Citrus Sinensis ID: 039695

---

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-----
Protein Sequence
MKKSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW
Secondary Structure (PSIPRED)
ccccHHccccHHHHHHHHHHHccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHccccHHHHHHHHcccccccEEEHHHHHHHHHcccccHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccEEHHHHHHHHHcccccHHHHHHHHHHHHccccccccEEHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHHHHcHHccccccccccHHHHHHHHHccccHHHHHHHHHHccccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHccccHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHHccEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHccccHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccccEHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEccccccHHHHHHHHHHHHHHHHHHccccccccEEEEEcccHHHHHHHHHHcHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEccccccEcccccEcccccc
Coil and Loop (DISEMBL)
MKKSLTRNLIFTLAASSLtrqnkrsschtKAHFIQQLQECKHLISLASVHSEIlksgflsntfTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLgnlvwpneFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMygkcndvdgARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFnyqsrdrpnqHMLASVINACASLGrlvsgkvahgVVVRSGCEFNDVVASALVDMYAkcgsvnysdkvfnrisnpsvvtYTSMIVGAAKYGLGRFSLDLFNEMIsrgikpndvtFVGVLHacshsglvdeGIQHLDSMYRkygiipdakhYTCVVDMLGRTGRLDEAYKLAKSiqvdpdggpllwGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMkrtgihkepgcswveirDQTYAFYAGNALFERGSEVLSLLRELERKMKergyvggktglVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIverdfvvrdvnrfhhfrngscscgdfw
Flexible Loop (DISEMBL)
MKKSLTRNLIFTlaassltrqnkRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKsiqvdpdggpLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKmkergyvggktglvfVDVEDEAREEIVGLHserlalafglisipkGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRfhhfrngscscgdfw
Low Complexity Region (SEG)
MKKSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFergsevlsllrelerKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW
Disordered region (IsUnstruct)
*******NLIFTLAA***********CHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQS****NQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCG***
Disordered Region (DISOPRED)
MKKSLT*NLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW
Disordered Region (DISEMBL)
MKKSLTRNLIFTLAASS************KAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW
Disordered Region (DISPRO)
MKKSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKKSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	605	2.2.26 [Sep-21-2011]
Q8VYH0	616	Pentatricopeptide repeat-	yes	no	1.0	0.982	0.579	0.0
Q9STF3	657	Pentatricopeptide repeat-	no	no	0.930	0.856	0.398	1e-122
Q9LW63	715	Putative pentatricopeptid	no	no	0.990	0.837	0.359	1e-121
O82380	738	Pentatricopeptide repeat-	no	no	0.952	0.780	0.371	1e-119
Q9LIC3	628	Putative pentatricopeptid	no	no	0.914	0.880	0.404	1e-118
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.945	0.824	0.388	1e-117
Q9LIQ7	633	Pentatricopeptide repeat-	no	no	0.928	0.887	0.388	1e-117
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.922	0.689	0.400	1e-117
O23169	691	Pentatricopeptide repeat-	no	no	0.932	0.816	0.382	1e-116
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.877	0.679	0.378	1e-115

>sp|Q8VYH0|PP313_ARATH Pentatricopeptide repeat-containing protein At4g15720 OS=Arabidopsis thaliana GN=PCMP-H1 PE=2 SV=1

 Score =  716 bits (1847), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 357/616 (57%), Positives = 460/616 (74%), Gaps = 11/616 (1%)

Query: 1   MKKSLTRNLIFTLAASSLTRQNKRSSCH--TKAHFIQQLQECKHLISLASVHSEILKSGF 58
           MKK   +N+    A S    Q K    H  TKA  + +L E  +      +H+  LK GF
Sbjct: 1   MKKGFIQNVHLAPATSLFVPQYKNDFFHLKTKAFLVHKLSESTNAAFTNLLHTLTLKLGF 60

Query: 59  LSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQK 118
            S+TFT+NHL+  YV+LK+   AR+LFDEM EPNVVS+TS+++GY +MG+PQ AL +FQK
Sbjct: 61  ASDTFTVNHLVISYVKLKEINTARKLFDEMCEPNVVSWTSVISGYNDMGKPQNALSMFQK 120

Query: 119 MLGNL-VWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCN 177
           M  +  V PNE+TFA+V KACS LA+   GK IH  +E  G + N+VV SSLVDMYGKCN
Sbjct: 121 MHEDRPVPPNEYTFASVFKACSALAESRIGKNIHARLEISGLRRNIVVSSSLVDMYGKCN 180

Query: 178 DVDGARRVFDLM--GCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQ-SRDRPNQHMLA 234
           DV+ ARRVFD M    RNVVSWTS+I A+AQNA+GHEA+E+FR FN   + DR NQ MLA
Sbjct: 181 DVETARRVFDSMIGYGRNVVSWTSMITAYAQNARGHEAIELFRSFNAALTSDRANQFMLA 240

Query: 235 SVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP 294
           SVI+AC+SLGRL  GKVAHG+V R G E N VVA++L+DMYAKCGS++ ++K+F RI   
Sbjct: 241 SVISACSSLGRLQWGKVAHGLVTRGGYESNTVVATSLLDMYAKCGSLSCAEKIFLRIRCH 300

Query: 295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHL 354
           SV++YTSMI+  AK+GLG  ++ LF+EM++  I PN VT +GVLHACSHSGLV+EG+++L
Sbjct: 301 SVISYTSMIMAKAKHGLGEAAVKLFDEMVAGRINPNYVTLLGVLHACSHSGLVNEGLEYL 360

Query: 355 DSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLH 414
             M  KYG++PD++HYTCVVDMLGR GR+DEAY+LAK+I+V  + G LLWG LLSA RLH
Sbjct: 361 SLMAEKYGVVPDSRHYTCVVDMLGRFGRVDEAYELAKTIEVGAEQGALLWGALLSAGRLH 420

Query: 415 GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSW 474
           GRV+I  EAS +LI+SNQQV +AY+ LSN YA++G WE+  SLR EMKR+G  KE  CSW
Sbjct: 421 GRVEIVSEASKRLIQSNQQVTSAYIALSNAYAVSGGWEDSESLRLEMKRSGNVKERACSW 480

Query: 475 VEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVG-----GKTGLVFVDVEDEA 529
           +E +D  Y F+AG+   +   E+   L++LE++MKERG+ G       +  VFVDV++EA
Sbjct: 481 IENKDSVYVFHAGDLSCDESGEIERFLKDLEKRMKERGHRGSSSMITTSSSVFVDVDEEA 540

Query: 530 REEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVN 589
           ++E+V LH ERLALA+GL+ +P G TIRIM NLRMCRDCH+ FKLIS+IVER+ VVRDVN
Sbjct: 541 KDEMVSLHCERLALAYGLLHLPAGSTIRIMNNLRMCRDCHEAFKLISEIVEREIVVRDVN 600

Query: 590 RFHHFRNGSCSCGDFW 605
           RFH F+NGSC+C D+W
Sbjct: 601 RFHCFKNGSCTCRDYW 616

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STF3|PP265_ARATH Pentatricopeptide repeat-containing protein At3g46790, chloroplastic OS=Arabidopsis thaliana GN=CRR2 PE=2 SV=1

 Score =  438 bits (1127), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 229/574 (39%), Positives = 343/574 (59%), Gaps = 11/574 (1%)

Query: 40  CKHLISLAS---VHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSY 96
           C H  SL+    VH  IL +G   + F    LI  Y  L     AR++FD+  +  +  +
Sbjct: 87  CGHRSSLSDALRVHRHILDNGSDQDPFLATKLIGMYSDLGSVDYARKVFDKTRKRTIYVW 146

Query: 97  TSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKAC----SMLADLITGKQIHT 152
            +L       G  +  L L+ KM    V  + FT+  V+KAC      +  L+ GK+IH 
Sbjct: 147 NALFRALTLAGHGEEVLGLYWKMNRIGVESDRFTYTYVLKACVASECTVNHLMKGKEIHA 206

Query: 153 HIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHE 212
           H+   G+  ++ + ++LVDMY +   VD A  VF  M  RNVVSW+++I  +A+N +  E
Sbjct: 207 HLTRRGYSSHVYIMTTLVDMYARFGCVDYASYVFGGMPVRNVVSWSAMIACYAKNGKAFE 266

Query: 213 ALEMFREFNYQSRDR-PNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASAL 271
           AL  FRE   +++D  PN   + SV+ ACASL  L  GK+ HG ++R G +    V SAL
Sbjct: 267 ALRTFREMMRETKDSSPNSVTMVSVLQACASLAALEQGKLIHGYILRRGLDSILPVISAL 326

Query: 272 VDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND 331
           V MY +CG +    +VF+R+ +  VV++ S+I     +G G+ ++ +F EM++ G  P  
Sbjct: 327 VTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISSYGVHGYGKKAIQIFEEMLANGASPTP 386

Query: 332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAK 391
           VTFV VL ACSH GLV+EG +  ++M+R +GI P  +HY C+VD+LGR  RLDEA K+ +
Sbjct: 387 VTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKPQIEHYACMVDLLGRANRLDEAAKMVQ 446

Query: 392 SIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEW 451
            ++ +P  GP +WG+LL + R+HG V++A  AS +L     + A  YV L++ YA A  W
Sbjct: 447 DMRTEP--GPKVWGSLLGSCRIHGNVELAERASRRLFALEPKNAGNYVLLADIYAEAQMW 504

Query: 452 ENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKER 511
           + V  ++  ++  G+ K PG  W+E+R + Y+F + +       ++ + L +L   MKE+
Sbjct: 505 DEVKRVKKLLEHRGLQKLPGRCWMEVRRKMYSFVSVDEFNPLMEQIHAFLVKLAEDMKEK 564

Query: 512 GYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDV 571
           GY+    G+++ ++E E +E IV  HSE+LALAFGLI+  KG  IRI KNLR+C DCH  
Sbjct: 565 GYIPQTKGVLY-ELETEEKERIVLGHSEKLALAFGLINTSKGEPIRITKNLRLCEDCHLF 623

Query: 572 FKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
            K IS  +E++ +VRDVNRFH F+NG CSCGD+W
Sbjct: 624 TKFISKFMEKEILVRDVNRFHRFKNGVCSCGDYW 657

Required for the intergenic processing between chloroplast rsp7 and ndhB transcripts.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW63|PP251_ARATH Putative pentatricopeptide repeat-containing protein At3g23330 OS=Arabidopsis thaliana GN=PCMP-H32 PE=3 SV=1

 Score =  436 bits (1122), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 231/642 (35%), Positives = 366/642 (57%), Gaps = 43/642 (6%)

Query: 3   KSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISL---ASVHSEILKSGFL 59
           +  T   +F+ A +S         C     F   L+ C  ++ L    SVH  I++ G  
Sbjct: 78  RCFTDQSLFSKALASFVEMRASGRCPDHNVFPSVLKSCTMMMDLRFGESVHGFIVRLGMD 137

Query: 60  SNTFTLNHLINCYVRL----KKTQVA--------------------------------RQ 83
            + +T N L+N Y +L     K  V                                 R+
Sbjct: 138 CDLYTGNALMNMYAKLLGMGSKISVGNVFDEMPQRTSNSGDEDVKAETCIMPFGIDSVRR 197

Query: 84  LFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLAD 143
           +F+ M   +VVSY +++AGY   G  + AL + ++M    + P+ FT ++V+   S   D
Sbjct: 198 VFEVMPRKDVVSYNTIIAGYAQSGMYEDALRMVREMGTTDLKPDSFTLSSVLPIFSEYVD 257

Query: 144 LITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVA 203
           +I GK+IH ++   G   ++ + SSLVDMY K   ++ + RVF  + CR+ +SW S++  
Sbjct: 258 VIKGKEIHGYVIRKGIDSDVYIGSSLVDMYAKSARIEDSERVFSRLYCRDGISWNSLVAG 317

Query: 204 HAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEF 263
           + QN + +EAL +FR+    ++ +P     +SVI ACA L  L  GK  HG V+R G   
Sbjct: 318 YVQNGRYNEALRLFRQM-VTAKVKPGAVAFSSVIPACAHLATLHLGKQLHGYVLRGGFGS 376

Query: 264 NDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMI 323
           N  +ASALVDMY+KCG++  + K+F+R++    V++T++I+G A +G G  ++ LF EM 
Sbjct: 377 NIFIASALVDMYSKCGNIKAARKIFDRMNVLDEVSWTAIIMGHALHGHGHEAVSLFEEMK 436

Query: 324 SRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRL 383
            +G+KPN V FV VL ACSH GLVDE   + +SM + YG+  + +HY  V D+LGR G+L
Sbjct: 437 RQGVKPNQVAFVAVLTACSHVGLVDEAWGYFNSMTKVYGLNQELEHYAAVADLLGRAGKL 496

Query: 384 DEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSN 443
           +EAY     + V+P G   +W TLLS+  +H  +++A + + ++   + +   AYV + N
Sbjct: 497 EEAYNFISKMCVEPTGS--VWSTLLSSCSVHKNLELAEKVAEKIFTVDSENMGAYVLMCN 554

Query: 444 TYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRE 503
            YA  G W+ +  LR  M++ G+ K+P CSW+E++++T+ F +G+       ++   L+ 
Sbjct: 555 MYASNGRWKEMAKLRLRMRKKGLRKKPACSWIEMKNKTHGFVSGDRSHPSMDKINEFLKA 614

Query: 504 LERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLR 563
           +  +M++ GYV   +G V  DV++E + E++  HSERLA+AFG+I+   G TIR+ KN+R
Sbjct: 615 VMEQMEKEGYVADTSG-VLHDVDEEHKRELLFGHSERLAVAFGIINTEPGTTIRVTKNIR 673

Query: 564 MCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
           +C DCH   K IS I ER+ +VRD +RFHHF  G+CSCGD+W
Sbjct: 674 ICTDCHVAIKFISKITEREIIVRDNSRFHHFNRGNCSCGDYW 715

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 =  428 bits (1100), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 226/609 (37%), Positives = 341/609 (55%), Gaps = 33/609 (5%)

Query: 28  HTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDE 87
           +T    I+   E   L    S+H   +KS   S+ F  N LI+CY        A ++F  
Sbjct: 132 YTFPFLIKAAAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGDLDSACKVFTT 191

Query: 88  MLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITG 147
           + E +VVS+ S++ G++  G P  AL LF+KM    V  +  T   V+ AC+ + +L  G
Sbjct: 192 IKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSACAKIRNLEFG 251

Query: 148 KQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDL------------------- 188
           +Q+ ++IE      NL + ++++DMY KC  ++ A+R+FD                    
Sbjct: 252 RQVCSYIEENRVNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDNVTWTTMLDGYAIS 311

Query: 189 ------------MGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASV 236
                       M  +++V+W ++I A+ QN + +EAL +F E   Q   + NQ  L S 
Sbjct: 312 EDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNMKLNQITLVST 371

Query: 237 INACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV 296
           ++ACA +G L  G+  H  + + G   N  V SAL+ MY+KCG +  S +VFN +    V
Sbjct: 372 LSACAQVGALELGRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKSREVFNSVEKRDV 431

Query: 297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDS 356
             +++MI G A +G G  ++D+F +M    +KPN VTF  V  ACSH+GLVDE       
Sbjct: 432 FVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEAESLFHQ 491

Query: 357 MYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGR 416
           M   YGI+P+ KHY C+VD+LGR+G L++A K  +++ + P     +WG LL A ++H  
Sbjct: 492 MESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTS--VWGALLGACKIHAN 549

Query: 417 VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVE 476
           +++A  A  +L+E   +   A+V LSN YA  G+WENV  LR  M+ TG+ KEPGCS +E
Sbjct: 550 LNLAEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVTGLKKEPGCSSIE 609

Query: 477 IRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGL 536
           I    + F +G+       +V   L E+  K+K  GY    + ++ +  E+E +E+ + L
Sbjct: 610 IDGMIHEFLSGDNAHPMSEKVYGKLHEVMEKLKSNGYEPEISQVLQIIEEEEMKEQSLNL 669

Query: 537 HSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRN 596
           HSE+LA+ +GLIS      IR++KNLR+C DCH V KLIS + +R+ +VRD  RFHHFRN
Sbjct: 670 HSEKLAICYGLISTEAPKVIRVIKNLRVCGDCHSVAKLISQLYDREIIVRDRYRFHHFRN 729

Query: 597 GSCSCGDFW 605
           G CSC DFW
Sbjct: 730 GQCSCNDFW 738

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LIC3|PP227_ARATH Putative pentatricopeptide repeat-containing protein At3g13770, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H85 PE=3 SV=1

 Score =  425 bits (1093), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 226/559 (40%), Positives = 341/559 (61%), Gaps = 6/559 (1%)

Query: 49  VHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQ 108
           VH+ ++K+ +L  T+    L+  Y +    + AR++ DEM E NVVS+T++++ Y   G 
Sbjct: 74  VHAHMIKTRYLPATYLRTRLLIFYGKCDCLEDARKVLDEMPEKNVVSWTAMISRYSQTGH 133

Query: 109 PQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSS 168
              AL +F +M+ +   PNEFTFATV+ +C   + L  GKQIH  I  + +  ++ V SS
Sbjct: 134 SSEALTVFAEMMRSDGKPNEFTFATVLTSCIRASGLGLGKQIHGLIVKWNYDSHIFVGSS 193

Query: 169 LVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRP 228
           L+DMY K   +  AR +F+ +  R+VVS T+II  +AQ     EALEMF   + +    P
Sbjct: 194 LLDMYAKAGQIKEAREIFECLPERDVVSCTAIIAGYAQLGLDEEALEMFHRLHSEGMS-P 252

Query: 229 NQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVF 288
           N    AS++ A + L  L  GK AH  V+R    F  V+ ++L+DMY+KCG+++Y+ ++F
Sbjct: 253 NYVTYASLLTALSGLALLDHGKQAHCHVLRRELPFYAVLQNSLIDMYSKCGNLSYARRLF 312

Query: 289 NRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEM-ISRGIKPNDVTFVGVLHACSHSGLV 347
           + +   + +++ +M+VG +K+GLGR  L+LF  M   + +KP+ VT + VL  CSH  + 
Sbjct: 313 DNMPERTAISWNAMLVGYSKHGLGREVLELFRLMRDEKRVKPDAVTLLAVLSGCSHGRME 372

Query: 348 DEGIQHLDSMYR-KYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGT 406
           D G+   D M   +YG  P  +HY C+VDMLGR GR+DEA++  K +   P  G L  G+
Sbjct: 373 DTGLNIFDGMVAGEYGTKPGTEHYGCIVDMLGRAGRIDEAFEFIKRMPSKPTAGVL--GS 430

Query: 407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI 466
           LL A R+H  VDI      +LIE   + A  YV LSN YA AG W +V+++R+ M +  +
Sbjct: 431 LLGACRVHLSVDIGESVGRRLIEIEPENAGNYVILSNLYASAGRWADVNNVRAMMMQKAV 490

Query: 467 HKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVE 526
            KEPG SW++     + F+A +    R  EVL+ ++E+  KMK+ GYV      V  DV+
Sbjct: 491 TKEPGRSWIQHEQTLHYFHANDRTHPRREEVLAKMKEISIKMKQAGYV-PDLSCVLYDVD 549

Query: 527 DEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVR 586
           +E +E+++  HSE+LAL FGLI+  +GI IR+ KNLR+C DCH+  K+ S + ER+  +R
Sbjct: 550 EEQKEKMLLGHSEKLALTFGLIATGEGIPIRVFKNLRICVDCHNFAKIFSKVFEREVSLR 609

Query: 587 DVNRFHHFRNGSCSCGDFW 605
           D NRFH   +G CSCGD+W
Sbjct: 610 DKNRFHQIVDGICSCGDYW 628

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTV8|PP224_ARATH Pentatricopeptide repeat-containing protein At3g12770 OS=Arabidopsis thaliana GN=PCMP-H43 PE=2 SV=1

 Score =  423 bits (1088), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 225/579 (38%), Positives = 336/579 (58%), Gaps = 7/579 (1%)

Query: 29  TKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEM 88
           T  H ++      HL     VH+++ + GF ++ F  N LI  Y + ++   AR +F+ +
Sbjct: 121 TFPHLLKACSGLSHLQMGRFVHAQVFRLGFDADVFVQNGLIALYAKCRRLGSARTVFEGL 180

Query: 89  LEP--NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLIT 146
             P   +VS+T++++ Y   G+P  AL +F +M    V P+     +V+ A + L DL  
Sbjct: 181 PLPERTIVSWTAIVSAYAQNGEPMEALEIFSQMRKMDVKPDWVALVSVLNAFTCLQDLKQ 240

Query: 147 GKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQ 206
           G+ IH  +   G +    +  SL  MY KC  V  A+ +FD M   N++ W ++I  +A+
Sbjct: 241 GRSIHASVVKMGLEIEPDLLISLNTMYAKCGQVATAKILFDKMKSPNLILWNAMISGYAK 300

Query: 207 NAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDV 266
           N    EA++MF E       RP+   + S I+ACA +G L   +  +  V RS    +  
Sbjct: 301 NGYAREAIDMFHEM-INKDVRPDTISITSAISACAQVGSLEQARSMYEYVGRSDYRDDVF 359

Query: 267 VASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRG 326
           ++SAL+DM+AKCGSV  +  VF+R  +  VV +++MIVG   +G  R ++ L+  M   G
Sbjct: 360 ISSALIDMFAKCGSVEGARLVFDRTLDRDVVVWSAMIVGYGLHGRAREAISLYRAMERGG 419

Query: 327 IKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEA 386
           + PNDVTF+G+L AC+HSG+V EG    + M   + I P  +HY CV+D+LGR G LD+A
Sbjct: 420 VHPNDVTFLGLLMACNHSGMVREGWWFFNRM-ADHKINPQQQHYACVIDLLGRAGHLDQA 478

