcCCCCC-------CchHHHHHHHHH
Q 006246          452 AEEVISSM-PMEP-NAAVWEALLGACRKHG-----------EVEFGERLGKILLEMEPQNR-------RCDDVAKMRKLM  511 (654)
Q Consensus       452 A~~~~~~m-~~~p-~~~~~~~ll~~~~~~g-----------~~~~a~~~~~~~~~~~p~~~-------~~~~a~~~~~~m  511 (654)
                      |++.|++. .+.| +..+|..++.+|...|           +++.|.+.|+++++++|++.       ....+.+++...
T Consensus        60 Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~ka~~~~~e~  139 (145)
T d1zu2a1          60 AITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAKAPQLHAEA  139 (145)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444 2223 3555555555554433           46889999999999999987       333444555555


Q ss_pred             HhcCC
Q 006246          512 KERGI  516 (654)
Q Consensus       512 ~~~g~  516 (654)
                      .+.|+
T Consensus       140 ~k~~~  144 (145)
T d1zu2a1         140 YKQGL  144 (145)
T ss_dssp             HHSSS
T ss_pred             HHHhc
Confidence            55443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.42  E-value=2.2e-05  Score=80.73  Aligned_cols=167  Identities=10%  Similarity=-0.052  Sum_probs=81.5

Q ss_pred             hHHHHHHHHHHHhCCCCCCcchHHHHHHHH--HhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHH
Q 006246          277 YKEALEVFNEMQRDKIKPRKFVLSCVLAAC--ASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVF  354 (654)
Q Consensus       277 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~  354 (654)
                      +..+.+.++...+....++..-....+..+  ...+.++.+...+....+.. +++...+..+...+.+.|+.++|...+
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~  143 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQ  143 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------C
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHH
Confidence            445666666665544344433332222221  11222333333332222221 234555666777777888888887776


Q ss_pred             hhcCCCCH-HHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCc
Q 006246          355 EDMKMKEV-FTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEV  433 (654)
Q Consensus       355 ~~m~~~~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~  433 (654)
                      +....++. .++..+...+...|++++|+..|++..+.. +-+..+|+.|...+...|+..+|...|.+...  --.|-.
T Consensus       144 ~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~--~~~~~~  220 (497)
T d1ya0a1         144 SSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIA--VKFPFP  220 (497)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS--SSBCCH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--CCCCCH
Confidence            66554332 456677778888888888888888887753 22446788888888888888888888887765  234556


Q ss_pred             chHHHHHHHHHHcC
Q 006246          434 EHYGCIVDLLGRAG  447 (654)
Q Consensus       434 ~~~~~li~~~~~~g  447 (654)
                      ..+..|...+.+..
T Consensus       221 ~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         221 AASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhh
Confidence            66777777665443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.24  E-value=0.0019  Score=53.87  Aligned_cols=92  Identities=9%  Similarity=-0.040  Sum_probs=48.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHhhcCCC--------C-----------HHHHHHHHHHHHHcCChhHHHHHHHHHhhcCC
Q 006246          333 LGTALVDMYAKCGRLDMAWKVFEDMKMK--------E-----------VFTWNAMIGGLAMHGRADDAIELFFKMQREKM  393 (654)
Q Consensus       333 ~~~~li~~y~~~g~~~~A~~~~~~m~~~--------~-----------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  393 (654)
                      .+..-.+.+.+.|++++|...|++....        +           ..+|+.+..+|.+.|++++|++.+++.++.. 
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-   97 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-   97 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-
Confidence            4455677889999999999999876421        1           1233334444444444444444444444432 


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          394 RPDRITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       394 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      +.+..+|..+..++...|++++|+..|+...+
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            11333444444444444444444444444443

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.22  E-value=0.00038  Score=64.20  Aligned_cols=123  Identities=13%  Similarity=0.081  Sum_probs=88.3

Q ss_pred             HHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHH
Q 006246          373 AMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAE  451 (654)
Q Consensus       373 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~  451 (654)
                      .+.|++++|+..+++.++.. +-|...+..+...++..|++++|.+.++...+.   .|+ ...+..+..++...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            45789999999999998863 336678888999999999999999999998874   454 3344455555555555555