Query: 387 YKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYA 446
           Y++ K + V P  G  +WG LLSA + H  V++   A+ QL   +      YV LSN YA
Sbjct: 479 YEVIKCMPVQP--GVTVWGALLSACKKHRHVELGEYAAQQLFSIDPSNTGHYVQLSNLYA 536

Query: 447 LAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELER 506
            A  W+ V  +R  MK  G++K+ GCSWVE+R +  AF  G+    R  E+   +  +E 
Sbjct: 537 AARLWDRVAEVRVRMKEKGLNKDVGCSWVEVRGRLEAFRVGDKSHPRYEEIERQVEWIES 596

Query: 507 KMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCR 566
           ++KE G+V  K   +  D+ DE  EE +  HSER+A+A+GLIS P+G  +RI KNLR C 
Sbjct: 597 RLKEGGFVANKDASLH-DLNDEEAEETLCSHSERIAIAYGLISTPQGTPLRITKNLRACV 655

Query: 567 DCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
           +CH   KLIS +V+R+ VVRD NRFHHF++G CSCGD+W
Sbjct: 656 NCHAATKLISKLVDREIVVRDTNRFHHFKDGVCSCGDYW 694

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LIQ7|PP252_ARATH Pentatricopeptide repeat-containing protein At3g24000, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H87 PE=2 SV=1

 Score =  422 bits (1086), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 223/574 (38%), Positives = 343/574 (59%), Gaps = 12/574 (2%)

Query: 37  LQEC---KHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNV 93
           L++C   K LI    VH+ IL+S F  +    N L+N Y +    + AR++F++M + + 
Sbjct: 67  LKKCTVFKLLIQGRIVHAHILQSIFRHDIVMGNTLLNMYAKCGSLEEARKVFEKMPQRDF 126

Query: 94  VSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTH 153
           V++T+L++GY    +P  ALL F +ML     PNEFT ++VIKA +       G Q+H  
Sbjct: 127 VTWTTLISGYSQHDRPCDALLFFNQMLRFGYSPNEFTLSSVIKAAAAERRGCCGHQLHGF 186

Query: 154 IETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEA 213
               GF  N+ V S+L+D+Y +   +D A+ VFD +  RN VSW ++I  HA+ +   +A
Sbjct: 187 CVKCGFDSNVHVGSALLDLYTRYGLMDDAQLVFDALESRNDVSWNALIAGHARRSGTEKA 246

Query: 214 LEMFREFNYQSRD--RPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASAL 271
           LE+F+      RD  RP+    AS+  AC+S G L  GK  H  +++SG +      + L
Sbjct: 247 LELFQGM---LRDGFRPSHFSYASLFGACSSTGFLEQGKWVHAYMIKSGEKLVAFAGNTL 303

Query: 272 VDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND 331
           +DMYAK GS++ + K+F+R++   VV++ S++   A++G G+ ++  F EM   GI+PN+
Sbjct: 304 LDMYAKSGSIHDARKIFDRLAKRDVVSWNSLLTAYAQHGFGKEAVWWFEEMRRVGIRPNE 363

Query: 332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAK 391
           ++F+ VL ACSHSGL+DEG  + + M +K GI+P+A HY  VVD+LGR G L+ A +  +
Sbjct: 364 ISFLSVLTACSHSGLLDEGWHYYELM-KKDGIVPEAWHYVTVVDLLGRAGDLNRALRFIE 422

Query: 392 SIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEW 451
            + ++P     +W  LL+A R+H   ++   A+  + E +      +V L N YA  G W
Sbjct: 423 EMPIEPTAA--IWKALLNACRMHKNTELGAYAAEHVFELDPDDPGPHVILYNIYASGGRW 480

Query: 452 ENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKER 511
            +   +R +MK +G+ KEP CSWVEI +  + F A +    +  E+     E+  K+KE 
Sbjct: 481 NDAARVRKKMKESGVKKEPACSWVEIENAIHMFVANDERHPQREEIARKWEEVLAKIKEL 540

Query: 512 GYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDV 571
           GYV   T  V V V+ + RE  +  HSE++ALAF L++ P G TI I KN+R+C DCH  
Sbjct: 541 GYV-PDTSHVIVHVDQQEREVNLQYHSEKIALAFALLNTPPGSTIHIKKNIRVCGDCHTA 599

Query: 572 FKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
            KL S +V R+ +VRD NRFHHF++G+CSC D+W
Sbjct: 600 IKLASKVVGREIIVRDTNRFHHFKDGNCSCKDYW 633

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290 OS=Arabidopsis thaliana GN=PCMP-H40 PE=2 SV=1

 Score =  421 bits (1083), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 226/564 (40%), Positives = 335/564 (59%), Gaps = 6/564 (1%)

Query: 43  LISLA-SVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMA 101
           LIS+   +H   ++SGF S       L++ Y +    + ARQLFD MLE NVVS+ S++ 
Sbjct: 251 LISVGKEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMID 310

Query: 102 GYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQY 161
            Y+    P+ A+L+FQKML   V P + +    + AC+ L DL  G+ IH      G   
Sbjct: 311 AYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDR 370

Query: 162 NLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFN 221
           N+ V +SL+ MY KC +VD A  +F  +  R +VSW ++I+  AQN +  +AL  F +  
Sbjct: 371 NVSVVNSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMR 430

Query: 222 YQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSV 281
            ++  +P+     SVI A A L      K  HGVV+RS  + N  V +ALVDMYAKCG++
Sbjct: 431 SRTV-KPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAI 489

Query: 282 NYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHAC 341
             +  +F+ +S   V T+ +MI G   +G G+ +L+LF EM    IKPN VTF+ V+ AC
Sbjct: 490 MIARLIFDMMSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISAC 549

Query: 342 SHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGP 401
           SHSGLV+ G++    M   Y I     HY  +VD+LGR GRL+EA+     + V P    
Sbjct: 550 SHSGLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVN- 608

Query: 402 LLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEM 461
            ++G +L A ++H  V+ A +A+ +L E N      +V L+N Y  A  WE V  +R  M
Sbjct: 609 -VYGAMLGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSM 667

Query: 462 KRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLV 521
            R G+ K PGCS VEI+++ ++F++G+       ++ + L +L   +KE GYV   T LV
Sbjct: 668 LRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDSKKIYAFLEKLICHIKEAGYV-PDTNLV 726

Query: 522 FVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVER 581
            + VE++ +E+++  HSE+LA++FGL++   G TI + KNLR+C DCH+  K IS +  R
Sbjct: 727 -LGVENDVKEQLLSTHSEKLAISFGLLNTTAGTTIHVRKNLRVCADCHNATKYISLVTGR 785

Query: 582 DFVVRDVNRFHHFRNGSCSCGDFW 605
           + VVRD+ RFHHF+NG+CSCGD+W
Sbjct: 786 EIVVRDMQRFHHFKNGACSCGDYW 809

Arabidopsis thaliana (taxid: 3702)

>sp|O23169|PP353_ARATH Pentatricopeptide repeat-containing protein At4g37170 OS=Arabidopsis thaliana GN=PCMP-H5 PE=3 SV=1

 Score =  420 bits (1080), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 220/575 (38%), Positives = 337/575 (58%), Gaps = 11/575 (1%)

Query: 33  FIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPN 92
            ++   +C  L+    V  E+      S     N ++N Y  +   + AR+LFDEM E +
Sbjct: 126 LLRMYAKCGSLVDARKVFDEMPNRDLCS----WNVMVNGYAEVGLLEEARKLFDEMTEKD 181

Query: 93  VVSYTSLMAGYINMGQPQIALLLFQKM--LGNLVWPNEFTFATVIKACSMLADLITGKQI 150
             S+T+++ GY+   QP+ AL+L+  M  + N   PN FT +  + A + +  +  GK+I
Sbjct: 182 SYSWTAMVTGYVKKDQPEEALVLYSLMQRVPNSR-PNIFTVSIAVAAAAAVKCIRRGKEI 240

Query: 151 HTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQG 210
           H HI   G   + V+ SSL+DMYGKC  +D AR +FD +  ++VVSWTS+I  + ++++ 
Sbjct: 241 HGHIVRAGLDSDEVLWSSLMDMYGKCGCIDEARNIFDKIVEKDVVSWTSMIDRYFKSSRW 300

Query: 211 HEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASA 270
            E   +F E    S +RPN++  A V+NACA L     GK  HG + R G +     +S+
Sbjct: 301 REGFSLFSEL-VGSCERPNEYTFAGVLNACADLTTEELGKQVHGYMTRVGFDPYSFASSS 359

Query: 271 LVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN 330
           LVDMY KCG++  +  V +    P +V++TS+I G A+ G    +L  F+ ++  G KP+
Sbjct: 360 LVDMYTKCGNIESAKHVVDGCPKPDLVSWTSLIGGCAQNGQPDEALKYFDLLLKSGTKPD 419

Query: 331 DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLA 390
            VTFV VL AC+H+GLV++G++   S+  K+ +   + HYTC+VD+L R+GR ++   + 
Sbjct: 420 HVTFVNVLSACTHAGLVEKGLEFFYSITEKHRLSHTSDHYTCLVDLLARSGRFEQLKSVI 479

Query: 391 KSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE 450
             + + P     LW ++L     +G +D+A EA+ +L +   +    YVT++N YA AG+
Sbjct: 480 SEMPMKP--SKFLWASVLGGCSTYGNIDLAEEAAQELFKIEPENPVTYVTMANIYAAAGK 537

Query: 451 WENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKE 510
           WE    +R  M+  G+ K PG SW EI+ + + F A +      ++++  LREL +KMKE
Sbjct: 538 WEEEGKMRKRMQEIGVTKRPGSSWTEIKRKRHVFIAADTSHPMYNQIVEFLRELRKKMKE 597

Query: 511 RGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHD 570
            GYV   T LV  DVEDE +EE +  HSE+LA+AF ++S  +G  I++ KNLR C DCH 
Sbjct: 598 EGYVPA-TSLVLHDVEDEQKEENLVYHSEKLAVAFAILSTEEGTAIKVFKNLRSCVDCHG 656

Query: 571 VFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
             K IS+I +R   VRD  RFH F NG CSCGD+W
Sbjct: 657 AIKFISNITKRKITVRDSTRFHCFENGQCSCGDYW 691

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY02|PP301_ARATH Pentatricopeptide repeat-containing protein At4g02750 OS=Arabidopsis thaliana GN=PCMP-H24 PE=3 SV=1

 Score =  416 bits (1068), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 207/547 (37%), Positives = 332/547 (60%), Gaps = 16/547 (2%)

Query: 61  NTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKML 120
           +  + N +I  Y +  K   ARQLFDE    +V ++T++++GYI     + A  LF KM 
Sbjct: 249 DVVSWNTIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMP 308

Query: 121 GNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQ--YNLVVCSSLVDMYGKCND 178
                 NE ++       +MLA  + G+++    E F      N+   ++++  Y +C  
Sbjct: 309 ER----NEVSWN------AMLAGYVQGERMEMAKELFDVMPCRNVSTWNTMITGYAQCGK 358

Query: 179 VDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVIN 238
           +  A+ +FD M  R+ VSW ++I  ++Q+    EAL +F +   +   R N+   +S ++
Sbjct: 359 ISEAKNLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREG-GRLNRSSFSSALS 417

Query: 239 ACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVT 298
            CA +  L  GK  HG +V+ G E    V +AL+ MY KCGS+  ++ +F  ++   +V+
Sbjct: 418 TCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVS 477

Query: 299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMY 358
           + +MI G +++G G  +L  F  M   G+KP+D T V VL ACSH+GLVD+G Q+  +M 
Sbjct: 478 WNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMT 537

Query: 359 RKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVD 418
           + YG++P+++HY C+VD+LGR G L++A+ L K++  +PD    +WGTLL ASR+HG  +
Sbjct: 538 QDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEPDAA--IWGTLLGASRVHGNTE 595

Query: 419 IAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIR 478
           +A  A++++     + +  YV LSN YA +G W +V  LR  M+  G+ K PG SW+EI+
Sbjct: 596 LAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQ 655

Query: 479 DQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHS 538
           ++T+ F  G+       E+ + L EL+ +MK+ GYV  KT +V  DVE+E +E +V  HS
Sbjct: 656 NKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYV-SKTSVVLHDVEEEEKERMVRYHS 714

Query: 539 ERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGS 598
           ERLA+A+G++ +  G  IR++KNLR+C DCH+  K ++ I  R  ++RD NRFHHF++GS
Sbjct: 715 ERLAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGS 774

Query: 599 CSCGDFW 605
           CSCGD+W
Sbjct: 775 CSCGDYW 781

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	605
225432322	606	PREDICTED: pentatricopeptide repeat-cont	1.0	0.998	0.729	0.0
224123200	584	predicted protein [Populus trichocarpa]	0.957	0.991	0.711	0.0
356521885	603	PREDICTED: pentatricopeptide repeat-cont	0.985	0.988	0.680	0.0
297736881	568	unnamed protein product [Vitis vinifera]	0.937	0.998	0.681	0.0
449450898	603	PREDICTED: pentatricopeptide repeat-cont	0.993	0.996	0.659	0.0
449517497	603	PREDICTED: pentatricopeptide repeat-cont	0.993	0.996	0.659	0.0
357478705	589	Pentatricopeptide repeat-containing prot	0.952	0.977	0.654	0.0
297804658	608	pentatricopeptide repeat-containing prot	0.966	0.962	0.603	0.0
22328675	616	pentatricopeptide repeat-containing prot	1.0	0.982	0.579	0.0
2244928	602	hypothetical protein [Arabidopsis thalia	0.976	0.981	0.566	0.0

>gi|225432322|ref|XP_002276230.1| PREDICTED: pentatricopeptide repeat-containing protein At4g15720-like [Vitis vinifera]

 Score =  929 bits (2400), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 442/606 (72%), Positives = 517/606 (85%), Gaps = 1/606 (0%)

Query: 1   MKKSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLS 60
           M K L +NLIF + ++ ++RQNK S  HTK   IQ+LQ+C  + S++  H+ +LKSGFL+
Sbjct: 1   MVKPLNQNLIFRVPSTCISRQNKLSHFHTKTQLIQRLQDCNDITSVSFSHTNVLKSGFLN 60

Query: 61  NTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKML 120
           +TFT NHLIN YVR+++T  A QLF+EM EPNV+S+TSLMAG+I +G+P+ ALL+F KML
Sbjct: 61  DTFTTNHLINSYVRIRRTNDASQLFEEMREPNVISFTSLMAGFIKVGRPKSALLIFCKML 120

Query: 121 GNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVD 180
            + V PN FTFATV+ ACSMLADL TG++IH+H+E FG Q NLVVCSSL+DMYGKCN+VD
Sbjct: 121 ESWVLPNAFTFATVVNACSMLADLRTGQKIHSHVEMFGVQCNLVVCSSLIDMYGKCNNVD 180

Query: 181 GARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINAC 240
            ARRVFD M  RNVVSWTS+I A+ QNA G  AL++FREFN      PN  MLASVINAC
Sbjct: 181 DARRVFDGMDYRNVVSWTSMITAYGQNALGECALQLFREFNGLPLSSPNHFMLASVINAC 240

Query: 241 ASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYT 300
           ASLGRLVSGKVAH  V+R G E NDVVASALVDMYAKCG + YSDKVF RI +PSV+ YT
Sbjct: 241 ASLGRLVSGKVAHAAVIRRGHESNDVVASALVDMYAKCGCIGYSDKVFRRIPDPSVIPYT 300

Query: 301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRK 360
           SMIVGAAKYGLG+FSLD+F EM+ R IKPNDVTFVGVLHACSHSGLVD+G+++L SM++K
Sbjct: 301 SMIVGAAKYGLGKFSLDIFKEMLDRRIKPNDVTFVGVLHACSHSGLVDDGLEYLHSMHKK 360

Query: 361 YGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIA 420
           +G++PD KHYTCVVDMLGRTGRLDEA++LAKSIQV+PD G LLWGTLLSASRL+GRVDIA
Sbjct: 361 HGVVPDTKHYTCVVDMLGRTGRLDEAHQLAKSIQVEPDQGALLWGTLLSASRLYGRVDIA 420

Query: 421 VEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQ 480
           VEAS  LIESNQQVA AYVT+SNTYA+AG+WENVHS+R EMK  G++KEPGCSWVEIRD 
Sbjct: 421 VEASKWLIESNQQVAAAYVTMSNTYAMAGKWENVHSIRYEMKHYGVYKEPGCSWVEIRDS 480

Query: 481 TYAFYAGN-ALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSE 539
            Y FYAG+ +L  RGSEV SLLRELER+MKERGYVGG  GLV +DVE+EA+EEIVGLHSE
Sbjct: 481 AYVFYAGDVSLCARGSEVASLLRELERRMKERGYVGGSRGLVSIDVEEEAKEEIVGLHSE 540

Query: 540 RLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSC 599
           RLALAFGLISIPKG+TIR+MKNLRMCRDCH+ FKLIS+IVERDFVVRDVNRFHHF NGSC
Sbjct: 541 RLALAFGLISIPKGVTIRVMKNLRMCRDCHEAFKLISEIVERDFVVRDVNRFHHFENGSC 600

Query: 600 SCGDFW 605
           +C DFW
Sbjct: 601 TCRDFW 606

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123200|ref|XP_002330363.1| predicted protein [Populus trichocarpa] gi|222871567|gb|EEF08698.1| predicted protein [Populus trichocarpa]

 Score =  877 bits (2265), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 414/582 (71%), Positives = 481/582 (82%), Gaps = 3/582 (0%)

Query: 27  CHTKA---HFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQ 83
           C+ +A   H IQQL+ CK  I   S H+ + K G L++T T NHL+N Y+R ++ Q A  
Sbjct: 3   CYHQARAVHIIQQLKNCKDFIFAISTHANLFKFGLLNDTITTNHLLNSYLRFRRIQYAHH 62

Query: 84  LFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLAD 143
           LFDEM EPNVVS+TSLM+GY+NMG+PQ AL L+ KM  + V PN FT ATVI +CS+LAD
Sbjct: 63  LFDEMHEPNVVSWTSLMSGYVNMGRPQSALWLYTKMSESEVSPNGFTLATVINSCSILAD 122

Query: 144 LITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVA 203
           L TGK +H H++  G Q NLVVCSSLVDMYGKCNDVDGAR VFD M CRNVVSWT++I  
Sbjct: 123 LKTGKMVHAHVQILGLQGNLVVCSSLVDMYGKCNDVDGARMVFDSMSCRNVVSWTAMIAG 182

Query: 204 HAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEF 263
           +AQN +G+EALE+FREF+    +RPN  MLASVINACASLGRLVSGKV HG V+R G E 
Sbjct: 183 YAQNGKGYEALEVFREFSSYMMERPNHFMLASVINACASLGRLVSGKVTHGAVIRGGYEL 242

Query: 264 NDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMI 323
           NDVVASALVDMYAKCGS  YS+KVF RI NPSV+ YTSMIVGAAKYGLG+ SL+LF EM 
Sbjct: 243 NDVVASALVDMYAKCGSFLYSEKVFRRIRNPSVIPYTSMIVGAAKYGLGKLSLNLFEEMT 302

Query: 324 SRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRL 383
            R + PNDVTFVG+LHACSHSGLVDEG++ L+SM+ K+G++PD +HYTCVVDML R GRL
Sbjct: 303 DRKVMPNDVTFVGILHACSHSGLVDEGLRLLNSMHEKHGVMPDVRHYTCVVDMLSRVGRL 362

Query: 384 DEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSN 443
           DEAYKLAKSI+V+P+ G LLWGTLLS+SRLHGRVD+AVEAS  LIE NQQVA AYVTLSN
Sbjct: 363 DEAYKLAKSIRVNPNEGALLWGTLLSSSRLHGRVDMAVEASKWLIEYNQQVAGAYVTLSN 422

Query: 444 TYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRE 503
           TY LAGEWEN HSLR+EM+  G+HKEPGCSW+EI+D  Y FYAG+   ERG EV+SLLRE
Sbjct: 423 TYTLAGEWENAHSLRTEMELVGVHKEPGCSWIEIKDSIYVFYAGDLSCERGDEVISLLRE 482

Query: 504 LERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLR 563
           LER+M ERG VGG TGLVFVDVE E +E+IVGLHSERLALAFGLISIPKG+TIR+MKNLR
Sbjct: 483 LERRMMERGCVGGSTGLVFVDVEQEVKEKIVGLHSERLALAFGLISIPKGVTIRVMKNLR 542

Query: 564 MCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
           +C DCH+ FKLIS IVERDFVVRDVNRFHHF++GSC+C DFW
Sbjct: 543 ICSDCHEAFKLISKIVERDFVVRDVNRFHHFKDGSCTCKDFW 584

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356521885|ref|XP_003529581.1| PREDICTED: pentatricopeptide repeat-containing protein At4g15720-like [Glycine max]

 Score =  855 bits (2209), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 409/601 (68%), Positives = 490/601 (81%), Gaps = 5/601 (0%)

Query: 10  IFTLAASSLTRQNKRSSCH----TKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTL 65
           + T  +SSL+RQ+K S  H    TKAHF+ +LQ CK L S  S HS ++KSG  ++TF  
Sbjct: 3   LVTSLSSSLSRQHKLSLFHFHTNTKAHFVAKLQTCKDLTSATSTHSNVVKSGLSNDTFAT 62

Query: 66  NHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVW 125
           NHLINCY+RL     A++LFDEM   NVVS+TSLMAGY++ GQP +AL LF +M G LV 
Sbjct: 63  NHLINCYLRLFTIDHAQKLFDEMPHRNVVSWTSLMAGYVSQGQPNMALCLFHQMQGTLVL 122

Query: 126 PNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRV 185
           PNEFTFAT+I ACS+LA+L  G++IH  +E  G   NLV CSSL+DMYGKCN VD AR +
Sbjct: 123 PNEFTFATLINACSILANLEIGRRIHALVEVSGLGSNLVACSSLIDMYGKCNHVDEARLI 182