Q ss_pred             HHHHHHhC--CCCC-CHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          452 AEEVISSM--PMEP-NAAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       452 A~~~~~~m--~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      +..-....  ...| +...+......+...|+.++|...++++.+..|+.+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~  133 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKG  133 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCC
Confidence            43332221  1223 344455556778899999999999999999999876

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.20  E-value=0.00066  Score=51.46  Aligned_cols=63  Identities=17%  Similarity=0.146  Sum_probs=48.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHhC----C----CCCC-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCC
Q 006246          437 GCIVDLLGRAGYLAEAEEVISSM----P----MEPN-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNR  499 (654)
Q Consensus       437 ~~li~~~~~~g~~~~A~~~~~~m----~----~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  499 (654)
                      -.+...+.+.|++++|+..|++.    +    ..++ ..++..|..++.+.|++++|+..++++++++|++.
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~   80 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQ   80 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCH
Confidence            34566666777777777766654    1    1122 67888999999999999999999999999999985

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.19  E-value=0.0017  Score=55.13  Aligned_cols=82  Identities=13%  Similarity=-0.014  Sum_probs=54.6

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006246          260 DEITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVD  339 (654)
Q Consensus       260 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  339 (654)
                      +...|+.+..+|.+.|++++|+..+++.++.. +.+...|..+..++...|+++.|.+.+..+++.. +.+..+...+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34456777777888888888888888877653 3345567777777777777777777777777764 234455555544


Q ss_pred             HHHH
Q 006246          340 MYAK  343 (654)
Q Consensus       340 ~y~~  343 (654)
                      ++.+
T Consensus       154 ~~~~  157 (169)
T d1ihga1         154 VKQK  157 (169)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.12  E-value=0.0031  Score=53.99  Aligned_cols=74  Identities=19%  Similarity=0.164  Sum_probs=57.4

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH----HcCCCCCcch
Q 006246          361 EVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQ----MYGIDPEVEH  435 (654)
Q Consensus       361 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~----~~g~~p~~~~  435 (654)
                      ....+..+...+...|++++|+..++++++.. +-+...|..++.++...|+.++|++.|+.+.+    ..|+.|...+
T Consensus        66 ~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          66 KVLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            34567778888888888888888888888763 33677888888888888888888888888744    3588887654

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.91  E-value=0.00049  Score=70.30  Aligned_cols=132  Identities=9%  Similarity=-0.123  Sum_probs=78.9

Q ss_pred             HHcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 006246          342 AKCGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQ  418 (654)
Q Consensus       342 ~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  418 (654)
                      ...+.++.|...++....   .+...|..+...+.+.|+.++|...+++.....   ...++..+...+...|++++|..
T Consensus        97 ~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~  173 (497)
T d1ya0a1          97 AASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAES  173 (497)
T ss_dssp             HHHHHHHHHHHHHTC-------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHH
Confidence            345567777776665543   355678888888899999999988887765431   23467778888999999999999


Q ss_pred             HHHHHHHHcCCCCC-cchHHHHHHHHHHcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHHhC
Q 006246          419 ALTYMQQMYGIDPE-VEHYGCIVDLLGRAGYLAEAEEVISSM--PMEPNAAVWEALLGACRKHG  479 (654)
Q Consensus       419 ~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m--~~~p~~~~~~~ll~~~~~~g  479 (654)
                      .|.+..+.   .|+ ...|+.|..++...|+..+|+..|.+.  -..|-+.++..|...+.+..
T Consensus       174 ~y~~A~~l---~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         174 YYRHAAQL---VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHHH---CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHH---CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence            99999874   555 568999999999999999999999876  23466788888887776543

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=96.90  E-value=0.0062  Score=51.45  Aligned_cols=23  Identities=17%  Similarity=0.174  Sum_probs=14.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHhhc
Q 006246          335 TALVDMYAKCGRLDMAWKVFEDM  357 (654)
Q Consensus       335 ~~li~~y~~~g~~~~A~~~~~~m  357 (654)
                      .-....+.+.|++++|...|++.
T Consensus        19 ~e~G~~~~~~~~~~~A~~~Y~~a   41 (168)
T d1kt1a1          19 KEKGTVYFKGGKYVQAVIQYGKI   41 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555666677777777766553

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.87  E-value=0.0092  Score=50.89  Aligned_cols=122  Identities=13%  Similarity=0.147  Sum_probs=84.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH
Q 006246          264 WSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK  343 (654)
Q Consensus       264 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~  343 (654)
                      ...........|++++|.+.|.+.+..  .+....        ......+-+...-..+..    .....+..+...+.+
T Consensus        14 ~~~~g~~~~~~g~~e~A~~~~~~AL~l--~rG~~l--------~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~   79 (179)
T d2ff4a2          14 EKTAGVHAAAAGRFEQASRHLSAALRE--WRGPVL--------DDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIA   79 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT--CCSSTT--------GGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhh--Cccccc--------ccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Confidence            334456778899999999999998764  111110        000110111111111111    123466778999999


Q ss_pred             cCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHhh-----cCCCCCHHH
Q 006246          344 CGRLDMAWKVFEDMKM---KEVFTWNAMIGGLAMHGRADDAIELFFKMQR-----EKMRPDRIT  399 (654)
Q Consensus       344 ~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-----~g~~p~~~t  399 (654)
                      .|++++|...++++..   .+...|..++.+|.+.|+..+|++.|+++.+     .|+.|...+
T Consensus        80 ~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          80 CGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999999999998875   3778999999999999999999999999744     699998765

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.54  E-value=0.0023  Score=58.67  Aligned_cols=118  Identities=9%  Similarity=-0.019  Sum_probs=54.2

Q ss_pred             hcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCC--C-CHHHHHHHHHHHHHcCChhHHHHH
Q 006246          308 SLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKM--K-EVFTWNAMIGGLAMHGRADDAIEL  384 (654)
Q Consensus       308 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~l  384 (654)
                      +.|++++|+..++..++.. +.|...+..|...|+..|++++|.+.|+...+  | +...+..+...+...+..+++..-
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a~~~   86 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDFAQG   86 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHTTS
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHHHHH
Confidence            3455555555555555544 33555555666666666666666666655543  1 233333333333322222222211


Q ss_pred             HHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHH
Q 006246          385 FFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQM  426 (654)
Q Consensus       385 ~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~  426 (654)
                      .......+-+++...+......+...|+.++|.+.++.+.+.
T Consensus        87 ~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          87 AATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             CCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            111111111122233333444555566666666666666553

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.52  E-value=0.0077  Score=50.11  Aligned_cols=96  Identities=16%  Similarity=0.107  Sum_probs=64.8

Q ss_pred             HHHHH--HHHHHHcCChhHHHHHHHHHhhcCC-CCC----------HHHHHHHHHHHHccCCHHHHHHHHHHHHHHc---
Q 006246          364 TWNAM--IGGLAMHGRADDAIELFFKMQREKM-RPD----------RITFACVLSACAHAGMIDRGLQALTYMQQMY---  427 (654)
Q Consensus       364 ~~~~l--i~~~~~~g~~~~A~~l~~~m~~~g~-~p~----------~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~---  427 (654)
                      +|..+  ...+.+.|++++|++.|++.++... .|+          ...|+.+..++...|++++|...++...+.+   
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            44444  3345566778888888877765211 111          3567778888888888888888888876532   


Q ss_pred             -CCCCC-----cchHHHHHHHHHHcCCHHHHHHHHHhC
Q 006246          428 -GIDPE-----VEHYGCIVDLLGRAGYLAEAEEVISSM  459 (654)
Q Consensus       428 -g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m  459 (654)
                       ...++     ...+..+..+|...|++++|++.|++.
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~A  126 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKV  126 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence             11121     124667888999999999999998875

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.44  E-value=0.0044  Score=50.94  Aligned_cols=28  Identities=25%  Similarity=0.325  Sum_probs=15.9