Query: 186 FDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGR 245
           FD M  RNVVSWTS+I  ++QNAQGH AL++F+EFN+   D+PN  ML S ++ACASLG 
Sbjct: 183 FDSMCTRNVVSWTSMITTYSQNAQGHHALQLFKEFNHSRLDKPNHFMLCSAVSACASLGS 242

Query: 246 LVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVG 305
           L SGK+ HGVV+R G E +DV+ASALVDMYAKCG VNYS K+F RI NPSV+ YTSMIVG
Sbjct: 243 LGSGKITHGVVIRLGHEASDVIASALVDMYAKCGCVNYSAKIFRRIQNPSVIPYTSMIVG 302

Query: 306 AAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP 365
           AAKYGLG  SL LF EM+ R IKPND+TFVGVLHACSHSGLVD+G++ LDSM  KYG+ P
Sbjct: 303 AAKYGLGILSLQLFQEMVVRRIKPNDITFVGVLHACSHSGLVDKGLELLDSMDGKYGVTP 362

Query: 366 DAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASN 425
           DAKHYTC+ DMLGR GR++EAY+LAKS+QV+ DG  +LWGTLLSASRL+GRVDIA+EASN
Sbjct: 363 DAKHYTCIADMLGRVGRIEEAYQLAKSVQVEGDGYAMLWGTLLSASRLYGRVDIALEASN 422

Query: 426 QLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFY 485
           +LIESNQQVA AYVTLSN YALAG+WEN H+LRSEMK TG++KEPG SW+EI++ TY F+
Sbjct: 423 RLIESNQQVAGAYVTLSNAYALAGDWENAHNLRSEMKHTGVYKEPGSSWIEIKESTYLFH 482

Query: 486 AGN-ALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALA 544
           AG+ + + +G E+LSLLRELE +MK RGYVGG  GLVFVDVE+EA+EEIV +HSE+LALA
Sbjct: 483 AGDISKYTQGREILSLLRELEERMKGRGYVGGTKGLVFVDVEEEAKEEIVSMHSEKLALA 542

Query: 545 FGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDF 604
           FGLI+ PKG+TIRIMKNLRMCRDCH  FKLISDIVER+ VVRDVNRFHHF+NG C+CGDF
Sbjct: 543 FGLINTPKGVTIRIMKNLRMCRDCHGAFKLISDIVERELVVRDVNRFHHFKNGLCTCGDF 602

Query: 605 W 605
           W
Sbjct: 603 W 603

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736881|emb|CBI26082.3| unnamed protein product [Vitis vinifera]

 Score =  843 bits (2177), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 413/606 (68%), Positives = 482/606 (79%), Gaps = 39/606 (6%)

Query: 1   MKKSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLS 60
           M K L +NLIF + ++ ++RQNK S  HTK   IQ+LQ+C  + S++  H+ +LKSGFL+
Sbjct: 1   MVKPLNQNLIFRVPSTCISRQNKLSHFHTKTQLIQRLQDCNDITSVSFSHTNVLKSGFLN 60

Query: 61  NTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKML 120
           +TFT NHLIN YVR+++T  A QLF+EM EPNV+S+TSLMAG+I +G+P+ ALL+F KML
Sbjct: 61  DTFTTNHLINSYVRIRRTNDASQLFEEMREPNVISFTSLMAGFIKVGRPKSALLIFCKML 120

Query: 121 GNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVD 180
            + V PN FTFATV+ ACSMLADL TG++IH+H+E FG Q NLVVCSSL+DMYGKCN+VD
Sbjct: 121 ESWVLPNAFTFATVVNACSMLADLRTGQKIHSHVEMFGVQCNLVVCSSLIDMYGKCNNVD 180

Query: 181 GARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINAC 240
            ARRVFD M  RNVVSWTS+I A+ QNA G  AL++FREFN      PN  MLASVINAC
Sbjct: 181 DARRVFDGMDYRNVVSWTSMITAYGQNALGECALQLFREFNGLPLSSPNHFMLASVINAC 240

Query: 241 ASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYT 300
           ASLGRLVSGKVAH  V+R G E NDVVASALVDMYAKCG + YSDKVF RI +PSV+ YT
Sbjct: 241 ASLGRLVSGKVAHAAVIRRGHESNDVVASALVDMYAKCGCIGYSDKVFRRIPDPSVIPYT 300

Query: 301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRK 360
           SMIVGAAKYGLG+FSLD+F EM+ R IKPNDVTFVGVLHACSHSGLVD+G+++L SM++K
Sbjct: 301 SMIVGAAKYGLGKFSLDIFKEMLDRRIKPNDVTFVGVLHACSHSGLVDDGLEYLHSMHKK 360

Query: 361 YGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIA 420
           +G++PD KHYTCVVDMLGRTGRLDEA++LAKSIQV+PD G LLWGTLLSASRL+GRVDIA
Sbjct: 361 HGVVPDTKHYTCVVDMLGRTGRLDEAHQLAKSIQVEPDQGALLWGTLLSASRLYGRVDIA 420

Query: 421 VEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQ 480
           VEAS  LIESNQQVA AY                                      IRD 
Sbjct: 421 VEASKWLIESNQQVAAAY--------------------------------------IRDS 442

Query: 481 TYAFYAGN-ALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSE 539
            Y FYAG+ +L  RGSEV SLLRELER+MKERGYVGG  GLV +DVE+EA+EEIVGLHSE
Sbjct: 443 AYVFYAGDVSLCARGSEVASLLRELERRMKERGYVGGSRGLVSIDVEEEAKEEIVGLHSE 502

Query: 540 RLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSC 599
           RLALAFGLISIPKG+TIR+MKNLRMCRDCH+ FKLIS+IVERDFVVRDVNRFHHF NGSC
Sbjct: 503 RLALAFGLISIPKGVTIRVMKNLRMCRDCHEAFKLISEIVERDFVVRDVNRFHHFENGSC 562

Query: 600 SCGDFW 605
           +C DFW
Sbjct: 563 TCRDFW 568

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449450898|ref|XP_004143199.1| PREDICTED: pentatricopeptide repeat-containing protein At4g15720-like [Cucumis sativus]

 Score =  820 bits (2117), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 397/602 (65%), Positives = 470/602 (78%), Gaps = 1/602 (0%)

Query: 5   LTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFT 64
           L RNL F L    L+R+N+R    T  +  + L+ C  LIS  S HS  LK GFL+NT  
Sbjct: 2   LKRNLYFALTRPYLSRENERPFLQTIENLSRHLRNCNDLISSISTHSIALKLGFLNNTVN 61

Query: 65  LNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLV 124
           +NHLINCYVR +    A QLFDEM  PNVVS+TSLMAGY++ GQP  AL LF +ML + V
Sbjct: 62  VNHLINCYVRFRSIATAHQLFDEMPNPNVVSWTSLMAGYVDNGQPSTALFLFGEMLRSPV 121

Query: 125 WPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARR 184
            PN+FTFAT IKACS+L++L  G+  H H+E FG+  N+VVCSSL+DMYGKCNDV  AR 
Sbjct: 122 VPNDFTFATAIKACSILSNLRHGEMFHAHVEIFGYGGNIVVCSSLIDMYGKCNDVVKARG 181

Query: 185 VFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLG 244
           VF+ M C+N+VSWTS+I A+AQNA G EAL++FREF   S + PN +MLASVI+ACASLG
Sbjct: 182 VFNSMSCKNIVSWTSMIAAYAQNAHGDEALKVFREFTSLSSEHPNPYMLASVISACASLG 241

Query: 245 RLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIV 304
           RLVSGKV HG  +  GC+ ++VVAS LVDMYAKCGS++YSDKVFNRISNPSV+ YTSMIV
Sbjct: 242 RLVSGKVMHGAAISLGCDSSEVVASVLVDMYAKCGSLDYSDKVFNRISNPSVIPYTSMIV 301

Query: 305 GAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGII 364
             AKYG GR SL LF EM+ +G+KPN +T VGVLHACSHSGL +EG+ +L SMY KYGI+
Sbjct: 302 STAKYGFGRKSLQLFEEMVRKGLKPNHITLVGVLHACSHSGLPNEGLYYLTSMYEKYGIM 361

Query: 365 PDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEAS 424
           P+ KHYTCVVDML R G LD+A+ LAKS+ V PD   LLWG LLSASR HGRVDIA EA 
Sbjct: 362 PETKHYTCVVDMLARVGELDKAFDLAKSMDVAPDDKALLWGALLSASRCHGRVDIAAEAC 421

Query: 425 NQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAF 484
            QL+ SN+QVA AYVTLSN YA AG+ E  H LR EMKRTG+HKEPGCSW+EI+D +Y F
Sbjct: 422 QQLVNSNRQVAGAYVTLSNVYASAGDMEKAHKLRVEMKRTGVHKEPGCSWIEIKDSSYIF 481

Query: 485 YAGNAL-FERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLAL 543
           YAG      RG EVL LLREL++KMK+RGYV G+ GLVFVD+E+EA EE V LHSERLAL
Sbjct: 482 YAGEITSCPRGDEVLCLLRELDQKMKDRGYVRGRKGLVFVDIEEEAEEEKVWLHSERLAL 541

Query: 544 AFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGD 603
            FGLISIPKG+TIRIMKNLRMC DCH+ FKLIS+I+ER+FVVRD+NRFHHF+NG C+C  
Sbjct: 542 GFGLISIPKGLTIRIMKNLRMCSDCHEAFKLISEIMEREFVVRDINRFHHFKNGCCTCNG 601

Query: 604 FW 605
           FW
Sbjct: 602 FW 603

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449517497|ref|XP_004165782.1| PREDICTED: pentatricopeptide repeat-containing protein At4g15720-like [Cucumis sativus]

 Score =  819 bits (2116), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 397/602 (65%), Positives = 470/602 (78%), Gaps = 1/602 (0%)

Query: 5   LTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFT 64
           L RNL F L    L+R+N+R    T  +  + L+ C  LIS  S HS  LK GFL+NT  
Sbjct: 2   LKRNLYFALTRPYLSRENERPFLQTIENLSRHLRNCNDLISSISTHSIALKLGFLNNTVN 61

Query: 65  LNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLV 124
           +NHLINCYVR +    A QLFDEM  PNVVS+TSLMAGY++ GQP  AL LF +ML + V
Sbjct: 62  VNHLINCYVRFRSIATAHQLFDEMPNPNVVSWTSLMAGYVDNGQPSTALFLFGEMLRSPV 121

Query: 125 WPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARR 184
            PN+FTFAT IKACS+L++L  G+  H H+E FG+  N+VVCSSL+DMYGKCNDV  AR 
Sbjct: 122 VPNDFTFATAIKACSILSNLRHGEMFHAHVEIFGYGGNIVVCSSLIDMYGKCNDVVKARG 181

Query: 185 VFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLG 244
           VF+ M C+N+VSWTS+I A+AQNA G EAL++FREF   S + PN +MLASVI+ACASLG
Sbjct: 182 VFNSMSCKNIVSWTSMIAAYAQNAHGDEALKVFREFTSLSSEHPNPYMLASVISACASLG 241

Query: 245 RLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIV 304
           RLVSGKV HG  +  GC+ ++VVAS LVDMYAKCGS++YSDKVFNRISNPSV+ YTSMIV
Sbjct: 242 RLVSGKVMHGAAISLGCDSSEVVASVLVDMYAKCGSLDYSDKVFNRISNPSVIPYTSMIV 301

Query: 305 GAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGII 364
             AKYG GR SL LF EM+ +G+KPN +T VGVLHACSHSGL +EG+ +L SMY KYGI+
Sbjct: 302 STAKYGFGRKSLQLFEEMVRKGLKPNHITLVGVLHACSHSGLPNEGLYYLTSMYEKYGIM 361

Query: 365 PDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEAS 424
           P+ KHYTCVVDML R G LD+A+ LAKS+ V PD   LLWG LLSASR HGRVDIA EA 
Sbjct: 362 PETKHYTCVVDMLARVGELDKAFDLAKSMDVAPDDKALLWGALLSASRCHGRVDIAAEAC 421

Query: 425 NQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAF 484
            QL+ SN+QVA AYVTLSN YA AG+ E  H LR EMKRTG+HKEPGCSW+EI+D +Y F
Sbjct: 422 QQLVNSNRQVAGAYVTLSNVYASAGDMEKAHKLRVEMKRTGVHKEPGCSWIEIKDSSYIF 481

Query: 485 YAGNAL-FERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLAL 543
           YAG      RG EVL LLREL++KMK+RGYV G+ GLVFVD+E+EA EE V LHSERLAL
Sbjct: 482 YAGEITSCARGDEVLCLLRELDQKMKDRGYVRGRKGLVFVDIEEEAEEEKVWLHSERLAL 541

Query: 544 AFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGD 603
            FGLISIPKG+TIRIMKNLRMC DCH+ FKLIS+I+ER+FVVRD+NRFHHF+NG C+C  
Sbjct: 542 GFGLISIPKGLTIRIMKNLRMCSDCHEAFKLISEIMEREFVVRDINRFHHFKNGCCTCNG 601

Query: 604 FW 605
           FW
Sbjct: 602 FW 603

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357478705|ref|XP_003609638.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355510693|gb|AES91835.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  785 bits (2026), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 389/594 (65%), Positives = 470/594 (79%), Gaps = 18/594 (3%)

Query: 17  SLTRQNKRS----SCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCY 72
           SL+R +K +      +T AH I +     HL S    H+ ++KSG  ++TFT N+LIN Y
Sbjct: 9   SLSRHHKLTLFSFHTNTNAHNIGKFHTFNHLPSATPTHANVVKSGLSNDTFTTNNLINSY 68

Query: 73  VRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFA 132
           ++L K   A +LFDEM  PNVVS++ LMAGY+  GQP IAL LF +M G LV PNEFTF+
Sbjct: 69  LKLLKIDHAHKLFDEMSHPNVVSWSLLMAGYVRQGQPNIALCLFHQMQGTLVMPNEFTFS 128

Query: 133 TVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCR 192
           T+I ACS+LA+L TG++IH  +E FG++ +LVVCSSL+DMYGKCN VD A+ +FD M  R
Sbjct: 129 TLINACSILANLETGRRIHALVEVFGYRSDLVVCSSLIDMYGKCNRVDEAQMIFDFMWVR 188

Query: 193 NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVA 252
           NVVSWTS+I  ++QN QGH AL++FREFN+   ++PN  ML S + ACASLGRL SGK+ 
Sbjct: 189 NVVSWTSMITTYSQNGQGHLALQLFREFNHIRMNKPNHFMLCSAVTACASLGRLGSGKIT 248

Query: 253 HGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLG 312
           HGVV+R G + +DVVASALVDMYAKCG V YSDKVF RI NPSVV YTSMIVGAAKYGLG
Sbjct: 249 HGVVIRLGHDASDVVASALVDMYAKCGCVTYSDKVFRRIVNPSVVPYTSMIVGAAKYGLG 308

Query: 313 RFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTC 372
             SL LF EM+ R IKPN +TFVGVLH               +SM  KYG++PDA+HYTC
Sbjct: 309 TLSLRLFQEMVDRRIKPNSITFVGVLHL-------------FNSMNEKYGVMPDARHYTC 355

Query: 373 VVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQ 432
           +VDMLGR GR+DEAY+LA+S+QV  +   LLWGTLLSASRLHGRVDIA+EASN++IESNQ
Sbjct: 356 IVDMLGRVGRIDEAYQLAQSVQVGSEDDALLWGTLLSASRLHGRVDIAIEASNRVIESNQ 415

Query: 433 QVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGN-ALF 491
           QVA AYVTLSNTYALAG+WEN H+LRSEMKRTG++KEPG SW+EI+D TY F+AG+ +  
Sbjct: 416 QVAAAYVTLSNTYALAGDWENAHNLRSEMKRTGVYKEPGSSWIEIKDSTYLFHAGDLSKC 475

Query: 492 ERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIP 551
            +  E+LSLLRELE +MKERG+VG  TGLVFVDVE+EA+EEIV LHSE+LALAFGL++ P
Sbjct: 476 SQKRELLSLLRELEGRMKERGHVGVTTGLVFVDVEEEAKEEIVSLHSEKLALAFGLLNTP 535

Query: 552 KGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
           KGITI IMKNLRMCRDCH+ FKLISDIVER+FVVRDVNRFHHF+NGSC+CGDFW
Sbjct: 536 KGITIIIMKNLRMCRDCHEAFKLISDIVEREFVVRDVNRFHHFKNGSCTCGDFW 589

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297804658|ref|XP_002870213.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297316049|gb|EFH46472.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  724 bits (1869), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 358/593 (60%), Positives = 451/593 (76%), Gaps = 8/593 (1%)

Query: 21  QNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQV 80
           QN+     TKA  + +L E   L     +H+  LK GF SNTFT+NHL+N YV+LK+   
Sbjct: 16  QNEFFYLKTKAFLVHKLSEPTDLFLTNLLHALTLKLGFASNTFTVNHLVNSYVKLKEINT 75

Query: 81  ARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNL-VWPNEFTFATVIKACS 139
           AR++FDEM EPNVVS+TS+++GY +MGQPQ AL +FQ+M  +  V PNE+TFA+V KACS
Sbjct: 76  ARKVFDEMCEPNVVSWTSVISGYNDMGQPQTALSMFQEMHEDRSVPPNEYTFASVFKACS 135

Query: 140 MLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLM--GCRNVVSW 197
            LA+   GK IH  +E  G + N+VV SSLVDMYGKCNDV+ ARRVFD M    RNVVSW
Sbjct: 136 ALAESRIGKNIHARLEVSGLRRNIVVSSSLVDMYGKCNDVEMARRVFDSMIGYGRNVVSW 195

Query: 198 TSIIVAHAQNAQGHEALEMFREFNYQS-RDRPNQHMLASVINACASLGRLVSGKVAHGVV 256
           TS+I A+AQNA+GHEA+E+FR FN  S  DRPNQ MLASVINA +SLGRL  G+++HG+V
Sbjct: 196 TSMITAYAQNARGHEAIELFRSFNADSTSDRPNQFMLASVINASSSLGRLQWGQISHGLV 255

Query: 257 VRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSL 316
            R G E N+VVA++L+DMYAKCGS+  ++K+F RI   SV++YTSMI+  AK+GLG  +L
Sbjct: 256 TRGGYESNNVVATSLLDMYAKCGSLTCAEKIFFRIRCHSVISYTSMIMAKAKHGLGEAAL 315

Query: 317 DLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDM 376
            LF+EM++  IKPN VT +GVLHACSHSGLV+EG++ L+SM  KYG+IPD++HYTCVVDM
Sbjct: 316 QLFDEMVAGRIKPNYVTLLGVLHACSHSGLVNEGLEFLNSMAEKYGVIPDSRHYTCVVDM 375

Query: 377 LGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN 436
           LGR GR+DEAY LAK+I V  + G LLWG LLSA RLHGRV+I  EAS +LI+SNQQV +
Sbjct: 376 LGRFGRVDEAYDLAKTIDVGAEQGALLWGALLSAGRLHGRVEIVSEASKRLIQSNQQVTS 435

Query: 437 AYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSE 496
           AY+ LSN YA+AG WE+  SLR EMKR+G  KE  CSW+E +D  Y F+AG+   +   E
Sbjct: 436 AYIALSNAYAVAGGWEDSESLRLEMKRSGNVKERACSWIENKDSVYVFHAGDLSCDESGE 495

Query: 497 VLSLLRELERKMKERGYVG----GKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPK 552
           +   L+ LE +MKERG+ G      +  VFVDV++EA+EE+V LH ERLALA+GL+ +P 
Sbjct: 496 IKRFLKNLENRMKERGHRGSSSMITSSSVFVDVDEEAKEEMVSLHCERLALAYGLLHLPA 555

Query: 553 GITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
           G TIRIM NLRMCRDCH+ FKLIS+IVER+ VVRDVNRFH F+NGSC+C DFW
Sbjct: 556 GSTIRIMNNLRMCRDCHEAFKLISEIVEREIVVRDVNRFHCFKNGSCTCRDFW 608

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22328675|ref|NP_193307.2| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75161477|sp|Q8VYH0.1|PP313_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g15720 gi|18175616|gb|AAL59897.1| unknown protein [Arabidopsis thaliana] gi|20465541|gb|AAM20253.1| unknown protein [Arabidopsis thaliana] gi|332658240|gb|AEE83640.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  716 bits (1847), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 357/616 (57%), Positives = 460/616 (74%), Gaps = 11/616 (1%)

Query: 1   MKKSLTRNLIFTLAASSLTRQNKRSSCH--TKAHFIQQLQECKHLISLASVHSEILKSGF 58
           MKK   +N+    A S    Q K    H  TKA  + +L E  +      +H+  LK GF
Sbjct: 1   MKKGFIQNVHLAPATSLFVPQYKNDFFHLKTKAFLVHKLSESTNAAFTNLLHTLTLKLGF 60

Query: 59  LSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQK 118
            S+TFT+NHL+  YV+LK+   AR+LFDEM EPNVVS+TS+++GY +MG+PQ AL +FQK
Sbjct: 61  ASDTFTVNHLVISYVKLKEINTARKLFDEMCEPNVVSWTSVISGYNDMGKPQNALSMFQK 120

Query: 119 MLGNL-VWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCN 177
           M  +  V PNE+TFA+V KACS LA+   GK IH  +E  G + N+VV SSLVDMYGKCN
Sbjct: 121 MHEDRPVPPNEYTFASVFKACSALAESRIGKNIHARLEISGLRRNIVVSSSLVDMYGKCN 180

Query: 178 DVDGARRVFDLM--GCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQ-SRDRPNQHMLA 234
           DV+ ARRVFD M    RNVVSWTS+I A+AQNA+GHEA+E+FR FN   + DR NQ MLA
Sbjct: 181 DVETARRVFDSMIGYGRNVVSWTSMITAYAQNARGHEAIELFRSFNAALTSDRANQFMLA 240

Query: 235 SVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP 294
           SVI+AC+SLGRL  GKVAHG+V R G E N VVA++L+DMYAKCGS++ ++K+F RI   
Sbjct: 241 SVISACSSLGRLQWGKVAHGLVTRGGYESNTVVATSLLDMYAKCGSLSCAEKIFLRIRCH 300

Query: 295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHL 354
           SV++YTSMI+  AK+GLG  ++ LF+EM++  I PN VT +GVLHACSHSGLV+EG+++L
Sbjct: 301 SVISYTSMIMAKAKHGLGEAAVKLFDEMVAGRINPNYVTLLGVLHACSHSGLVNEGLEYL 360

Query: 355 DSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLH 414
             M  KYG++PD++HYTCVVDMLGR GR+DEAY+LAK+I+V  + G LLWG LLSA RLH
Sbjct: 361 SLMAEKYGVVPDSRHYTCVVDMLGRFGRVDEAYELAKTIEVGAEQGALLWGALLSAGRLH 420

Query: 415 GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSW 474
           GRV+I  EAS +LI+SNQQV +AY+ LSN YA++G WE+  SLR EMKR+G  KE  CSW
Sbjct: 421 GRVEIVSEASKRLIQSNQQVTSAYIALSNAYAVSGGWEDSESLRLEMKRSGNVKERACSW 480

Query: 475 VEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVG-----GKTGLVFVDVEDEA 529
           +E +D  Y F+AG+   +   E+   L++LE++MKERG+ G       +  VFVDV++EA
Sbjct: 481 IENKDSVYVFHAGDLSCDESGEIERFLKDLEKRMKERGHRGSSSMITTSSSVFVDVDEEA 540

Query: 530 REEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVN 589
           ++E+V LH ERLALA+GL+ +P G TIRIM NLRMCRDCH+ FKLIS+IVER+ VVRDVN
Sbjct: 541 KDEMVSLHCERLALAYGLLHLPAGSTIRIMNNLRMCRDCHEAFKLISEIVEREIVVRDVN 600

Query: 590 RFHHFRNGSCSCGDFW 605
           RFH F+NGSC+C D+W
Sbjct: 601 RFHCFKNGSCTCRDYW 616

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|2244928|emb|CAB10350.1| hypothetical protein [Arabidopsis thaliana] gi|7268320|emb|CAB78614.1| hypothetical protein [Arabidopsis thaliana]

 Score =  689 bits (1778), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 349/616 (56%), Positives = 448/616 (72%), Gaps = 25/616 (4%)

Query: 1   MKKSLTRNLIFTLAASSLTRQNKRSSCH--TKAHFIQQLQECKHLISLASVHSEILKSGF 58
           MKK   +N+    A S    Q K    H  TKA  + +L E  +      +H+  LK GF
Sbjct: 1   MKKGFIQNVHLAPATSLFVPQYKNDFFHLKTKAFLVHKLSESTNAAFTNLLHTLTLKLGF 60

Query: 59  LSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQK 118
            S+TFT+NHL+  YV+LK+   AR+LFDEM EPNVVS+TS+++GY +MG+PQ AL +FQK
Sbjct: 61  ASDTFTVNHLVISYVKLKEINTARKLFDEMCEPNVVSWTSVISGYNDMGKPQNALSMFQK 120

Query: 119 MLGNL-VWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCN 177
           M  +  V PNE+TFA+V KACS LA+   GK IH  +E  G + N+VV SSLVDMYGKCN
Sbjct: 121 MHEDRPVPPNEYTFASVFKACSALAESRIGKNIHARLEISGLRRNIVVSSSLVDMYGKCN 180

Query: 178 DVDGARRVFDLM--GCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQ-SRDRPNQHMLA 234
           DV+ ARRVFD M    RNVVSWTS+I A+AQNA+GHEA+E+FR FN   + DR NQ MLA
Sbjct: 181 DVETARRVFDSMIGYGRNVVSWTSMITAYAQNARGHEAIELFRSFNAALTSDRANQFMLA 240

Query: 235 SVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP 294
           SVI+AC+SLGRL  GKVAHG+V R G E N VVA++L+DMYAKCGS++ ++K+F RI   
Sbjct: 241 SVISACSSLGRLQWGKVAHGLVTRGGYESNTVVATSLLDMYAKCGSLSCAEKIFLRIRCH 300

Query: 295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHL 354
           SV++YTSMI+  AK+GLG  ++ LF+EM++  I PN VT +GVLHACSHSGLV+EG+++L
Sbjct: 301 SVISYTSMIMAKAKHGLGEAAVKLFDEMVAGRINPNYVTLLGVLHACSHSGLVNEGLEYL 360

Query: 355 DSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLH 414
             M  KYG++PD++HYTCVVDMLGR GR+DEAY+LAK+I+V  + G LLWG LLSA RLH
Sbjct: 361 SLMAEKYGVVPDSRHYTCVVDMLGRFGRVDEAYELAKTIEVGAEQGALLWGALLSAGRLH 420

Query: 415 GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSW 474
           GRV+I  EAS +LI+SNQQV                WE+  SLR EMKR+G  KE  CSW
Sbjct: 421 GRVEIVSEASKRLIQSNQQVT--------------RWEDSESLRLEMKRSGNVKERACSW 466

Query: 475 VEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVG-----GKTGLVFVDVEDEA 529
           +E +D  Y F+AG+   +   E+   L++LE++MKERG+ G       +  VFVDV++EA
Sbjct: 467 IENKDSVYVFHAGDLSCDESGEIERFLKDLEKRMKERGHRGSSSMITTSSSVFVDVDEEA 526

Query: 530 REEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVN 589
           ++E+V LH ERLALA+GL+ +P G TIRIM NLRMCRDCH+ FKLIS+IVER+ VVRDVN
Sbjct: 527 KDEMVSLHCERLALAYGLLHLPAGSTIRIMNNLRMCRDCHEAFKLISEIVEREIVVRDVN 586

Query: 590 RFHHFRNGSCSCGDFW 605
           RFH F+NGSC+C D+W
Sbjct: 587 RFHCFKNGSCTCRDYW 602

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	605
TAIR|locus:2130644	616	AT4G15720 "AT4G15720" [Arabido	1.0	0.982	0.574	9.7e-183
TAIR|locus:2102852	657	CRR2 "AT3G46790" [Arabidopsis	0.930	0.856	0.395	7.8e-110
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.961	0.719	0.389	2.7e-107
TAIR|locus:2091546	628	AT3G13770 [Arabidopsis thalian	0.914	0.880	0.393	2.2e-105
TAIR|locus:2115130	691	AT4G37170 "AT4G37170" [Arabido	0.930	0.814	0.376	9.5e-105
TAIR|locus:2056740	603	OTP85 "ORGANELLE TRANSCRIPT PR	0.966	0.970	0.364	5.3e-104
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.917	0.674	0.391	1.4e-103
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.923	0.641	0.373	2.9e-103
TAIR|locus:2155740	738	AT5G65570 [Arabidopsis thalian	0.887	0.727	0.397	2e-102
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.869	0.673	0.374	6.9e-102

TAIR|locus:2130644 AT4G15720 "AT4G15720" [Arabidopsis thaliana (taxid:3702)]

 Score = 1773 (629.2 bits), Expect = 9.7e-183, P = 9.7e-183
 Identities = 354/616 (57%), Positives = 453/616 (73%)

Query:     1 MKKSLTRNLIFTLAASSLTRQNKRSSCH--TKAHFIQQLQECKHLISLASVHSEILKSGF 58
             MKK   +N+    A S    Q K    H  TKA  + +L E  +      +H+  LK GF
Sbjct:     1 MKKGFIQNVHLAPATSLFVPQYKNDFFHLKTKAFLVHKLSESTNAAFTNLLHTLTLKLGF 60

Query:    59 LSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQK 118
              S+TFT+NHL+  YV+LK+   AR+LFDEM EPNVVS+TS+++GY +MG+PQ AL +FQK
Sbjct:    61 ASDTFTVNHLVISYVKLKEINTARKLFDEMCEPNVVSWTSVISGYNDMGKPQNALSMFQK 120

Query:   119 MLGNL-VWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCN 177
             M  +  V PNE+TFA+V KACS LA+   GK IH  +E  G + N+VV SSLVDMYGKCN
Sbjct:   121 MHEDRPVPPNEYTFASVFKACSALAESRIGKNIHARLEISGLRRNIVVSSSLVDMYGKCN 180

Query:   178 DVDGARRVFDLM-GC-RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQ-SRDRPNQHMLA 234
             DV+ ARRVFD M G  RNVVSWTS+I A+AQNA+GHEA+E+FR FN   + DR NQ MLA
Sbjct:   181 DVETARRVFDSMIGYGRNVVSWTSMITAYAQNARGHEAIELFRSFNAALTSDRANQFMLA 240

Query:   235 SVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP 294
             SVI+AC+SLGRL  GKVAHG+V R G E N VVA++L+DMYAKCGS++ ++K+F RI   
Sbjct:   241 SVISACSSLGRLQWGKVAHGLVTRGGYESNTVVATSLLDMYAKCGSLSCAEKIFLRIRCH 300

Query:   295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHL 354
             SV++YTSMI+  AK+GLG  ++ LF+EM++  I PN VT +GVLHACSHSGLV+EG+++L
Sbjct:   301 SVISYTSMIMAKAKHGLGEAAVKLFDEMVAGRINPNYVTLLGVLHACSHSGLVNEGLEYL 360

Query:   355 DSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLH 414
               M  KYG++PD++HYTCVVDMLGR GR+DEAY+LAK+I+V  + G LLWG LLSA RLH
Sbjct:   361 SLMAEKYGVVPDSRHYTCVVDMLGRFGRVDEAYELAKTIEVGAEQGALLWGALLSAGRLH 420

Query:   415 GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSW 474
             GRV+I  EAS +LI+SNQQV +AY+ LSN YA++G WE+  SLR EMKR+G  KE  CSW
Sbjct:   421 GRVEIVSEASKRLIQSNQQVTSAYIALSNAYAVSGGWEDSESLRLEMKRSGNVKERACSW 480

Query:   475 VEIRDQTYAFYAGNALFXXXXXXXXXXXXXXXKMKERGYVGGKTGL-----VFVDVEDEA 529
             +E +D  Y F+AG+                  +MKERG+ G  + +     VFVDV++EA
Sbjct:   481 IENKDSVYVFHAGDLSCDESGEIERFLKDLEKRMKERGHRGSSSMITTSSSVFVDVDEEA 540

Query:   530 REEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVN 589
             ++E+V LH ERLALA+GL+ +P G TIRIM NLRMCRDCH+ FKLIS+IVER+ VVRDVN
Sbjct:   541 KDEMVSLHCERLALAYGLLHLPAGSTIRIMNNLRMCRDCHEAFKLISEIVEREIVVRDVN 600

Query:   590 RFHHFRNGSCSCGDFW 605
             RFH F+NGSC+C D+W
Sbjct:   601 RFHCFKNGSCTCRDYW 616

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2102852 CRR2 "AT3G46790" [Arabidopsis thaliana (taxid:3702)]

 Score = 1085 (387.0 bits), Expect = 7.8e-110, P = 7.8e-110
 Identities = 227/574 (39%), Positives = 337/574 (58%)

Query:    40 CKHLISLAS---VHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSY 96
             C H  SL+    VH  IL +G   + F    LI  Y  L     AR++FD+  +  +  +
Sbjct:    87 CGHRSSLSDALRVHRHILDNGSDQDPFLATKLIGMYSDLGSVDYARKVFDKTRKRTIYVW 146

Query:    97 TSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKAC----SMLADLITGKQIHT 152
              +L       G  +  L L+ KM    V  + FT+  V+KAC      +  L+ GK+IH 
Sbjct:   147 NALFRALTLAGHGEEVLGLYWKMNRIGVESDRFTYTYVLKACVASECTVNHLMKGKEIHA 206

Query:   153 HIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHE 212
             H+   G+  ++ + ++LVDMY +   VD A  VF  M  RNVVSW+++I  +A+N +  E
Sbjct:   207 HLTRRGYSSHVYIMTTLVDMYARFGCVDYASYVFGGMPVRNVVSWSAMIACYAKNGKAFE 266

Query:   213 ALEMFREFNYQSRDR-PNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASAL 271
             AL  FRE   +++D  PN   + SV+ ACASL  L  GK+ HG ++R G +    V SAL
Sbjct:   267 ALRTFREMMRETKDSSPNSVTMVSVLQACASLAALEQGKLIHGYILRRGLDSILPVISAL 326

Query:   272 VDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND 331
             V MY +CG +    +VF+R+ +  VV++ S+I     +G G+ ++ +F EM++ G  P  
Sbjct:   327 VTMYGRCGKLEVGQRVFDRMHDRDVVSWNSLISSYGVHGYGKKAIQIFEEMLANGASPTP 386

Query:   332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAK 391
             VTFV VL ACSH GLV+EG +  ++M+R +GI P  +HY C+VD+LGR  RLDEA K+ +
Sbjct:   387 VTFVSVLGACSHEGLVEEGKRLFETMWRDHGIKPQIEHYACMVDLLGRANRLDEAAKMVQ 446

Query:   392 SIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEW 451
              ++ +P  GP +WG+LL + R+HG V++A  AS +L     + A  YV L++ YA A  W
Sbjct:   447 DMRTEP--GPKVWGSLLGSCRIHGNVELAERASRRLFALEPKNAGNYVLLADIYAEAQMW 504

Query:   452 ENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFXXXXXXXXXXXXXXXKMKER 511
             + V  ++  ++  G+ K PG  W+E+R + Y+F + +                   MKE+
Sbjct:   505 DEVKRVKKLLEHRGLQKLPGRCWMEVRRKMYSFVSVDEFNPLMEQIHAFLVKLAEDMKEK 564

Query:   512 GYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDV 571
             GY+    G+++ ++E E +E IV  HSE+LALAFGLI+  KG  IRI KNLR+C DCH  
Sbjct:   565 GYIPQTKGVLY-ELETEEKERIVLGHSEKLALAFGLINTSKGEPIRITKNLRLCEDCHLF 623

Query:   572 FKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
              K IS  +E++ +VRDVNRFH F+NG CSCGD+W
Sbjct:   624 TKFISKFMEKEILVRDVNRFHRFKNGVCSCGDYW 657

GO:0009507 "chloroplast" evidence=ISS

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0031426 "polycistronic mRNA processing" evidence=IMP

GO:0000398 "mRNA splicing, via spliceosome" evidence=RCA

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

GO:0030422 "production of siRNA involved in RNA interference" evidence=RCA

GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

TAIR|locus:2202074 CRR22 "CHLORORESPIRATORY REDUCTION22" [Arabidopsis thaliana (taxid:3702)]

 Score = 1061 (378.5 bits), Expect = 2.7e-107, P = 2.7e-107
 Identities = 230/591 (38%), Positives = 340/591 (57%)

Query:    17 SLTRQNKRSSCHTKAHFIQQLQECKHLISLAS-VHSEILKSGFLSNTFTLNHLINCYVRL 75
             S+  +N + S  T    +  +   + LIS+   +H   ++SGF S       L++ Y + 
Sbjct:   226 SMCEENLKPSFITIVSVLPAVSALR-LISVGKEIHGYAMRSGFDSLVNISTALVDMYAKC 284

Query:    76 KKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVI 135
                + ARQLFD MLE NVVS+ S++  Y+    P+ A+L+FQKML   V P + +    +
Sbjct:   285 GSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGAL 344

Query:   136 KACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVV 195
              AC+ L DL  G+ IH      G   N+ V +SL+ MY KC +VD A  +F  +  R +V
Sbjct:   345 HACADLGDLERGRFIHKLSVELGLDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRTLV 404

Query:   196 SWTSIIVAHAQNAQGHEALEMFREFNYQSRD-RPNQHMLASVINACASLGRLVSGKVAHG 254
             SW ++I+  AQN +  +AL  F +   +SR  +P+     SVI A A L      K  HG
Sbjct:   405 SWNAMILGFAQNGRPIDALNYFSQM--RSRTVKPDTFTYVSVITAIAELSITHHAKWIHG 462

Query:   255 VVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRF 314
             VV+RS  + N  V +ALVDMYAKCG++  +  +F+ +S   V T+ +MI G   +G G+ 
Sbjct:   463 VVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKA 522

Query:   315 SLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVV 374
             +L+LF EM    IKPN VTF+ V+ ACSHSGLV+ G++    M   Y I     HY  +V
Sbjct:   523 ALELFEEMQKGTIKPNGVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGAMV 582

Query:   375 DMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV 434
             D+LGR GRL+EA+     + V P     ++G +L A ++H  V+ A +A+ +L E N   
Sbjct:   583 DLLGRAGRLNEAWDFIMQMPVKPAVN--VYGAMLGACQIHKNVNFAEKAAERLFELNPDD 640

Query:   435 ANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFXXX 494
                +V L+N Y  A  WE V  +R  M R G+ K PGCS VEI+++ ++F++G+      
Sbjct:   641 GGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDS 700

Query:   495 XXXXXXXXXXXXKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGI 554
                          +KE GYV   T LV + VE++ +E+++  HSE+LA++FGL++   G 
Sbjct:   701 KKIYAFLEKLICHIKEAGYVPD-TNLV-LGVENDVKEQLLSTHSEKLAISFGLLNTTAGT 758

Query:   555 TIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
             TI + KNLR+C DCH+  K IS +  R+ VVRD+ RFHHF+NG+CSCGD+W
Sbjct:   759 TIHVRKNLRVCADCHNATKYISLVTGREIVVRDMQRFHHFKNGACSCGDYW 809

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016556 "mRNA modification" evidence=RCA;IMP

TAIR|locus:2091546 AT3G13770 [Arabidopsis thaliana (taxid:3702)]

 Score = 1043 (372.2 bits), Expect = 2.2e-105, P = 2.2e-105
 Identities = 220/559 (39%), Positives = 335/559 (59%)

Query:    49 VHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQ 108
             VH+ ++K+ +L  T+    L+  Y +    + AR++ DEM E NVVS+T++++ Y   G 
Sbjct:    74 VHAHMIKTRYLPATYLRTRLLIFYGKCDCLEDARKVLDEMPEKNVVSWTAMISRYSQTGH 133

Query:   109 PQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSS 168
                AL +F +M+ +   PNEFTFATV+ +C   + L  GKQIH  I  + +  ++ V SS
Sbjct:   134 SSEALTVFAEMMRSDGKPNEFTFATVLTSCIRASGLGLGKQIHGLIVKWNYDSHIFVGSS 193

Query:   169 LVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRP 228
             L+DMY K   +  AR +F+ +  R+VVS T+II  +AQ     EALEMF   + +    P
Sbjct:   194 LLDMYAKAGQIKEAREIFECLPERDVVSCTAIIAGYAQLGLDEEALEMFHRLHSEGMS-P 252

Query:   229 NQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVF 288
             N    AS++ A + L  L  GK AH  V+R    F  V+ ++L+DMY+KCG+++Y+ ++F
Sbjct:   253 NYVTYASLLTALSGLALLDHGKQAHCHVLRRELPFYAVLQNSLIDMYSKCGNLSYARRLF 312

Query:   289 NRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMIS-RGIKPNDVTFVGVLHACSHSGLV 347
             + +   + +++ +M+VG +K+GLGR  L+LF  M   + +KP+ VT + VL  CSH  + 
Sbjct:   313 DNMPERTAISWNAMLVGYSKHGLGREVLELFRLMRDEKRVKPDAVTLLAVLSGCSHGRME 372

Query:   348 DEGIQHLDSMYR-KYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGT 406
             D G+   D M   +YG  P  +HY C+VDMLGR GR+DEA++  K +   P  G L  G+
Sbjct:   373 DTGLNIFDGMVAGEYGTKPGTEHYGCIVDMLGRAGRIDEAFEFIKRMPSKPTAGVL--GS 430

Query:   407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI 466
             LL A R+H  VDI      +LIE   + A  YV LSN YA AG W +V+++R+ M +  +
Sbjct:   431 LLGACRVHLSVDIGESVGRRLIEIEPENAGNYVILSNLYASAGRWADVNNVRAMMMQKAV 490

Query:   467 HKEPGCSWVEIRDQTYAFYAGNALFXXXXXXXXXXXXXXXKMKERGYVGGKTGLVFVDVE 526
              KEPG SW++     + F+A +                  KMK+ GYV   + +++ DV+
Sbjct:   491 TKEPGRSWIQHEQTLHYFHANDRTHPRREEVLAKMKEISIKMKQAGYVPDLSCVLY-DVD 549

Query:   527 DEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVR 586
             +E +E+++  HSE+LAL FGLI+  +GI IR+ KNLR+C DCH+  K+ S + ER+  +R
Sbjct:   550 EEQKEKMLLGHSEKLALTFGLIATGEGIPIRVFKNLRICVDCHNFAKIFSKVFEREVSLR 609

Query:   587 DVNRFHHFRNGSCSCGDFW 605
             D NRFH   +G CSCGD+W
Sbjct:   610 DKNRFHQIVDGICSCGDYW 628

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2115130 AT4G37170 "AT4G37170" [Arabidopsis thaliana (taxid:3702)]

 Score = 1037 (370.1 bits), Expect = 9.5e-105, P = 9.5e-105
 Identities = 216/574 (37%), Positives = 328/574 (57%)

Query:    34 IQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNV 93
             ++   +C  L+    V  E+      S     N ++N Y  +   + AR+LFDEM E + 
Sbjct:   127 LRMYAKCGSLVDARKVFDEMPNRDLCS----WNVMVNGYAEVGLLEEARKLFDEMTEKDS 182