Q ss_pred             hhHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 006246          378 ADDAIELFFKMQREKMRPDRITFACVLSAC  407 (654)
Q Consensus       378 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  407 (654)
                      +++|.+.|++..+.  .|+..+|..-+..+
T Consensus       102 ~~~A~~~~~kal~l--~P~~~~~~~~L~~~  129 (145)
T d1zu2a1         102 FDLATQFFQQAVDE--QPDNTHYLKSLEMT  129 (145)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHhhhhhhccccc--CCCHHHHHHHHHHH
Confidence            45666667666663  56655555444433

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.00  E-value=0.11  Score=40.10  Aligned_cols=76  Identities=16%  Similarity=0.147  Sum_probs=50.8

Q ss_pred             hHHHHHHHHHHcC---CHHHHHHHHHhC-CCCC-C-HHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCCCchHHHHHH
Q 006246          435 HYGCIVDLLGRAG---YLAEAEEVISSM-PMEP-N-AAVWEALLGACRKHGEVEFGERLGKILLEMEPQNRRCDDVAKMR  508 (654)
Q Consensus       435 ~~~~li~~~~~~g---~~~~A~~~~~~m-~~~p-~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~a~~~~  508 (654)
                      +--....++.+..   +.++|+.++++. ...| + ...|-.|.-+|.+.|+++.|.+.++++++++|++   ..|..+.
T Consensus        37 t~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n---~qA~~L~  113 (124)
T d2pqrb1          37 SRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN---KQVGALK  113 (124)
T ss_dssp             HHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC---HHHHHHH
T ss_pred             hHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCc---HHHHHHH
Confidence            3333444444433   345566666655 1223 3 3567778889999999999999999999999998   4566555


Q ss_pred             HHHHh
Q 006246          509 KLMKE  513 (654)
Q Consensus       509 ~~m~~  513 (654)
                      +.+.+
T Consensus       114 ~~Ie~  118 (124)
T d2pqrb1         114 SMVED  118 (124)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.95  E-value=0.043  Score=40.76  Aligned_cols=59  Identities=10%  Similarity=-0.034  Sum_probs=27.4

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHhhcC-----CCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 006246          367 AMIGGLAMHGRADDAIELFFKMQREK-----MRPD-RITFACVLSACAHAGMIDRGLQALTYMQQ  425 (654)
Q Consensus       367 ~li~~~~~~g~~~~A~~l~~~m~~~g-----~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~~~~  425 (654)
                      .+...+.+.|++++|+..|++.++..     ..++ ..++..+..++.+.|++++|+..++++.+
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            44455555555555555555554321     1111 12344444455555555555555555444

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=94.13  E-value=0.41  Score=37.66  Aligned_cols=109  Identities=12%  Similarity=-0.061  Sum_probs=46.6

Q ss_pred             ChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCCCCchhHHHHHHHHHHH----cCCHHHHH
Q 006246          276 YYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSICVDAVLGTALVDMYAK----CGRLDMAW  351 (654)
Q Consensus       276 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~----~g~~~~A~  351 (654)
                      ++++|+++|++..+.|..   .....+.  .....+.++|.+.+....+.|   ++.....|..+|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            456666666666665521   1111111  122334555555555555544   23333344444433    22344444


Q ss_pred             HHHhhcCC-CCHHHHHHHHHHHHH----cCChhHHHHHHHHHhhcC
Q 006246          352 KVFEDMKM-KEVFTWNAMIGGLAM----HGRADDAIELFFKMQREK  392 (654)
Q Consensus       352 ~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g  392 (654)
                      +.|++..+ .++.+...|...|..    ..+.++|.++|++..+.|
T Consensus        80 ~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            44444332 233333333333332    123444444444444433

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=93.88  E-value=0.78  Score=34.96  Aligned_cols=65  Identities=11%  Similarity=0.058  Sum_probs=45.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHcCC
Q 006246          262 ITWSAIIDGYTKDGYYKEALEVFNEMQRDKIKPRKFVLSCVLAACASLGALDQGIWIHDHVKRNSI  327 (654)
Q Consensus       262 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  327 (654)
                      ...+..++...++|+-+.-.++++.+.+.+ +|++.....+..||.+.|+..++.+++.++-+.|+
T Consensus        87 e~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          87 EHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            345566677777777777777777766643 66667777777777788877777777777777664