Query:    94 VSYTSLMAGYINMGQPQIALLLFQKM--LGNLVWPNEFTFATVIKACSMLADLITGKQIH 151
              S+T+++ GY+   QP+ AL+L+  M  + N   PN FT +  + A + +  +  GK+IH
Sbjct:   183 YSWTAMVTGYVKKDQPEEALVLYSLMQRVPNSR-PNIFTVSIAVAAAAAVKCIRRGKEIH 241

Query:   152 THIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGH 211
              HI   G   + V+ SSL+DMYGKC  +D AR +FD +  ++VVSWTS+I  + ++++  
Sbjct:   242 GHIVRAGLDSDEVLWSSLMDMYGKCGCIDEARNIFDKIVEKDVVSWTSMIDRYFKSSRWR 301

Query:   212 EALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASAL 271
             E   +F E    S +RPN++  A V+NACA L     GK  HG + R G +     +S+L
Sbjct:   302 EGFSLFSEL-VGSCERPNEYTFAGVLNACADLTTEELGKQVHGYMTRVGFDPYSFASSSL 360

Query:   272 VDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND 331
             VDMY KCG++  +  V +    P +V++TS+I G A+ G    +L  F+ ++  G KP+ 
Sbjct:   361 VDMYTKCGNIESAKHVVDGCPKPDLVSWTSLIGGCAQNGQPDEALKYFDLLLKSGTKPDH 420

Query:   332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAK 391
             VTFV VL AC+H+GLV++G++   S+  K+ +   + HYTC+VD+L R+GR ++   +  
Sbjct:   421 VTFVNVLSACTHAGLVEKGLEFFYSITEKHRLSHTSDHYTCLVDLLARSGRFEQLKSVIS 480

Query:   392 SIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEW 451
              + + P     LW ++L     +G +D+A EA+ +L +   +    YVT++N YA AG+W
Sbjct:   481 EMPMKPS--KFLWASVLGGCSTYGNIDLAEEAAQELFKIEPENPVTYVTMANIYAAAGKW 538

Query:   452 ENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFXXXXXXXXXXXXXXXKMKER 511
             E    +R  M+  G+ K PG SW EI+ + + F A +                  KMKE 
Sbjct:   539 EEEGKMRKRMQEIGVTKRPGSSWTEIKRKRHVFIAADTSHPMYNQIVEFLRELRKKMKEE 598

Query:   512 GYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDV 571
             GYV   T LV  DVEDE +EE +  HSE+LA+AF ++S  +G  I++ KNLR C DCH  
Sbjct:   599 GYVPA-TSLVLHDVEDEQKEENLVYHSEKLAVAFAILSTEEGTAIKVFKNLRSCVDCHGA 657

Query:   572 FKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
              K IS+I +R   VRD  RFH F NG CSCGD+W
Sbjct:   658 IKFISNITKRKITVRDSTRFHCFENGQCSCGDYW 691

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2056740 OTP85 "ORGANELLE TRANSCRIPT PROCESSING 85" [Arabidopsis thaliana (taxid:3702)]

 Score = 1030 (367.6 bits), Expect = 5.3e-104, P = 5.3e-104
 Identities = 217/595 (36%), Positives = 346/595 (58%)

Query:    15 ASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLIN-CYV 73
             A + T+ +K  + +T+ + I  + +C  L  L  + +  +KS     +F    LIN C  
Sbjct:    15 AETFTKHSKIDTVNTQ-NPILLISKCNSLRELMQIQAYAIKSHIEDVSFVAK-LINFCTE 72

Query:    74 RLKKTQV--ARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTF 131
                ++ +  AR LF+ M EP++V + S+  GY     P     LF ++L + + P+ +TF
Sbjct:    73 SPTESSMSYARHLFEAMSEPDIVIFNSMARGYSRFTNPLEVFSLFVEILEDGILPDNYTF 132

Query:   132 ATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC 191
              +++KAC++   L  G+Q+H      G   N+ VC +L++MY +C DVD AR VFD +  
Sbjct:   133 PSLLKACAVAKALEEGRQLHCLSMKLGLDDNVYVCPTLINMYTECEDVDSARCVFDRIVE 192

Query:   192 RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKV 251
               VV + ++I  +A+  + +EAL +FRE   +   +PN+  L SV+++CA LG L  GK 
Sbjct:   193 PCVVCYNAMITGYARRNRPNEALSLFREMQGKYL-KPNEITLLSVLSSCALLGSLDLGKW 251

Query:   252 AHGVVVR-SGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYG 310
              H    + S C++  V  +AL+DM+AKCGS++ +  +F ++       +++MIV  A +G
Sbjct:   252 IHKYAKKHSFCKYVKV-NTALIDMFAKCGSLDDAVSIFEKMRYKDTQAWSAMIVAYANHG 310

Query:   311 LGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHY 370
                 S+ +F  M S  ++P+++TF+G+L+ACSH+G V+EG ++   M  K+GI+P  KHY
Sbjct:   311 KAEKSMLMFERMRSENVQPDEITFLGLLNACSHTGRVEEGRKYFSQMVSKFGIVPSIKHY 370

Query:   371 TCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIES 430
               +VD+L R G L++AY+    + + P   P+LW  LL+A   H  +D+A + S ++ E 
Sbjct:   371 GSMVDLLSRAGNLEDAYEFIDKLPISPT--PMLWRILLAACSSHNNLDLAEKVSERIFEL 428

Query:   431 NQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNAL 490
             +      YV LSN YA   +WE V SLR  MK     K PGCS +E+ +  + F++G+ +
Sbjct:   429 DDSHGGDYVILSNLYARNKKWEYVDSLRKVMKDRKAVKVPGCSSIEVNNVVHEFFSGDGV 488

Query:   491 FXXXXXXXXXXXXXXXKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISI 550
                             ++K  GYV   + +V  ++ D+ +E  +  HSE+LA+ FGL++ 
Sbjct:   489 KSATTKLHRALDEMVKELKLSGYVPDTSMVVHANMNDQEKEITLRYHSEKLAITFGLLNT 548

Query:   551 PKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW 605
             P G TIR++KNLR+CRDCH+  KLIS I  R  V+RDV RFHHF +G CSCGDFW
Sbjct:   549 PPGTTIRVVKNLRVCRDCHNAAKLISLIFGRKVVLRDVQRFHHFEDGKCSCGDFW 603

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2118964 EMB2758 "embryo defective 2758" [Arabidopsis thaliana (taxid:3702)]

 Score = 1026 (366.2 bits), Expect = 1.4e-103, P = 1.4e-103
 Identities = 219/559 (39%), Positives = 313/559 (55%)

Query:    48 SVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMG 107
             ++HS  +K G  S  F  N LI+ Y    + +  +++FD M   +++S+ S++  Y    
Sbjct:   268 TIHSYSIKHGLESELFVSNKLIDLYAEFGRLRDCQKVFDRMYVRDLISWNSIIKAYELNE 327

Query:   108 QPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFG-FQYNLVVC 166
             QP  A+ LFQ+M  + + P+  T  ++    S L D+   + +       G F  ++ + 
Sbjct:   328 QPLRAISLFQEMRLSRIQPDCLTLISLASILSQLGDIRACRSVQGFTLRKGWFLEDITIG 387

Query:   167 SSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRD 226
             +++V MY K   VD AR VF+ +   +V+SW +II  +AQN    EA+EM+     +   
Sbjct:   388 NAVVVMYAKLGLVDSARAVFNWLPNTDVISWNTIISGYAQNGFASEAIEMYNIMEEEGEI 447

Query:   227 RPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDK 286
               NQ    SV+ AC+  G L  G   HG ++++G   +  V ++L DMY KCG +  +  
Sbjct:   448 AANQGTWVSVLPACSQAGALRQGMKLHGRLLKNGLYLDVFVVTSLADMYGKCGRLEDALS 507

Query:   287 VFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGL 346
             +F +I   + V + ++I     +G G  ++ LF EM+  G+KP+ +TFV +L ACSHSGL
Sbjct:   508 LFYQIPRVNSVPWNTLIACHGFHGHGEKAVMLFKEMLDEGVKPDHITFVTLLSACSHSGL 567

Query:   347 VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGT 406
             VDEG    + M   YGI P  KHY C+VDM GR G+L+ A K  KS+ + PD    +WG 
Sbjct:   568 VDEGQWCFEMMQTDYGITPSLKHYGCMVDMYGRAGQLETALKFIKSMSLQPDAS--IWGA 625

Query:   407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI 466
             LLSA R+HG VD+   AS  L E   +    +V LSN YA AG+WE V  +RS     G+
Sbjct:   626 LLSACRVHGNVDLGKIASEHLFEVEPEHVGYHVLLSNMYASAGKWEGVDEIRSIAHGKGL 685

Query:   467 HKEPGCSWVEIRDQTYAFYAGNALFXXXXXXXXXXXXXXXKMKERGYVGGKTGLVFVDVE 526
              K PG S +E+ ++   FY GN                  K+K  GYV      V  DVE
Sbjct:   686 RKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMYRELTALQAKLKMIGYVPDHR-FVLQDVE 744

Query:   527 DEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVR 586
             D+ +E I+  HSERLA+AF LI+ P   TIRI KNLR+C DCH V K IS I ER+ +VR
Sbjct:   745 DDEKEHILMSHSERLAIAFALIATPAKTTIRIFKNLRVCGDCHSVTKFISKITEREIIVR 804

Query:   587 DVNRFHHFRNGSCSCGDFW 605
             D NRFHHF+NG CSCGD+W
Sbjct:   805 DSNRFHHFKNGVCSCGDYW 823

GO:0005739 "mitochondrion" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=NAS

TAIR|locus:2124137 DOT4 "DEFECTIVELY ORGANIZED TRIBUTARIES 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 1023 (365.2 bits), Expect = 2.9e-103, P = 2.9e-103
 Identities = 211/565 (37%), Positives = 333/565 (58%)

Query:    43 LISLA-SVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMA 101
             LISL  +VHS  +K+ F       N L++ Y +      A+ +F EM + +VVSYTS++A
Sbjct:   311 LISLGRAVHSIGVKACFSREDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIA 370

Query:   102 GYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQY 161
             GY   G    A+ LF++M    + P+ +T   V+  C+    L  GK++H  I+     +
Sbjct:   371 GYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGF 430

Query:   162 NLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFN 221
             ++ V ++L+DMY KC  +  A  VF  M  ++++SW +II  +++N   +EAL +F    
Sbjct:   431 DIFVSNALMDMYAKCGSMQEAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLL 490

Query:   222 YQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDV-VASALVDMYAKCGS 280
              + R  P++  +A V+ ACASL     G+  HG ++R+G  F+D  VA++LVDMYAKCG+
Sbjct:   491 EEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGY-FSDRHVANSLVDMYAKCGA 549

Query:   281 VNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHA 340
             +  +  +F+ I++  +V++T MI G   +G G+ ++ LFN+M   GI+ ++++FV +L+A
Sbjct:   550 LLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYA 609

Query:   341 CSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGG 400
             CSHSGLVDEG +  + M  +  I P  +HY C+VDML RTG L +AY+  +++ + PD  
Sbjct:   610 CSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDA- 668

Query:   401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSE 460
               +WG LL   R+H  V +A + + ++ E   +    YV ++N YA A +WE V  LR  
Sbjct:   669 -TIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKR 727

Query:   461 MKRTGIHKEPGCSWVEIRDQTYAFYAGNALFXXXXXXXXXXXXXXXKMKERGYVGGKTGL 520
             + + G+ K PGCSW+EI+ +   F AG++                 +M E GY    T  
Sbjct:   728 IGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETENIEAFLRKVRARMIEEGY-SPLTKY 786

Query:   521 VFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVE 580
               +D E+  +EE +  HSE+LA+A G+IS   G  IR+ KNLR+C DCH++ K +S +  
Sbjct:   787 ALIDAEEMEKEEALCGHSEKLAMALGIISSGHGKIIRVTKNLRVCGDCHEMAKFMSKLTR 846

Query:   581 RDFVVRDVNRFHHFRNGSCSCGDFW 605
             R+ V+RD NRFH F++G CSC  FW
Sbjct:   847 REIVLRDSNRFHQFKDGHCSCRGFW 871

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2155740 AT5G65570 [Arabidopsis thaliana (taxid:3702)]

 Score = 1015 (362.4 bits), Expect = 2.0e-102, P = 2.0e-102
 Identities = 219/551 (39%), Positives = 328/551 (59%)

Query:    59 LSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQK 118
             +SN F  + L++ YV+  KT+ A+ + D + E +VV  T+L+ GY   G+   A+  FQ 
Sbjct:   198 VSNVFVGSALVDMYVKFGKTREAKLVLDRVEEKDVVLITALIVGYSQKGEDTEAVKAFQS 257

Query:   119 MLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCND 178
             ML   V PNE+T+A+V+ +C  L D+  GK IH  +   GF+  L   +SL+ MY +C+ 
Sbjct:   258 MLVEKVQPNEYTYASVLISCGNLKDIGNGKLIHGLMVKSGFESALASQTSLLTMYLRCSL 317

Query:   179 VDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRD--RPNQHMLASV 236
             VD + RVF  +   N VSWTS+I    QN  G E + +  EF    RD  +PN   L+S 
Sbjct:   318 VDDSLRVFKCIEYPNQVSWTSLISGLVQN--GREEMALI-EFRKMMRDSIKPNSFTLSSA 374

Query:   237 INACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV 296
             +  C++L     G+  HG+V + G + +    S L+D+Y KCG  + +  VF+ +S   V
Sbjct:   375 LRGCSNLAMFEEGRQIHGIVTKYGFDRDKYAGSGLIDLYGKCGCSDMARLVFDTLSEVDV 434

Query:   297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDS 356
             ++  +MI   A+ G GR +LDLF  MI+ G++PNDVT + VL AC++S LV+EG +  DS
Sbjct:   435 ISLNTMIYSYAQNGFGREALDLFERMINLGLQPNDVTVLSVLLACNNSRLVEEGCELFDS 494

Query:   357 MYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGR 416
              +RK  I+    HY C+VD+LGR GRL+EA  L   + ++PD   +LW TLLSA ++H +
Sbjct:   495 -FRKDKIMLTNDHYACMVDLLGRAGRLEEAEMLTTEV-INPD--LVLWRTLLSACKVHRK 550

Query:   417 VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVE 476
             V++A   + +++E         + +SN YA  G+W  V  ++S+MK   + K P  SWVE
Sbjct:   551 VEMAERITRKILEIEPGDEGTLILMSNLYASTGKWNRVIEMKSKMKDMKLKKNPAMSWVE 610

Query:   477 IRDQTYAFYAGNALFXX--XXXXXXXXXXXXXKMKERGYVGGKTGLVFVDVEDEAREEIV 534
             I  +T+ F AG+ LF                 K K+ GYV  K+  VF D+E+ A+E  +
Sbjct:   611 INKETHTFMAGD-LFSHPNSEQILENLEELIKKSKDLGYVEDKS-CVFQDMEETAKERSL 668

Query:   535 GLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHF 594
               HSE+LA+AF +     G +IRI+KNLR+C DCH   K++S +++R+ + RD  RFHHF
Sbjct:   669 HQHSEKLAIAFAVWRNVGG-SIRILKNLRVCVDCHSWIKIVSRVMKREIICRDSKRFHHF 727

Query:   595 RNGSCSCGDFW 605
             R+GSCSCGD+W
Sbjct:   728 RDGSCSCGDYW 738

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2140235 AT4G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 1010 (360.6 bits), Expect = 6.9e-102, P = 6.9e-102
 Identities = 203/542 (37%), Positives = 323/542 (59%)

Query:    66 NHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVW 125
             N +I  Y +  K   ARQLFDE    +V ++T++++GYI     + A  LF KM      
Sbjct:   254 NTIITGYAQSGKIDEARQLFDESPVQDVFTWTAMVSGYIQNRMVEEARELFDKMPER--- 310

Query:   126 PNEFTFATVIKACSMLADLITGKQIHTHIETFGFQ--YNLVVCSSLVDMYGKCNDVDGAR 183
              NE ++       +MLA  + G+++    E F      N+   ++++  Y +C  +  A+
Sbjct:   311 -NEVSWN------AMLAGYVQGERMEMAKELFDVMPCRNVSTWNTMITGYAQCGKISEAK 363

Query:   184 RVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASL 243
              +FD M  R+ VSW ++I  ++Q+    EAL +F +   +   R N+   +S ++ CA +
Sbjct:   364 NLFDKMPKRDPVSWAAMIAGYSQSGHSFEALRLFVQMEREG-GRLNRSSFSSALSTCADV 422

Query:   244 GRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMI 303
               L  GK  HG +V+ G E    V +AL+ MY KCGS+  ++ +F  ++   +V++ +MI
Sbjct:   423 VALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEANDLFKEMAGKDIVSWNTMI 482

Query:   304 VGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGI 363
              G +++G G  +L  F  M   G+KP+D T V VL ACSH+GLVD+G Q+  +M + YG+
Sbjct:   483 AGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTGLVDKGRQYFYTMTQDYGV 542

Query:   364 IPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEA 423
             +P+++HY C+VD+LGR G L++A+ L K++  +PD    +WGTLL ASR+HG  ++A  A
Sbjct:   543 MPNSQHYACMVDLLGRAGLLEDAHNLMKNMPFEPDAA--IWGTLLGASRVHGNTELAETA 600

Query:   424 SNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYA 483
             ++++     + +  YV LSN YA +G W +V  LR  M+  G+ K PG SW+EI+++T+ 
Sbjct:   601 ADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGVKKVPGYSWIEIQNKTHT 660

Query:   484 FYAGNALFXXXXXXXXXXXXXXXKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLAL 543
             F  G+                  +MK+ GYV  KT +V  DVE+E +E +V  HSERLA+
Sbjct:   661 FSVGDEFHPEKDEIFAFLEELDLRMKKAGYVS-KTSVVLHDVEEEEKERMVRYHSERLAV 719

Query:   544 AFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGD 603
             A+G++ +  G  IR++KNLR+C DCH+  K ++ I  R  ++RD NRFHHF++GSCSCGD
Sbjct:   720 AYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRDNNRFHHFKDGSCSCGD 779

Query:   604 FW 605
             +W
Sbjct:   780 YW 781

GO:0005739 "mitochondrion" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8VYH0	PP313_ARATH	No assigned EC number	0.5795	1.0	0.9821	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

Your Input: GSVIVG00019786001 SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (594 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	605
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-144
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-143
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-58
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-55
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-35
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-22
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	5e-16
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	7e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.003

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

 Score =  433 bits (1115), Expect = e-144
 Identities = 189/560 (33%), Positives = 320/560 (57%), Gaps = 6/560 (1%)

Query: 47  ASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINM 106
            +V+  +  SGF  + + +N ++  +V+      AR+LFDEM E N+ S+ +++ G ++ 
Sbjct: 143 KAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDA 202

Query: 107 GQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVC 166
           G  + A  LF++M  +       TF  +++A + L     G+Q+H  +   G   +  V 
Sbjct: 203 GNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVS 262

Query: 167 SSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRD 226
            +L+DMY KC D++ AR VFD M  +  V+W S++  +A +    EAL ++ E    S  
Sbjct: 263 CALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMR-DSGV 321

Query: 227 RPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDK 286
             +Q   + +I   + L  L   K AH  ++R+G   + V  +ALVD+Y+K G +  +  
Sbjct: 322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARN 381

Query: 287 VFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGL 346
           VF+R+   +++++ ++I G   +G G  ++++F  MI+ G+ PN VTF+ VL AC +SGL
Sbjct: 382 VFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGL 441

Query: 347 VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGT 406
            ++G +   SM   + I P A HY C++++LGR G LDEAY + +     P     +W  
Sbjct: 442 SEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVN--MWAA 499

Query: 407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI 466
           LL+A R+H  +++   A+ +L     +  N YV L N Y  +G       +   +KR G+
Sbjct: 500 LLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGL 559

Query: 467 HKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVE 526
              P C+W+E++ Q ++F++G+ L  +  E+   L EL +++ E GYV  +  L+  DV 
Sbjct: 560 SMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELL-PDV- 617

Query: 527 DEAREEIVGL-HSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVV 585
           DE  E++ G  HSE+LA+AFGLI+  +   ++I ++ R+C+DCH V K I+ + +R+ VV
Sbjct: 618 DEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVV 677

Query: 586 RDVNRFHHFRNGSCSCGDFW 605
           RD +RFHHF+ G CSCGD+W
Sbjct: 678 RDASRFHHFKLGKCSCGDYW 697

Length = 697

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

 Score =  436 bits (1124), Expect = e-143
 Identities = 211/555 (38%), Positives = 327/555 (58%), Gaps = 7/555 (1%)

Query: 49  VHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQ 108
           +H  ++K+GF  +    N LI  Y+ L     A ++F  M   + VS+T++++GY   G 
Sbjct: 310 MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGL 369

Query: 109 PQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSS 168
           P  AL  +  M  + V P+E T A+V+ AC+ L DL  G ++H   E  G    +VV ++
Sbjct: 370 PDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANA 429

Query: 169 LVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRP 228
           L++MY KC  +D A  VF  +  ++V+SWTSII     N +  EAL  FR+     +  P
Sbjct: 430 LIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLK--P 487

Query: 229 NQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVF 288
           N   L + ++ACA +G L+ GK  H  V+R+G  F+  + +AL+D+Y +CG +NY+   F
Sbjct: 488 NSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF 547

Query: 289 NRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVD 348
           N      VV++  ++ G   +G G  +++LFN M+  G+ P++VTF+ +L ACS SG+V 
Sbjct: 548 N-SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVT 606

Query: 349 EGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLL 408
           +G+++  SM  KY I P+ KHY CVVD+LGR G+L EAY     + + PD  P +WG LL
Sbjct: 607 QGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD--PAVWGALL 664

Query: 409 SASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHK 468
           +A R+H  V++   A+  + E +      Y+ L N YA AG+W+ V  +R  M+  G+  
Sbjct: 665 NACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTV 724

Query: 469 EPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDE 528
           +PGCSWVE++ + +AF   +    +  E+ ++L     KMK  G  G ++    +D  + 
Sbjct: 725 DPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESS--SMDEIEV 782

Query: 529 AREEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVERDFVVRDV 588
           ++++I   HSERLA+AFGLI+   G+ I + KNL MC +CH+  K IS IV R+  VRD 
Sbjct: 783 SKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDT 842

Query: 589 NRFHHFRNGSCSCGD 603
            +FHHF++G CSCGD
Sbjct: 843 EQFHHFKDGECSCGD 857

Length = 857

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

 Score =  209 bits (533), Expect = 3e-58
 Identities = 123/397 (30%), Positives = 206/397 (51%), Gaps = 10/397 (2%)

Query: 37  LQECKHLISLA---SVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNV 93
           L+ C  +  LA    VH+ +++ GF  +   +N LI  YV+      AR +FD M   + 
Sbjct: 194 LRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDC 253

Query: 94  VSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTH 153
           +S+ ++++GY   G+    L LF  M    V P+  T  +VI AC +L D   G+++H +
Sbjct: 254 ISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGY 313

Query: 154 IETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEA 213
           +   GF  ++ VC+SL+ MY        A +VF  M  ++ VSWT++I  + +N    +A
Sbjct: 314 VVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKA 373

Query: 214 LEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVD 273
           LE +      +   P++  +ASV++ACA LG L  G   H +  R G     VVA+AL++
Sbjct: 374 LETYALMEQDNV-SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIE 432

Query: 274 MYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVT 333
           MY+KC  ++ + +VF+ I    V+++TS+I G         +L  F +M+   +KPN VT
Sbjct: 433 MYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVT 491

Query: 334 FVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI 393
            +  L AC+  G +  G + + +   + GI  D      ++D+  R GR++ A+    S 
Sbjct: 492 LIAALSACARIGALMCG-KEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH 550

Query: 394 QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIES 430
           + D       W  LL+    HG+  +AVE  N+++ES
Sbjct: 551 EKDVVS----WNILLTGYVAHGKGSMAVELFNRMVES 583

Length = 857

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

 Score =  200 bits (511), Expect = 3e-55
 Identities = 111/354 (31%), Positives = 195/354 (55%), Gaps = 11/354 (3%)

Query: 66  NHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVW 125
           N +++ +VR  +   A  +F +M E ++ S+  L+ GY   G    AL L+ +ML   V 
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 126 PNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRV 185
           P+ +TF  V++ C  + DL  G+++H H+  FGF+ ++ V ++L+ MY KC DV  AR V
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 186 FDLMGCRNVVSWTSIIVAHAQNAQGHEALEMF---REFNYQSRDRPNQHMLASVINACAS 242
           FD M  R+ +SW ++I  + +N +  E LE+F   RE +      P+   + SVI+AC  
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVD----PDLMTITSVISACEL 300

Query: 243 LGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSM 302
           LG    G+  HG VV++G   +  V ++L+ MY   GS   ++KVF+R+     V++T+M
Sbjct: 301 LGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAM 360

Query: 303 IVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYG 362
           I G  K GL   +L+ +  M    + P+++T   VL AC+  G +D G++ L  +  + G
Sbjct: 361 ISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVK-LHELAERKG 419

Query: 363 IIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGR 416
           +I        +++M  +   +D+A ++  +I   P+   + W ++++  RL+ R
Sbjct: 420 LISYVVVANALIEMYSKCKCIDKALEVFHNI---PEKDVISWTSIIAGLRLNNR 470

Length = 857

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

 Score =  140 bits (354), Expect = 5e-35
 Identities = 87/311 (27%), Positives = 152/311 (48%), Gaps = 7/311 (2%)

Query: 130 TFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLM 189
           T+  +++AC  L  +   K ++ H+E+ GF+ +  + + ++ M+ KC  +  ARR+FD M
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 190 GCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSG 249
             RN+ SW +II          EA  +FRE  ++            ++ A A LG   +G
Sbjct: 185 PERNLASWGTIIGGLVDAGNYREAFALFREM-WEDGSDAEPRTFVVMLRASAGLGSARAG 243

Query: 250 KVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKY 309
           +  H  V+++G   +  V+ AL+DMY+KCG +  +  VF+ +   + V + SM+ G A +
Sbjct: 244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALH 303

Query: 310 GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKH 369
           G    +L L+ EM   G+  +  TF  ++   S   L++   Q    + R  G   D   
Sbjct: 304 GYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT-GFPLDIVA 362

Query: 370 YTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIE 429
            T +VD+  + GR+++A  +   +   P    + W  L++    HGR   AVE   ++I 
Sbjct: 363 NTALVDLYSKWGRMEDARNVFDRM---PRKNLISWNALIAGYGNHGRGTKAVEMFERMIA 419

Query: 430 SNQQVANAYVT 440
               VA  +VT
Sbjct: 420 EG--VAPNHVT 428

Length = 697

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

 Score =  101 bits (253), Expect = 3e-22
 Identities = 76/317 (23%), Positives = 140/317 (44%), Gaps = 7/317 (2%)

Query: 107 GQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVC 166
           GQ + AL L + M    V  +E  +  + + C     +  G ++ +   +      + + 
Sbjct: 65  GQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLG 124

Query: 167 SSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRD 226
           ++++ M+ +  ++  A  VF  M  R++ SW  ++  +A+     EAL ++    +    
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGV- 183

Query: 227 RPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDK 286
           RP+ +    V+  C  +  L  G+  H  VVR G E +  V +AL+ MY KCG V  +  
Sbjct: 184 RPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARL 243

Query: 287 VFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGL 346
           VF+R+     +++ +MI G  + G     L+LF  M    + P+ +T   V+ AC   G 
Sbjct: 244 VFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG- 302

Query: 347 VDEGI-QHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWG 405
            DE + + +     K G   D      ++ M    G   EA K+   ++       + W 
Sbjct: 303 -DERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK---DAVSWT 358

Query: 406 TLLSASRLHGRVDIAVE 422
            ++S    +G  D A+E
Sbjct: 359 AMISGYEKNGLPDKALE 375

Length = 857

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

 Score = 74.0 bits (182), Expect = 5e-16
 Identities = 45/131 (34%), Positives = 64/131 (48%), Gaps = 20/131 (15%)

Query: 470 PGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEA 529
           PGC W E         +G+       E L    ++E  + E   +G       VD E+  
Sbjct: 1   PGCVWSEG----KKTLSGDGSHPTSKEELFQRIKVEGVVPETKEIGHD-----VDAEEFR 51

Query: 530 REEIVGL----HSERLALAFGLISIPKGITIRIMKNL-RMCRDCHDVFKLISDIVERDFV 584
              I G     H+E+ ALA+GL+      T RI+K L RMC DCH+ F+ I+    R+ +
Sbjct: 52  DNGIKGKLLASHAEKQALAYGLL------TTRIIKVLKRMCGDCHEFFRYIAKYTGREII 105

Query: 585 VRDVNRFHHFR 595
           VRD +RFHHF+
Sbjct: 106 VRDPSRFHHFK 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 73.8 bits (181), Expect = 1e-13
 Identities = 57/247 (23%), Positives = 109/247 (44%), Gaps = 4/247 (1%)

Query: 184 RVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASL 243
           R+ D    ++ VS  S I       +  EALE+F                 +++ AC +L
Sbjct: 77  RLDDTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIAL 136

Query: 244 GRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMI 303
             +   K  +  V  SG E +  + + ++ M+ KCG +  + ++F+ +   ++ ++ ++I
Sbjct: 137 KSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTII 196

Query: 304 VGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGI 363
            G    G  R +  LF EM   G      TFV +L A +  G    G Q L     K G+
Sbjct: 197 GGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG-QQLHCCVLKTGV 255

Query: 364 IPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEA 423
           + D      ++DM  + G +++A  +   +   P+   + W ++L+   LHG  + A+  
Sbjct: 256 VGDTFVSCALIDMYSKCGDIEDARCVFDGM---PEKTTVAWNSMLAGYALHGYSEEALCL 312

Query: 424 SNQLIES 430
             ++ +S
Sbjct: 313 YYEMRDS 319

Length = 697

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

 Score = 70.3 bits (172), Expect = 2e-12
 Identities = 55/238 (23%), Positives = 108/238 (45%), Gaps = 25/238 (10%)

Query: 163 LVVCSSLVDMYGKCNDVDGARRVFDLMGCR----NVVSWTSIIVAHAQNAQGHEALEMFR 218
           + VC+S         D+DGA RV  L+       +   +T++I   A++ +     E+F 
Sbjct: 444 MSVCAS-------SQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFH 496

Query: 219 EFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC 278
           E    +    N H   ++I+ CA  G++     A+G++     + + VV +AL+   + C
Sbjct: 497 EMV-NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALI---SAC 552

Query: 279 GSVNYSDKVFNRIS---------NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP 329
           G     D+ F+ ++         +P  +T  +++   A  G    + +++  +    IK 
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG 612

Query: 330 NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAY 387
               +   +++CS  G  D  +   D M +K G+ PD   ++ +VD+ G  G LD+A+
Sbjct: 613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSALVDVAGHAGDLDKAF 669

Length = 1060

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

 Score = 55.1 bits (134), Expect = 4e-10
 Identities = 22/50 (44%), Positives = 28/50 (56%)

Query: 294 PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH 343
           P VVTY ++I G  K G    +L LFNEM  RGIKPN  T+  ++     
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 54.7 bits (133), Expect = 5e-10
 Identities = 17/48 (35%), Positives = 29/48 (60%)

Query: 91  PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKAC 138
           P+VV+Y +L+ GY   G+ + AL LF +M    + PN +T++ +I   
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 52.0 bits (126), Expect = 5e-09
 Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 4/47 (8%)

Query: 61  NTFTLNHLINCYVRLKKTQVARQLFDEM----LEPNVVSYTSLMAGY 103
           +  T N LI+ Y +  K + A +LF+EM    ++PNV +Y+ L+ G 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 57.2 bits (138), Expect = 2e-08
 Identities = 47/180 (26%), Positives = 87/180 (48%), Gaps = 21/180 (11%)

Query: 299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMY 358
           YT++I   AK G      ++F+EM++ G++ N  TF  ++  C+ +G V +        +
Sbjct: 475 YTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA-------F 527

Query: 359 RKYGII------PDAKHYTCVVDMLGRTGRLDEAYKL-----AKSIQVDPDGGPLLWGTL 407
             YGI+      PD   +  ++   G++G +D A+ +     A++  +DPD   +  G L
Sbjct: 528 GAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDH--ITVGAL 585

Query: 408 LSASRLHGRVDIAVEASNQLIESN-QQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI 466
           + A    G+VD A E    + E N +     Y    N+ +  G+W+   S+  +MK+ G+
Sbjct: 586 MKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGV 645

Length = 1060

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

 Score = 48.3 bits (115), Expect = 1e-05
 Identities = 65/336 (19%), Positives = 127/336 (37%), Gaps = 55/336 (16%)

Query: 203 AHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE 262
           +H Q  Q  + LE  +E     R   ++    ++   C     +  G       + S   
Sbjct: 63  SHGQLEQALKLLESMQEL----RVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPS 118

Query: 263 FNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEM 322
               + +A++ M+ + G + ++  VF ++    + ++  ++ G AK G    +L L++ M
Sbjct: 119 LGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRM 178

Query: 323 ISRGIKPNDVTFVGVLHACS-----------HSGLVDEG-------IQHLDSMYRKYGII 364
           +  G++P+  TF  VL  C            H+ +V  G       +  L +MY K G +
Sbjct: 179 LWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDV 238

Query: 365 PDAKHYTCVVDMLGRTGRLD------------------EAYKLAKSIQVDPDGGPLLWGT 406
             A+    V D + R   +                   E +   + + VDPD   +   +
Sbjct: 239 VSARL---VFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT--S 293

Query: 407 LLSASRLHGRVDIAVEASNQLIESNQQVANA-YVTLSNTYALAGEWENVHSLRSEMKRTG 465
           ++SA  L G   +  E    ++++   V  +   +L   Y   G W     + S M+   
Sbjct: 294 VISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKD 353

Query: 466 IHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLL 501
                  SW  +     + Y  N L ++  E  +L+
Sbjct: 354 A-----VSWTAM----ISGYEKNGLPDKALETYALM 380

Length = 857

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

 Score = 47.9 bits (114), Expect = 1e-05
 Identities = 65/323 (20%), Positives = 131/323 (40%), Gaps = 46/323 (14%)

Query: 83  QLFDEM----LEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKAC 138
           ++F EM    +E NV ++ +L+ G    GQ   A   +  M    V P+   F  +I AC
Sbjct: 493 EVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISAC 552

Query: 139 S----------MLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDL 188
                      +LA++          ET     + +   +L+        VD A+ V+ +
Sbjct: 553 GQSGAVDRAFDVLAEMKA--------ETHPIDPDHITVGALMKACANAGQVDRAKEVYQM 604

Query: 189 MGCRNVVS----WTSIIVAHAQNAQGHEALEMFREFNYQSRD--RPNQHMLASVINACAS 242
           +   N+      +T  + + +Q      AL ++ +     +   +P++   +++++    
Sbjct: 605 IHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMK---KKGVKPDEVFFSALVDVAGH 661

Query: 243 LGRLVSGKVAHGVVV---RSGCEFNDVVASALVDMYAKCGSVNYSD--KVFNRIS----N 293
            G L     A  ++    + G +   V  S+L  M A   + N+    +++  I      
Sbjct: 662 AGDL---DKAFEILQDARKQGIKLGTVSYSSL--MGACSNAKNWKKALELYEDIKSIKLR 716

Query: 294 PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQH 353
           P+V T  ++I    +      +L++ +EM   G+ PN +T+  +L A       D G+  
Sbjct: 717 PTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLD- 775

Query: 354 LDSMYRKYGIIPDAKHYTCVVDM 376
           L S  ++ GI P+     C+  +
Sbjct: 776 LLSQAKEDGIKPNLVMCRCITGL 798

Length = 1060

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

 Score = 46.4 bits (110), Expect = 5e-05
 Identities = 61/279 (21%), Positives = 111/279 (39%), Gaps = 50/279 (17%)

Query: 66  NHLINCYVRLKKTQVARQLFDEM------LEPNVVSYTSLMAGYINMGQPQIALLLFQKM 119
           N LI+   +      A  +  EM      ++P+ ++  +LM    N GQ   A  ++Q +
Sbjct: 546 NALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI 605

Query: 120 LGNLV--WPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCN 177
               +   P  +T A  + +CS   D      I+  ++  G + + V  S+LVD+ G   
Sbjct: 606 HEYNIKGTPEVYTIA--VNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAG 663

Query: 178 DVDGARRVFDLM---GCR-NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHML 233
           D+D A  +       G +   VS++S++ A +      +ALE++ +     + RP    +
Sbjct: 664 DLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK-SIKLRPTVSTM 722

Query: 234 ASVINACASLGRLVSGKVAHGVVVRSGCEFNDV--VASALVDMYAKCGSVNYSDKVFNRI 291
            ++I A                     CE N +      L +M           K     
Sbjct: 723 NALITAL--------------------CEGNQLPKALEVLSEM-----------KRLGLC 751

Query: 292 SNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN 330
             P+ +TY+ ++V + +       LDL ++    GIKPN
Sbjct: 752 --PNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPN 788

Length = 1060

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

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 16/35 (45%), Positives = 22/35 (62%)

Query: 297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND 331
           VTY ++I G  K G    +L+LF EM  RGI+P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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|144943 pfam01535, PPR, PPR repeat

 Score = 36.7 bits (86), Expect = 7e-04
 Identities = 14/31 (45%), Positives = 19/31 (61%)

Query: 297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGI 327
           VTY S+I G  K G    +L+LF EM  +G+
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 35.8 bits (84), Expect = 0.003
 Identities = 13/44 (29%), Positives = 27/44 (61%), Gaps = 4/44 (9%)

Query: 162 NLVVCSSLVDMYGKCNDVDGARRVFDLM---GCR-NVVSWTSII 201
           ++V  ++L+D Y K   V+ A ++F+ M   G + NV +++ +I
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILI 45

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	605
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	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
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.97
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
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.9
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.89
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.89
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.84
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.8
PRK14574	822	hmsH outer membrane protein; Provisional	99.78
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.77
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.76
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
PRK14574	822	hmsH outer membrane protein; Provisional	99.75
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.66
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.59
KOG2076	895	consensus RNA polymerase III transcription factor	99.58
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.58
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.57
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.52
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.5
KOG2003	840	consensus TPR repeat-containing protein [General f	99.5
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.49
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.48
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.48
KOG1126	638	consensus DNA-binding cell division cycle control	99.46
KOG2003	840	consensus TPR repeat-containing protein [General f	99.46
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.46
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.46
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.45
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.45
KOG2076	895	consensus RNA polymerase III transcription factor	99.44
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.39
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.38
PF13041	50	PPR_2: PPR repeat family	99.36
KOG1126	638	consensus DNA-binding cell division cycle control	99.34
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.34
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.34
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.33
PF13041	50	PPR_2: PPR repeat family	99.33
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.33
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.32
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.32
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.32
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.31
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.21
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.2
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.2
PRK12370	553	invasion protein regulator; Provisional	99.19
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.19
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.16
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.16
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.12
PRK12370	553	invasion protein regulator; Provisional	99.1
KOG1129	478	consensus TPR repeat-containing protein [General f	99.07
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.07
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.05
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.04
PRK11189	296	lipoprotein NlpI; Provisional	99.02
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.0
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.99
KOG1129	478	consensus TPR repeat-containing protein [General f	98.98
PRK11189	296	lipoprotein NlpI; Provisional	98.91
KOG1125	579	consensus TPR repeat-containing protein [General f	98.9
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.87
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.86
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.85
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.79
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.78
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.78
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.76
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.76
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.76
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.76
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.76
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.75
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.74
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.72
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.71
PRK04841	903	transcriptional regulator MalT; Provisional	98.7
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.67
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.67
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.67
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.66
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.64
PF12854	34	PPR_1: PPR repeat	98.63
PF12854	34	PPR_1: PPR repeat	98.62
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.6
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.6
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.59
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.57
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.55
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.49
PRK15359	144	type III secretion system chaperone protein SscB;	98.47
PLN02789	320	farnesyltranstransferase	98.46
PRK15359	144	type III secretion system chaperone protein SscB;	98.46
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.41
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.41
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.4
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.39
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.38
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.38
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.34
PRK04841	903	transcriptional regulator MalT; Provisional	98.32
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.32
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.28
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.27
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.26
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.26
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.25
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.24
KOG1125	579	consensus TPR repeat-containing protein [General f	98.23
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.22
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.18
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.16
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.14
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.1
PLN02789	320	farnesyltranstransferase	98.09
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.08
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.07
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.07
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.05
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.04
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.0
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.99
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.9
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.87
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.86
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.86
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.85
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.85
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.84
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.79
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.79
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.76
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.76
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.75
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.7
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.66
PRK15331	165	chaperone protein SicA; Provisional	97.65
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.63
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.61
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.56
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.52
KOG0553	304	consensus TPR repeat-containing protein [General f	97.49
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.47
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.47
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.47
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.42
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.36
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.36
PF13371	73	TPR_9: Tetratricopeptide repeat	97.33
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.32
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.32
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.28
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.28
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.27
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.21
KOG0553	304	consensus TPR repeat-containing protein [General f	97.21
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.2
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.19
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.19
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.17
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.16
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.15
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.13
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.12
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.1
PF13431	34	TPR_17: Tetratricopeptide repeat	97.05
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.03
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.02
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.02
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.01
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.0
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.97
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.96
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.96
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.92
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.9
PF12688	120	TPR_5: Tetratrico peptide repeat	96.85
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.79
PRK10803	263	tol-pal system protein YbgF; Provisional	96.78
PF13428	44	TPR_14: Tetratricopeptide repeat	96.77
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.76
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.75
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.72
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.71
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.67
PF12688	120	TPR_5: Tetratrico peptide repeat	96.63
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.63
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.59
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.55
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.53
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.46
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.44
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.41
PF13371	73	TPR_9: Tetratricopeptide repeat	96.34
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.1
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.05
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.01
PRK10803	263	tol-pal system protein YbgF; Provisional	95.92
KOG3941	406	consensus Intermediate in Toll signal transduction	95.88
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.84
KOG4555	175	consensus TPR repeat-containing protein [Function	95.84
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.84
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.79
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.65
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.64
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	95.59
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.59
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.45
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.32
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.26
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.19
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.18
PF13512	142	TPR_18: Tetratricopeptide repeat	95.16
PRK11619	644	lytic murein transglycosylase; Provisional	95.14
PRK11906	458	transcriptional regulator; Provisional	94.99
KOG2041	1189	consensus WD40 repeat protein [General function pr	94.93
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.81
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.79
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.64
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.56
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.51
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.4
KOG1585	308	consensus Protein required for fusion of vesicles	94.27
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	94.23
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	94.22
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.16
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.09
KOG3941	406	consensus Intermediate in Toll signal transduction	93.97
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.89
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.88
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.73
PRK11906	458	transcriptional regulator; Provisional	93.73
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.5
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.45
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.45
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	93.42
PF13512	142	TPR_18: Tetratricopeptide repeat	93.4
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.38
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	93.24
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.14
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.73
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.52
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	92.48
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	92.11
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.94
PRK15331	165	chaperone protein SicA; Provisional	91.54
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.48
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.21
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.08
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.06
COG0457	291	NrfG FOG: TPR repeat [General function prediction	90.97
COG4105	254	ComL DNA uptake lipoprotein [General function pred	90.97
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.89
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.65
smart00299	140	CLH Clathrin heavy chain repeat homology.	90.41
KOG1585	308	consensus Protein required for fusion of vesicles	90.33
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.03
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.02
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.98
KOG4234	271	consensus TPR repeat-containing protein [General f	89.86
KOG4555	175	consensus TPR repeat-containing protein [Function	89.77
PF13428	44	TPR_14: Tetratricopeptide repeat	89.59
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	89.42
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.1
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.76
KOG4570	418	consensus Uncharacterized conserved protein [Funct	88.73
PRK11619	644	lytic murein transglycosylase; Provisional	88.68
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	88.35
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	88.35
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	88.32
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	88.26
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	88.13
PRK09687	280	putative lyase; Provisional	88.05
KOG1258	577	consensus mRNA processing protein [RNA processing	87.48
COG4105	254	ComL DNA uptake lipoprotein [General function pred	87.38
PRK09687	280	putative lyase; Provisional	87.33
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.58
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	86.55
KOG2610	491	consensus Uncharacterized conserved protein [Funct	86.04
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.01
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	85.69
COG1747	711	Uncharacterized N-terminal domain of the transcrip	85.3
PF13431	34	TPR_17: Tetratricopeptide repeat	85.28
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	85.26
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	85.23
KOG4648	536	consensus Uncharacterized conserved protein, conta	84.8
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	84.79
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.12
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	83.86
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	83.5
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	83.35
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	83.24
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	83.17
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	82.69
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	82.46
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	82.43
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	82.26
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	82.19
KOG4648	536	consensus Uncharacterized conserved protein, conta	81.87
PRK10941	269	hypothetical protein; Provisional	81.81
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	81.74
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	81.72
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	81.38
PF13929	292	mRNA_stabil: mRNA stabilisation	81.21
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	80.85
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	80.6
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	80.53
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	80.5
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	80.35
KOG4570	418	consensus Uncharacterized conserved protein [Funct	80.34
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	80.17