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=92.66  E-value=0.62  Score=36.52  Aligned_cols=110  Identities=9%  Similarity=-0.079  Sum_probs=65.6

Q ss_pred             ChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHH----cCCHHHH
Q 006246          377 RADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDLLGR----AGYLAEA  452 (654)
Q Consensus       377 ~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A  452 (654)
                      ++++|+++|++..+.|..   .....|.  .....+.++|.+++++..+. |   +......|..+|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            466777777777666522   2222222  23345677777777777662 3   34445555555554    3467788


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHH----hCChHHHHHHHHHHHhcC
Q 006246          453 EEVISSMPMEPNAAVWEALLGACRK----HGEVEFGERLGKILLEME  495 (654)
Q Consensus       453 ~~~~~~m~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~  495 (654)
                      .++|++.-..-++.....|...|..    ..|.++|.+.++++.+..
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            8888776222355555556665554    357888888888877654

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=90.04  E-value=3  Score=31.65  Aligned_cols=63  Identities=14%  Similarity=0.125  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCC
Q 006246          365 WNAMIGGLAMHGRADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGI  429 (654)
Q Consensus       365 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~  429 (654)
                      .+.-++.+.++|+-++-.++++.+.+.+ +|++.....+..||.+.|...++-+++.++-+. |+
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~  151 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK-GE  151 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hH
Confidence            4555667778888888888888876643 677777778888888888888888888887764 54

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=89.69  E-value=9.1  Score=36.64  Aligned_cols=370  Identities=10%  Similarity=-0.027  Sum_probs=209.4

Q ss_pred             CChHHHHHHHhcCCC-CCc-chHHHHHHHHHhCCCchHHHHHHHHhHhCCCCCCcccHHHHHHHHhccCCcHHHHHHHHH
Q 006246           81 SNFELALKVFNSVHK-PNV-FVWNSVLRACLEHNEPWRVISLYSEMVGVDSKPNKFTYPTVFKACSITEADKEGVQVHAH  158 (654)
Q Consensus        81 g~~~~A~~~f~~~~~-~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  158 (654)
                      ...++...+++.-+. |-. ..-..-+..+.+.+++...+..+.     ..+++...-.....+....|+.+.|......
T Consensus        53 ~~~~~i~~Fl~~~p~~P~~~~lr~~~l~~L~~~~~w~~~~~~~~-----~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~  127 (450)
T d1qsaa1          53 QPAVTVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSP-----EKPGTTEAQCNYYYAKWNTGQSEEAWQGAKE  127 (450)
T ss_dssp             CCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCC-----SCCSSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhccCHHHHHHhcc-----CCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            455666666665442 111 112223455667777665444331     1122333333455566677777777776666


Q ss_pred             HHHhCCCCChhhHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHHcCCHHHHHHHHHhcCCCCcchHHHHHH
Q 006246          159 VVKNGLCGDVHVKSSGIQMYACFGCVNKARQILDDGSKSDVICWNALIDGYLKCGDIEGAKELFKSTKDKNTGSYNAMIS  238 (654)
Q Consensus       159 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~li~  238 (654)
                      +-..| ...+.....+...+.+.|.             .+...+-.-+......|+...|..++..+...........+.
T Consensus       128 lW~~~-~~~p~~c~~l~~~~~~~~~-------------lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~  193 (450)
T d1qsaa1         128 LWLTG-KSQPNACDKLFSVWRASGK-------------QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIIS  193 (450)
T ss_dssp             HHSCS-SCCCTHHHHHHHHHHHTTC-------------SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHH
T ss_pred             HHhcC-CCCchHHHHHHHHHHhcCC-------------CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHH
Confidence            65554 2334444555554443333             233333344556677888888888888776655555666666