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

Probab=100.00  E-value=4.8e-123  Score=1009.92  Aligned_cols=600  Identities=31%  Similarity=0.576  Sum_probs=590.2

Q ss_pred             chhhhhccchHHHHHHHHHhhhCC-CCCChhhHHHHHHHhhChhHH---HHHHHHHHHhCCCCchHHHHHHHHHHHcCCC
Q 039695            2 KKSLTRNLIFTLAASSLTRQNKRS-SCHTKAHFIQQLQECKHLISL---ASVHSEILKSGFLSNTFTLNHLINCYVRLKK   77 (605)
Q Consensus         2 ~~~l~~~~~~~~a~~~l~~m~~~g-~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~   77 (605)
                      ++.+.+.|++++|+++|.+|...+ ..|+..||..++.+|.+.+..   .++|..|.+.|+.||+.+||.|+++|+++|+
T Consensus        94 i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~  173 (697)
T PLN03081         94 IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGM  173 (697)
T ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCC
Confidence            456788999999999999998764 789999999999999988766   8999999999999999999999999999999


Q ss_pred             hhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh
Q 039695           78 TQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETF  157 (605)
Q Consensus        78 ~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  157 (605)
                      +++|.++|++|++||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|..+.+.++|..+.+.
T Consensus       174 ~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~  253 (697)
T PLN03081        174 LIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKT  253 (697)
T ss_pred             HHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHH
Q 039695          158 GFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVI  237 (605)
Q Consensus       158 g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll  237 (605)
                      |+.||..++|+|+++|+++|++++|.++|++|+.+|+++||+||.+|++.|++++|+++|++|...| +.||..||++++
T Consensus       254 g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g-~~pd~~t~~~ll  332 (697)
T PLN03081        254 GVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSG-VSIDQFTFSIMI  332 (697)
T ss_pred             CCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999 999999999999


Q ss_pred             HhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHH
Q 039695          238 NACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLD  317 (605)
Q Consensus       238 ~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  317 (605)
                      .+|++.|.+++|.++|..|.+.|++||..++++|+++|+++|++++|.++|++|.+||+++||+||.+|+++|+.++|++
T Consensus       333 ~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~  412 (697)
T PLN03081        333 RIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVE  412 (697)
T ss_pred             HHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC
Q 039695          318 LFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDP  397 (605)
Q Consensus       318 l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  397 (605)
                      +|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+++|+.|+..+|++++++|++.|++++|.+++++|+..|
T Consensus       413 lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p  492 (697)
T PLN03081        413 MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKP  492 (697)
T ss_pred             HHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCC
Confidence            99999999999999999999999999999999999999998888999999999999999999999999999999999999


Q ss_pred             CchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCceeEEEe
Q 039695          398 DGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEI  477 (605)
Q Consensus       398 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~  477 (605)
                      +  ..+|++|+.+|+.+|+++.|..+++++++++|++..+|..|+++|++.|+|++|.++++.|+++|+++.||+||+++
T Consensus       493 ~--~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~  570 (697)
T PLN03081        493 T--VNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEV  570 (697)
T ss_pred             C--HHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEE
Confidence            9  99999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCEEeeeeccccCccchHHHHHHHHHHHHHHHHCCccCCCccccccccchhhhhhhhhhhhHHHHHHHcccCCCCCCcEE
Q 039695          478 RDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIR  557 (605)
Q Consensus       478 ~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~h~e~~a~~~~~~~~~~~~~~~  557 (605)
                      ++.+|.|++||..||+.+++++.++++..+|++.||.|| +++++|++++++|+..+.+||||||++|||+++|+|.|||
T Consensus       571 ~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~-~~~~~~~~~~~~~~~~~~~hsekla~a~~l~~~~~~~~i~  649 (697)
T PLN03081        571 KKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAE-ENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQ  649 (697)
T ss_pred             CCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCC-cchhhccccHHHHHHHHHhccHHHHHHhhCccCCCCCeEE
Confidence            999999999999999999999999999999999999999 8999999999999999999999999999999999999999


Q ss_pred             EEecccccCCchhhhHhhhhhccceEEEecCCcccccccccccCCCCC
Q 039695          558 IMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGDFW  605 (605)
Q Consensus       558 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~g~~~~~~~w  605 (605)
                      |+||||+|+|||+|+|+||++.+|+|||||++|||||+||+|||+|||
T Consensus       650 i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        650 ITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             EecCCEECCCchhhHHHHhhhcceEEEEecCCccccCCCCcccccccC
Confidence            999999999999999999999999999999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=9.3e-119  Score=999.20  Aligned_cols=596  Identities=36%  Similarity=0.666  Sum_probs=584.7

Q ss_pred             CchhhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChhHH---HHHHHHHHHhCCCCchHHHHHHHHHHHcCCC
Q 039695            1 MKKSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISL---ASVHSEILKSGFLSNTFTLNHLINCYVRLKK   77 (605)
Q Consensus         1 l~~~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~   77 (605)
                      |+..+.+.|++++|+++|.+|.+.|+.||..||..++.+|.+.++.   +++|..+.+.|+.||..+||+||.+|+++|+
T Consensus       259 li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~  338 (857)
T PLN03077        259 MISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS  338 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCC
Confidence            4567899999999999999999999999999999999999988877   8999999999999999999999999999999


Q ss_pred             hhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh
Q 039695           78 TQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETF  157 (605)
Q Consensus        78 ~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  157 (605)
                      +++|.++|++|.+||+++||++|.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|+++.|.++|+.+.+.
T Consensus       339 ~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~  418 (857)
T PLN03077        339 WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK  418 (857)
T ss_pred             HHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHH
Q 039695          158 GFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVI  237 (605)
Q Consensus       158 g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll  237 (605)
                      |+.|+..++|+|+++|+++|++++|.++|++|.++|+++||+||.+|++.|+.++|+++|++|.. + ++||..||+.++
T Consensus       419 g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~-~~pd~~t~~~lL  496 (857)
T PLN03077        419 GLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-T-LKPNSVTLIAAL  496 (857)
T ss_pred             CCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-C-CCCCHhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999985 5 899999999999


Q ss_pred             HhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHH
Q 039695          238 NACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLD  317 (605)
Q Consensus       238 ~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  317 (605)
                      .+|++.|.++.+.++|..+.+.|+.++..++|+|+++|+|+|++++|.++|+.+ .+|+++||+||.+|+++|+.++|++
T Consensus       497 ~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~  575 (857)
T PLN03077        497 SACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVE  575 (857)
T ss_pred             HHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999 9999999999999999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC
Q 039695          318 LFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDP  397 (605)
Q Consensus       318 l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  397 (605)
                      +|++|.+.|+.||..||+.+|.+|++.|.+++|.++|+.|.+++|+.|+..+|++++++|+++|++++|.+++++|+.+|
T Consensus       576 lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~p  655 (857)
T PLN03077        576 LFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITP  655 (857)
T ss_pred             HHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCC
Confidence            99999999999999999999999999999999999999997789999999999999999999999999999999999999


Q ss_pred             CchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCceeEEEe
Q 039695          398 DGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEI  477 (605)
Q Consensus       398 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~  477 (605)
                      +  ..+|++|+.+|..+|+.+.|+.+.+++++++|+++..|..|+++|++.|+|++|.++++.|+++|++|+||+|||++
T Consensus       656 d--~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~  733 (857)
T PLN03077        656 D--PAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEV  733 (857)
T ss_pred             C--HHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEE
Confidence            9  99999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCEEeeeeccccCccchHHHHHHHHHHHHHHHHCCccCCCccccccccchhhhhhhhhhhhHHHHHHHcccCCCCCCcEE
Q 039695          478 RDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIR  557 (605)
Q Consensus       478 ~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~h~e~~a~~~~~~~~~~~~~~~  557 (605)
                      ++.+|.|++||.+||+.++|+..|+++..+|++.||.|| +++++ ++++++|+..+++||||||++|||+++|++.|||
T Consensus       734 ~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~-~~~~~-~~~~~~k~~~~~~hse~la~a~~l~~~~~~~~i~  811 (857)
T PLN03077        734 KGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGS-ESSSM-DEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIW  811 (857)
T ss_pred             CCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCC-cchhc-cccHHHHHHHHHhccHHHHHHHhhhcCCCCCeEE
Confidence            999999999999999999999999999999999999999 77777 4578899999999999999999999999999999


Q ss_pred             EEecccccCCchhhhHhhhhhccceEEEecCCcccccccccccCCC
Q 039695          558 IMKNLRMCRDCHDVFKLISDIVERDFVVRDVNRFHHFRNGSCSCGD  603 (605)
Q Consensus       558 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~g~~~~~~  603 (605)
                      |+||||+|+|||+++|+||++.+|+|||||++|||||+||+|||+|
T Consensus       812 i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        812 VTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             EeCCCEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            9999999999999999999999999999999999999999999998

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2e-76  Score=659.36  Aligned_cols=579  Identities=24%  Similarity=0.386  Sum_probs=514.1

Q ss_pred             chhhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChhHH---HHHHHHHHHhCCCCchHHHHHHHHHHHcCCCh
Q 039695            2 KKSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISL---ASVHSEILKSGFLSNTFTLNHLINCYVRLKKT   78 (605)
Q Consensus         2 ~~~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~   78 (605)
                      ++.+.+.|++++|+.+|..|.+.|+.|+..++..++++|.+.+..   .++|..+.+.|..++..++|+||.+|+++|++
T Consensus        58 i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~  137 (857)
T PLN03077         58 LRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGEL  137 (857)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCCh
Confidence            467889999999999999999999999999999999999877655   89999999999999999999999999999999


Q ss_pred             hHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhC
Q 039695           79 QVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFG  158 (605)
Q Consensus        79 ~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  158 (605)
                      +.|.++|++|++||+++||++|.+|++.|++++|+++|++|...|+.||.+||++++++|+..+++..+.++|..+.+.|
T Consensus       138 ~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g  217 (857)
T PLN03077        138 VHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFG  217 (857)
T ss_pred             HHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHH
Q 039695          159 FQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVIN  238 (605)
Q Consensus       159 ~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~  238 (605)
                      +.||..++|+|+++|+++|++++|.++|++|+.+|+++||+||.+|++.|++++|+++|.+|...| +.||..||+.++.
T Consensus       218 ~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g-~~Pd~~ty~~ll~  296 (857)
T PLN03077        218 FELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELS-VDPDLMTITSVIS  296 (857)
T ss_pred             CCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCChhHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999 9999999999999


Q ss_pred             hhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHH
Q 039695          239 ACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDL  318 (605)
Q Consensus       239 a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l  318 (605)
                      +|++.|+++.|.++|..+.+.|+.||..+||+|+++|+++|++++|.++|++|.+||+++||+||.+|++.|++++|+++
T Consensus       297 a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~l  376 (857)
T PLN03077        297 ACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALET  376 (857)
T ss_pred             HHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC
Q 039695          319 FNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPD  398 (605)
Q Consensus       319 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~  398 (605)
                      |++|.+.|+.||..||+.++.+|++.|++++|.++++.| .+.|+.|+..+|++|+++|+++|++++|.++|++|+ +++
T Consensus       377 f~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~-~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~-~~d  454 (857)
T PLN03077        377 YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELA-ERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKD  454 (857)
T ss_pred             HHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHH-HHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCC-CCC
Confidence            999999999999999999999999999999999999999 566999999999999999999999999999999998 567


Q ss_pred             chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCc-------
Q 039695          399 GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPG-------  471 (605)
Q Consensus       399 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~-------  471 (605)
                        ..+|++++.+|.++|+.++|..+|++|.+..++|..+|..++.+|++.|..+.+.+++..|.+.|+.++..       
T Consensus       455 --~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~  532 (857)
T PLN03077        455 --VISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLD  532 (857)
T ss_pred             --eeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHH
Confidence              89999999999999999999999999987555566677777766666666666666666666655544332       


Q ss_pred             ----------------------eeEEEeCCEEeeeeccccCccchHHHHHHHHHHHHHHHHCCccCCCccc--cccccch
Q 039695          472 ----------------------CSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGL--VFVDVED  527 (605)
Q Consensus       472 ----------------------~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~--~~~~~~~  527 (605)
                                            .+|.       ..+.++..|++.+++.    +++++|.+.|+.||..++  ++..+..
T Consensus       533 ~y~k~G~~~~A~~~f~~~~~d~~s~n-------~lI~~~~~~G~~~~A~----~lf~~M~~~g~~Pd~~T~~~ll~a~~~  601 (857)
T PLN03077        533 LYVRCGRMNYAWNQFNSHEKDVVSWN-------ILLTGYVAHGKGSMAV----ELFNRMVESGVNPDEVTFISLLCACSR  601 (857)
T ss_pred             HHHHcCCHHHHHHHHHhcCCChhhHH-------HHHHHHHHcCCHHHHH----HHHHHHHHcCCCCCcccHHHHHHHHhh
Confidence                                  2332       2366777888888776    789999999999997776  3333332


Q ss_pred             hh-hhhhhhhhhHHHHHHHcccCCCCCCcEEEEecccccCCchhhhHhhhhhccc------eEEEecCCccccccccc
Q 039695          528 EA-REEIVGLHSERLALAFGLISIPKGITIRIMKNLRMCRDCHDVFKLISDIVER------DFVVRDVNRFHHFRNGS  598 (605)
Q Consensus       528 ~~-~~~~~~~h~e~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~d~~~~~~~~~g~  598 (605)
                      .+ .++.. ...+.+.-.+|+.+...+.. ++++.+.++|+..+|.++|.+|+.+      ..++..|+.+.+.+.|+
T Consensus       602 ~g~v~ea~-~~f~~M~~~~gi~P~~~~y~-~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e  677 (857)
T PLN03077        602 SGMVTQGL-EYFHSMEEKYSITPNLKHYA-CVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGE  677 (857)
T ss_pred             cChHHHHH-HHHHHHHHHhCCCCchHHHH-HHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHH
Confidence            11 12222 23344555688877766665 6999999999999999999999743      22344555555555443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.2e-64  Score=547.44  Aligned_cols=462  Identities=17%  Similarity=0.237  Sum_probs=423.3

Q ss_pred             hhhhccchHHHHHHHHHhhhCCCC--------------------------------CChhhHHHHHHHhhChhHH---HH
Q 039695            4 SLTRNLIFTLAASSLTRQNKRSSC--------------------------------HTKAHFIQQLQECKHLISL---AS   48 (605)
Q Consensus         4 ~l~~~~~~~~a~~~l~~m~~~g~~--------------------------------~~~~~~~~~l~~~~~~~~~---~~   48 (605)
                      .+.+.|+.++|+++|++|.+.|+.                                |+..||..++.+|++.++.   .+
T Consensus       379 ~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~  458 (1060)
T PLN03218        379 RLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALR  458 (1060)
T ss_pred             HHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHhCcCHHHHHH
Confidence            455667777777777777766642                                6788899999999888876   89


Q ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCC----CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695           49 VHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEML----EPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLV  124 (605)
Q Consensus        49 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  124 (605)
                      ++..|.+.|+.||..+||+||.+|+++|++++|.++|++|.    .||+.+||+||.+|++.|++++|+++|++|.+.|+
T Consensus       459 lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv  538 (1060)
T PLN03218        459 VLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNV  538 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999995    59999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHhccCChHHHHHHHHHHHH--hCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC----CChhhHH
Q 039695          125 WPNEFTFATVIKACSMLADLITGKQIHTHIET--FGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC----RNVVSWT  198 (605)
Q Consensus       125 ~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~----~~~~~~~  198 (605)
                      .||..||+.+|.+|++.|++++|.++|++|.+  .|+.||..+|++|+++|+++|++++|.++|+.|.+    |+..+||
T Consensus       539 ~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tyn  618 (1060)
T PLN03218        539 KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT  618 (1060)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHH
Confidence            99999999999999999999999999999987  67899999999999999999999999999999975    6779999


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhc
Q 039695          199 SIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC  278 (605)
Q Consensus       199 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  278 (605)
                      ++|.+|++.|++++|+++|++|...| +.||..||+.++.+|++.|++++|.+++..|.+.|+.|+..+|++||++|+++
T Consensus       619 sLI~ay~k~G~~deAl~lf~eM~~~G-v~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~  697 (1060)
T PLN03218        619 IAVNSCSQKGDWDFALSIYDDMKKKG-VKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNA  697 (1060)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhC
Confidence            99999999999999999999999999 99999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHhccC----CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 039695          279 GSVNYSDKVFNRIS----NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHL  354 (605)
Q Consensus       279 g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~  354 (605)
                      |++++|.++|++|.    .||+.+||+||.+|++.|++++|+++|++|...|+.||..||+.++.+|++.|++++|.++|
T Consensus       698 G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~  777 (1060)
T PLN03218        698 KNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLL  777 (1060)
T ss_pred             CCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999999995    59999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHh----hcC-------------------CHHHHHHHHHhCC---CCCCchhhHHHHHH
Q 039695          355 DSMYRKYGIIPDAKHYTCVVDMLG----RTG-------------------RLDEAYKLAKSIQ---VDPDGGPLLWGTLL  408 (605)
Q Consensus       355 ~~m~~~~~~~p~~~~~~~li~~~~----~~g-------------------~~~~A~~~~~~m~---~~p~~~~~~~~~ll  408 (605)
                      ++| .+.|+.||..+|++++.++.    +++                   ..++|..+|++|.   ..|+  ..+|+.++
T Consensus       778 ~~M-~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd--~~T~~~vL  854 (1060)
T PLN03218        778 SQA-KEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPT--MEVLSQVL  854 (1060)
T ss_pred             HHH-HHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCC--HHHHHHHH
Confidence            999 56699999999999997743    222                   2467999999986   6788  99999999


Q ss_pred             HHHHHcCChHHHHHHHHHHHh-cCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCc
Q 039695          409 SASRLHGRVDIAVEASNQLIE-SNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPG  471 (605)
Q Consensus       409 ~~~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~  471 (605)
                      .++...+..+.+..+++.+.. -.+++..+|..|++++.+.  .++|..++++|.+.|+.|+..
T Consensus       855 ~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        855 GCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             HHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            888888888888888877654 3466678999999988432  368999999999999988764

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5e-61  Score=525.59  Aligned_cols=521  Identities=13%  Similarity=0.216  Sum_probs=413.5

Q ss_pred             CCChhhHHHHHHHhh---ChhHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHH
Q 039695           27 CHTKAHFIQQLQECK---HLISLASVHSEILKSGF-LSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAG  102 (605)
Q Consensus        27 ~~~~~~~~~~l~~~~---~~~~~~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~  102 (605)
                      .++...+..++..+.   +..++.++++.|.+.|+ .++..+++.++..|.+.|.+++|.++|+.|+.||..+||.+|.+
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a  446 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSV  446 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            445556666666664   44445888888988885 56777888888999999999999999999988999999999999


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHH
Q 039695          103 YINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGA  182 (605)
Q Consensus       103 ~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A  182 (605)
                      |++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|++||++|++.|++++|
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeA  526 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA  526 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCC----CChhhHHHHHHHHHHcCChhHHHHHHHHHHH--cCCCCCChhHHHhHHHhhcccCchhhHHHHHHHH
Q 039695          183 RRVFDLMGC----RNVVSWTSIIVAHAQNAQGHEALEMFREFNY--QSRDRPNQHMLASVINACASLGRLVSGKVAHGVV  256 (605)
Q Consensus       183 ~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~  256 (605)
                      .++|++|..    ||.++||.||.+|++.|++++|.++|.+|..  .| +.||..||++++.+|++.|++++|.++|+.|
T Consensus       527 l~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~g-i~PD~vTynaLI~ay~k~G~ldeA~elf~~M  605 (1060)
T PLN03218        527 FGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHP-IDPDHITVGALMKACANAGQVDRAKEVYQMI  605 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCC-CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999998853    8889999999999999999999999999976  45 8899999999999999999999999999999