Q ss_pred             HHHhcCCHHHHHHHHHhcCCCCHhHHHHHHHHHHh--cCChHHHHHHHHHHHhCCCCCCcchHHHHHHHH----HhcCCh
Q 006246          239 GFARFGRFEEARKLFNEMNDKDEITWSAIIDGYTK--DGYYKEALEVFNEMQRDKIKPRKFVLSCVLAAC----ASLGAL  312 (654)
Q Consensus       239 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~----~~~g~~  312 (654)
                      ....-..+..   ..... ..+......+..++.+  ..+.+.|..++....... ..+......+-...    ...+..
T Consensus       194 l~~~p~~~~~---~~~~~-~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~  268 (450)
T d1qsaa1         194 LANNPNTVLT---FARTT-GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVT  268 (450)
T ss_dssp             HHHCGGGHHH---HHHHS-CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCC
T ss_pred             HHhChHhHHH---HHhcC-CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcc-cccHHHHHHHHHHHHHHHHHcCch
Confidence            5544333333   22222 2233333333333333  357888888888876643 22222222222222    334566


Q ss_pred             hHHHHHHHHHHHcCCCCchhHHHHHHHHHHHcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHh
Q 006246          313 DQGIWIHDHVKRNSICVDAVLGTALVDMYAKCGRLDMAWKVFEDMKMK---EVFTWNAMIGGLAMHGRADDAIELFFKMQ  389 (654)
Q Consensus       313 ~~a~~~~~~~~~~~~~~~~~~~~~li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~  389 (654)
                      +.+..........+.  +.......+......+++..+...|..|...   .....-=+..++...|+.++|..+|....
T Consensus       269 ~~a~~~~~~~~~~~~--~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a  346 (450)
T d1qsaa1         269 DEQAKWRDDAIMRSQ--STSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLM  346 (450)
T ss_dssp             HHHHHHHHHHHHTCC--CHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccccc--chHHHHHHHHHHHHcCChHHHHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHh
Confidence            777777766665543  3444445566667789999999999998753   22233446688889999999999999886


Q ss_pred             hcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCC-cch-----HHHHHHHHHHcCCHHHHHHHHHhCCCCC
Q 006246          390 REKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPE-VEH-----YGCIVDLLGRAGYLAEAEEVISSMPMEP  463 (654)
Q Consensus       390 ~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~-~~~-----~~~li~~~~~~g~~~~A~~~~~~m~~~p  463 (654)
                      ..   +   +|...+.+- +.|..-.       +.. ....++ ...     -..-+..+...|+..+|...+..+-...
T Consensus       347 ~~---~---~fYG~LAa~-~Lg~~~~-------~~~-~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~  411 (450)
T d1qsaa1         347 QQ---R---GFYPMVAAQ-RIGEEYE-------LKI-DKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK  411 (450)
T ss_dssp             TS---C---SHHHHHHHH-HTTCCCC-------CCC-CCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cC---C---ChHHHHHHH-HcCCCCC-------CCc-CCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC
Confidence            42   3   355555432 2221100       000 000000 011     1123566778999999999887663334


Q ss_pred             CHHHHHHHHHHHHHhCChHHHHHHHHHH
Q 006246          464 NAAVWEALLGACRKHGEVEFGERLGKIL  491 (654)
Q Consensus       464 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~  491 (654)
                      +......+.....+.|.++.|+....+.
T Consensus       412 ~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         412 SKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            6667778888899999999999887765

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=83.57  E-value=3.8  Score=29.45  Aligned_cols=64  Identities=14%  Similarity=0.193  Sum_probs=52.2

Q ss_pred             ChhHHHHHHHHHhhcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHHcCCCCCcchHHHHHHH
Q 006246          377 RADDAIELFFKMQREKMRPDRITFACVLSACAHAGMIDRGLQALTYMQQMYGIDPEVEHYGCIVDL  442 (654)
Q Consensus       377 ~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~~~~~~g~~p~~~~~~~li~~  442 (654)
                      +.-++.+-+..+....+-|+.....+.+.||.+.+++..|.++|+.++.+.  .++...|..+++-
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~--~~~k~~y~yilqe   84 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQE   84 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCcHHHHHHHHHH
Confidence            455667777777788889999999999999999999999999999998753  3456678777653