Q ss_pred             HHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC----CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH
Q 039695          257 VRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS----NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDV  332 (605)
Q Consensus       257 ~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  332 (605)
                      .+.|++|+..+|+++|.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..
T Consensus       606 ~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~  685 (1060)
T PLN03218        606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV  685 (1060)
T ss_pred             HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            999999999999999999999999999999999887    4788899999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC---CCCCchhhHHHHHHH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ---VDPDGGPLLWGTLLS  409 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~p~~~~~~~~~ll~  409 (605)
                      +|+.++.+|++.|++++|.++|++| .+.|+.||..+|++||.+|++.|++++|.++|++|.   ..||  ..+|++++.
T Consensus       686 tynsLI~ay~k~G~~eeA~~lf~eM-~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd--~~Ty~sLL~  762 (1060)
T PLN03218        686 SYSSLMGACSNAKNWKKALELYEDI-KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPN--TITYSILLV  762 (1060)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC--HHHHHHHHH
Confidence            9999999999999999999999998 556889999999999999999999999999998875   5678  889999999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcC-CCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC-ccCCceeEEEeCCEEeeeecc
Q 039695          410 ASRLHGRVDIAVEASNQLIESN-QQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI-HKEPGCSWVEIRDQTYAFYAG  487 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~-~~~~~~s~~~~~~~~~~f~~~  487 (605)
                      +|.+.|+++.|.++++++.+.+ .++..+|..|+.+|.+  +++++.++.+.+..-+. .......|             
T Consensus       763 a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~--~y~ka~~l~~~v~~f~~g~~~~~n~w-------------  827 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDSGRPQIENKW-------------  827 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhhhhccccccccch-------------
Confidence            9999999999999999998865 3455678888766542  45555554433332110 00000111             


Q ss_pred             ccCccchHHHHHHHHHHHHHHHHCCccCCCccc--cccccchhhhhhhhhhhhHHHHHHHcccCCCCCCcE--EEEeccc
Q 039695          488 NALFERGSEVLSLLRELERKMKERGYVGGKTGL--VFVDVEDEAREEIVGLHSERLALAFGLISIPKGITI--RIMKNLR  563 (605)
Q Consensus       488 ~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~--~~~~~~~~~~~~~~~~h~e~~a~~~~~~~~~~~~~~--~~~~~~~  563 (605)
                            ..+    ...++++|.+.|+.||..++  ++ .+.  .+.... ...+.+--.+++.+.+++...  .+++.+ 
T Consensus       828 ------~~~----Al~lf~eM~~~Gi~Pd~~T~~~vL-~cl--~~~~~~-~~~~~m~~~m~~~~~~~~~~~y~~Li~g~-  892 (1060)
T PLN03218        828 ------TSW----ALMVYRETISAGTLPTMEVLSQVL-GCL--QLPHDA-TLRNRLIENLGISADSQKQSNLSTLVDGF-  892 (1060)
T ss_pred             ------HHH----HHHHHHHHHHCCCCCCHHHHHHHH-HHh--cccccH-HHHHHHHHHhccCCCCcchhhhHHHHHhh-
Confidence                  122    33789999999999996555  22 111  121111 122334445666666554332  244443 


Q ss_pred             ccCC-chhhhHhhhhhccceE
Q 039695          564 MCRD-CHDVFKLISDIVERDF  583 (605)
Q Consensus       564 ~~~~-~~~~~~~~~~~~~~~~  583 (605)
                        +. -++|..++..|..+.|
T Consensus       893 --~~~~~~A~~l~~em~~~Gi  911 (1060)
T PLN03218        893 --GEYDPRAFSLLEEAASLGV  911 (1060)
T ss_pred             --ccChHHHHHHHHHHHHcCC
Confidence              32 2578888888886644

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

Probab=100.00  E-value=1.2e-60  Score=520.34  Aligned_cols=486  Identities=21%  Similarity=0.299  Sum_probs=421.8

Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHH
Q 039695           90 EPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNL-VWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSS  168 (605)
Q Consensus        90 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  168 (605)
                      .++..+|+++|.+|.+.|++++|+++|+.|...+ ..||..||+.++.+|++.++++.|.++|..+.+.|+.||..+||.
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            4577899999999999999999999999998764 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhh
Q 039695          169 LVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVS  248 (605)
Q Consensus       169 Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~  248 (605)
                      |+++|+++|++++|.++|++|++||+++||++|.+|++.|++++|+++|++|.+.| +.||..||+.++.+|+..|..+.
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g-~~p~~~t~~~ll~a~~~~~~~~~  242 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDG-SDAEPRTFVVMLRASAGLGSARA  242 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCChhhHHHHHHHHhcCCcHHH
Confidence            99999999999999999999999999999999999999999999999999999999 99999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCC
Q 039695          249 GKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIK  328 (605)
Q Consensus       249 a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  328 (605)
                      +.++|..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+++||+||.+|+++|+.++|+++|++|.+.|+.
T Consensus       243 ~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~  322 (697)
T PLN03081        243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVS  322 (697)
T ss_pred             HHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHH
Q 039695          329 PNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLL  408 (605)
Q Consensus       329 pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll  408 (605)
                      ||..||+.++.+|++.|.+++|.+++..| .+.|+.||..+|++|+++|+++|++++|.++|++|. +||  ..+|++|+
T Consensus       323 pd~~t~~~ll~a~~~~g~~~~a~~i~~~m-~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~-~~d--~~t~n~lI  398 (697)
T PLN03081        323 IDQFTFSIMIRIFSRLALLEHAKQAHAGL-IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP-RKN--LISWNALI  398 (697)
T ss_pred             CCHHHHHHHHHHHHhccchHHHHHHHHHH-HHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC-CCC--eeeHHHHH
Confidence            99999999999999999999999999999 456999999999999999999999999999999997 577  99999999


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcC-CCCCchHHHHHHHHHhcCChhHHHHHHHHHHh-CCCccCCceeEEEeCCEEeeeec
Q 039695          409 SASRLHGRVDIAVEASNQLIESN-QQVANAYVTLSNTYALAGEWENVHSLRSEMKR-TGIHKEPGCSWVEIRDQTYAFYA  486 (605)
Q Consensus       409 ~~~~~~g~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~-~~~~~~~~~s~~~~~~~~~~f~~  486 (605)
                      .+|.++|+.++|.++|++|.+.+ .+|..+|..++.+|++.|+.++|.++|+.|.+ .|+.|+......        .+.
T Consensus       399 ~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~--------li~  470 (697)
T PLN03081        399 AGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYAC--------MIE  470 (697)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHh--------HHH
Confidence            99999999999999999999865 44578999999999999999999999999986 588765432221        233


Q ss_pred             cccCccchHHHHHHHHHHHHHHHHCCccCCCccc--cccccchhhhhhhhhhhhHHHHHHHcccCCCCCCcEEEEecccc
Q 039695          487 GNALFERGSEVLSLLRELERKMKERGYVGGKTGL--VFVDVEDEAREEIVGLHSERLALAFGLISIPKGITIRIMKNLRM  564 (605)
Q Consensus       487 ~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~--~~~~~~~~~~~~~~~~h~e~~a~~~~~~~~~~~~~~~~~~~~~~  564 (605)
                      +....++.+++++    ++   .+.++.||..+|  ++..+...+.-+......++   .+++.+...+..+.+++.+..
T Consensus       471 ~l~r~G~~~eA~~----~~---~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~---l~~~~p~~~~~y~~L~~~y~~  540 (697)
T PLN03081        471 LLGREGLLDEAYA----MI---RRAPFKPTVNMWAALLTACRIHKNLELGRLAAEK---LYGMGPEKLNNYVVLLNLYNS  540 (697)
T ss_pred             HHHhcCCHHHHHH----HH---HHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHH---HhCCCCCCCcchHHHHHHHHh
Confidence            4456677776653    33   345788995554  22222211111111112222   245544434444567788999


Q ss_pred             cCCchhhhHhhhhhccceEEE-------ecCCccccccccc
Q 039695          565 CRDCHDVFKLISDIVERDFVV-------RDVNRFHHFRNGS  598 (605)
Q Consensus       565 ~~~~~~~~~~~~~~~~~~~~~-------~d~~~~~~~~~g~  598 (605)
                      +|+..+|.+++..|..+.+-.       --.+..|.|..|-
T Consensus       541 ~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d  581 (697)
T PLN03081        541 SGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGD  581 (697)
T ss_pred             CCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCC
Confidence            999999999999999876521       1234556675553

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

Probab=99.97  E-value=1.4e-26  Score=263.58  Aligned_cols=450  Identities=13%  Similarity=0.062  Sum_probs=309.1

Q ss_pred             hhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChh---HHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhH
Q 039695            4 SLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLI---SLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQV   80 (605)
Q Consensus         4 ~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~---~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~   80 (605)
                      .+...|++++|++.+..+......+... ...+...+.+.+   ....++..+.+. .+.++.+++.+...|...|++++
T Consensus       406 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~  483 (899)
T TIGR02917       406 SKLSQGDPSEAIADLETAAQLDPELGRA-DLLLILSYLRSGQFDKALAAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAK  483 (899)
T ss_pred             HHHhCCChHHHHHHHHHHHhhCCcchhh-HHHHHHHHHhcCCHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHH
Confidence            3456788888888888876654222211 122222233333   335555555443 35566777778888888888888


Q ss_pred             HHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh
Q 039695           81 ARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETF  157 (605)
Q Consensus        81 A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  157 (605)
                      |.+.|+++.+   .+...+..+...+...|++++|.+.|+++.+.+. .+..++..+...+...|+.++|...++.+.+.
T Consensus       484 A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  562 (899)
T TIGR02917       484 AREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDP-KNLRAILALAGLYLRTGNEEEAVAWLEKAAEL  562 (899)
T ss_pred             HHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            8888877632   3455677777777788888888888888776542 25567777777777778888888888777766


Q ss_pred             CCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHH
Q 039695          158 GFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLA  234 (605)
Q Consensus       158 g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~  234 (605)
                      + +.+...+..++..|.+.|++++|..+++.+..   .+...|..+...|.+.|++++|+..|+++....  +.+...+.
T Consensus       563 ~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~  639 (899)
T TIGR02917       563 N-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ--PDSALALL  639 (899)
T ss_pred             C-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHH
Confidence            4 45566677777778888888888888777653   456677777778888888888888887776643  33555666


Q ss_pred             hHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCC
Q 039695          235 SVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGL  311 (605)
Q Consensus       235 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  311 (605)
                      .+..++...|++++|...+..+.+.. +.+...+..++..+.+.|++++|.++++.+.+   .+...+..+...+...|+
T Consensus       640 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  718 (899)
T TIGR02917       640 LLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKD  718 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCC
Confidence            77777777788888887777777654 44566777777777777777777777777753   344566667777777777


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHH
Q 039695          312 GRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAK  391 (605)
Q Consensus       312 ~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  391 (605)
                      +++|...|+++...  .|+..++..+..++.+.|++++|.+.++.+.+.  .+.+...+..+...|.+.|++++|.+.|+
T Consensus       719 ~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~  794 (899)
T TIGR02917       719 YPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPNDAVLRTALAELYLAQKDYDKAIKHYR  794 (899)
T ss_pred             HHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            77777777777764  344456666777777777777777777777543  23346677777777777777777777777


Q ss_pred             hCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          392 SIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       392 ~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ++. ..|+ ++.+++.+...+...|+ ++|+..++++++..|+++..+..++.+|...|++++|.+.++++.+.+.
T Consensus       795 ~~~~~~p~-~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       795 TVVKKAPD-NAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHhCCC-CHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            653 2232 26677777777777777 6677777777777777777777777777777777777777777776654

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.

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=99.97  E-value=3.8e-31  Score=212.99  Aligned_cols=106  Identities=53%  Similarity=0.937  Sum_probs=96.5

Q ss_pred             ceeEEEeCCEEeeeeccccCccchHHHHHHHHHHHHHHHHCCccCCCccccccccchhhh--------hhhhhhhhHHHH
Q 039695          471 GCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGLVFVDVEDEAR--------EEIVGLHSERLA  542 (605)
Q Consensus       471 ~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~~~~~~~~~~~--------~~~~~~h~e~~a  542 (605)
                      |+||+++    |.|++||.+||+.        ++..++...||.|+ +..+.|++.++++        +..+.+||||||
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlA   68 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPD-TKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLA   68 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcch-hhhhCCCchhhhhhhcccccchhhhhccHHHHH
Confidence            6899875    9999999999988        45677788999999 7888888887665        568899999999


Q ss_pred             HHHcccCCCCCCcEEEEecc-cccCCchhhhHhhhhhccceEEEecCCcccccc
Q 039695          543 LAFGLISIPKGITIRIMKNL-RMCRDCHDVFKLISDIVERDFVVRDVNRFHHFR  595 (605)
Q Consensus       543 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~  595 (605)
                      ++|||+++      ||+||+ |+|+|||+++|+||++++|+|+|||++|||||+
T Consensus        69 iafgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   69 IAFGLINT------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             HHhcccce------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            99999988      899999 999999999999999999999999999999996

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

Probab=99.97  E-value=5.9e-26  Score=258.53  Aligned_cols=450  Identities=13%  Similarity=0.002  Sum_probs=370.0

Q ss_pred             hhhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhCh---hHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChh
Q 039695            3 KSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHL---ISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQ   79 (605)
Q Consensus         3 ~~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~---~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~   79 (605)
                      ..+.+.|++++|.+.|+++.+.... +...+..+...+...   ......+..+.+... .+......++..|.+.|+++
T Consensus       371 ~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~  448 (899)
T TIGR02917       371 EAYLALGDFEKAAEYLAKATELDPE-NAAARTQLGISKLSQGDPSEAIADLETAAQLDP-ELGRADLLLILSYLRSGQFD  448 (899)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCC-cchhhHHHHHHHHHhcCCHH
Confidence            3467789999999999998765321 223333333333333   333555555555442 23455667788899999999


Q ss_pred             HHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHH
Q 039695           80 VARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIET  156 (605)
Q Consensus        80 ~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  156 (605)
                      +|.++++.+..   +++.+|+.+...+...|++++|...|+++.+... .+...+..+...+...|++++|.+.++.+.+
T Consensus       449 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  527 (899)
T TIGR02917       449 KALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEP-DFFPAAANLARIDIQEGNPDDAIQRFEKVLT  527 (899)
T ss_pred             HHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999998843   4677899999999999999999999999987532 2455677788888999999999999999988


Q ss_pred             hCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHH
Q 039695          157 FGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHML  233 (605)
Q Consensus       157 ~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~  233 (605)
                      .. +.+..++..+...|.+.|+.++|...|+++..   .+...+..++..|.+.|++++|+.+++++....  +.+..++
T Consensus       528 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~  604 (899)
T TIGR02917       528 ID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA--PDSPEAW  604 (899)
T ss_pred             hC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--CCCHHHH
Confidence            75 56788899999999999999999999998854   456678889999999999999999999998653  5677889


Q ss_pred             HhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcC
Q 039695          234 ASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYG  310 (605)
Q Consensus       234 ~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g  310 (605)
                      ..+..++...|++++|...+..+.+.. +.+...+..+...|.+.|++++|...|+++.+   .+..+|..++..+...|
T Consensus       605 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  683 (899)
T TIGR02917       605 LMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAK  683 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcC
Confidence            999999999999999999999998865 55677888999999999999999999998764   45678999999999999


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHH
Q 039695          311 LGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLA  390 (605)
Q Consensus       311 ~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  390 (605)
                      ++++|..+++.+.+.+ +++...+..+...+...|++++|.+.|+.+..   ..|+..++..+..++.+.|++++|.+.+
T Consensus       684 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~  759 (899)
T TIGR02917       684 RTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALK---RAPSSQNAIKLHRALLASGNTAEAVKTL  759 (899)
T ss_pred             CHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999998874 44677788888899999999999999998863   4576678888999999999999999998


Q ss_pred             HhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          391 KSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       391 ~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +++. ..|+ +..++..+...+...|+.++|...|+++++..|+++.++..++.+|.+.|+ ++|...+++..+..
T Consensus       760 ~~~l~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~  833 (899)
T TIGR02917       760 EAWLKTHPN-DAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA  833 (899)
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC
Confidence            8854 2333 377889999999999999999999999999999999999999999999999 88999999987754

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.

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

Probab=99.90  E-value=1.2e-20  Score=184.08  Aligned_cols=444  Identities=12%  Similarity=0.082  Sum_probs=352.2

Q ss_pred             hhhhhccchHHHHHHHHHhhhCCC--CCChhhHHHHHHHhhChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhH
Q 039695            3 KSLTRNLIFTLAASSLTRQNKRSS--CHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQV   80 (605)
Q Consensus         3 ~~l~~~~~~~~a~~~l~~m~~~g~--~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~   80 (605)
                      .++.+.|++++|.+--...-++..  .++...+..+...+.+.....+--...++. .+--..+|+.+.+.+-..|++++
T Consensus        56 h~~yq~gd~~~a~~h~nmv~~~d~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~-~~q~ae~ysn~aN~~kerg~~~~  134 (966)
T KOG4626|consen   56 HRLYQGGDYKQAEKHCNMVGQEDPTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKERGQLQD  134 (966)
T ss_pred             HHHHhccCHHHHHHHHhHhhccCCCcccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHHhchHHH
Confidence            456778899999888776544422  122222333333333332221111111111 12345688889999999999999


Q ss_pred             HHHHHhcCCC--C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHH-HHHHHhccCChHHHHHHHHHHHH
Q 039695           81 ARQLFDEMLE--P-NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFAT-VIKACSMLADLITGKQIHTHIET  156 (605)
Q Consensus        81 A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~-ll~a~~~~~~~~~a~~~~~~~~~  156 (605)
                      |+.+++.+.+  | .+..|..+..++...|+.+.|...|.+.++  +.|+.+...+ +-...-..|++++|...+.++++
T Consensus       135 al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~  212 (966)
T KOG4626|consen  135 ALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKACYLKAIE  212 (966)
T ss_pred             HHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHHHHHHHHh
Confidence            9999998844  3 568899999999999999999999999888  4566554333 33333457899999999998887


Q ss_pred             hCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHH
Q 039695          157 FGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRN---VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHML  233 (605)
Q Consensus       157 ~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~  233 (605)
                      .. +.-...|+.|...+-..|++..|+.-|++...-|   ...|-.|...|-..+.+++|+..|.+.....  +-....+
T Consensus       213 ~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr--pn~A~a~  289 (966)
T KOG4626|consen  213 TQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR--PNHAVAH  289 (966)
T ss_pred             hC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC--Ccchhhc
Confidence            64 3345678999999999999999999999987644   3578888999999999999999999887643  3356778


Q ss_pred             HhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcC
Q 039695          234 ASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYG  310 (605)
Q Consensus       234 ~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g  310 (605)
                      ..+...|-..|.++.|...++..++.. +.-+..|+.|.+++-..|++.+|.+.+++...   ....+.+.|...|...|
T Consensus       290 gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~  368 (966)
T KOG4626|consen  290 GNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQG  368 (966)
T ss_pred             cceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhc
Confidence            888888999999999999999998865 44477899999999999999999999998874   34568889999999999


Q ss_pred             ChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHH
Q 039695          311 LGRFSLDLFNEMISRGIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYK  388 (605)
Q Consensus       311 ~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~  388 (605)
                      ..++|..+|....+  +.|. ...++.|...|-+.|++++|...+++.+   .+.|+ ...|+.+...|-..|+.+.|..
T Consensus       369 ~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v~~A~q  443 (966)
T KOG4626|consen  369 KIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDVSAAIQ  443 (966)
T ss_pred             cchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhHHHHHH
Confidence            99999999999887  5665 4678899999999999999999999886   78999 8899999999999999999999


Q ss_pred             HHHh-CCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHH
Q 039695          389 LAKS-IQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRS  459 (605)
Q Consensus       389 ~~~~-m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~  459 (605)
                      .+.+ +...|. -....+.|.+.+...|++.+|++.++.++++.|+-+.+|..++.+.---.+|.+=.+-++
T Consensus       444 ~y~rAI~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D~d~~~~  514 (966)
T KOG4626|consen  444 CYTRAIQINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTDYDKRMK  514 (966)
T ss_pred             HHHHHHhcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccchHHHHH
Confidence            9987 445664 245889999999999999999999999999999999999999988877777776433333

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.89  E-value=1.3e-18  Score=199.84  Aligned_cols=448  Identities=11%  Similarity=0.011  Sum_probs=272.4

Q ss_pred             hhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHH----hhChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChh
Q 039695            4 SLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQE----CKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQ   79 (605)
Q Consensus         4 ~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~----~~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~   79 (605)
                      .+.+.|++++|++.|+...... .|+...-......    -++...+...++.+.+.. +-++..+..+...+...|+.+
T Consensus       121 ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~  198 (1157)
T PRK11447        121 LLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRD  198 (1157)
T ss_pred             HHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHH
Confidence            4678899999999999987652 2332211111121    134444566677766653 446677888889999999999


Q ss_pred             HHHHHHhcCCCCC------hhh-----------------HH----------------------------------HHHHH
Q 039695           80 VARQLFDEMLEPN------VVS-----------------YT----------------------------------SLMAG  102 (605)
Q Consensus        80 ~A~~~f~~m~~~~------~~~-----------------~~----------------------------------~li~~  102 (605)
                      +|+..|+++....      ...                 +.                                  ..-..
T Consensus       199 eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~  278 (1157)
T PRK11447        199 EGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLA  278 (1157)
T ss_pred             HHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHH
Confidence            9999998863210      000                 10                                  11223


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCC-chhHH------------HHH
Q 039695          103 YINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQY-NLVVC------------SSL  169 (605)
Q Consensus       103 ~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~------------~~L  169 (605)
                      +...|++++|+..|++.++... -|...+..+..++...|++++|...++++++..... +...+            ..+
T Consensus       279 ~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~  357 (1157)
T PRK11447        279 AVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQ  357 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHH
Confidence            4556788888888888777432 156677777777888888888888888877654221 11111            122


Q ss_pred             HHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCch
Q 039695          170 VDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRL  246 (605)
Q Consensus       170 i~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~  246 (605)
                      ...+.+.|++++|...|++...   .+...+..+...+...|++++|++.|++..+..  +.+...+..+...+. .++.
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~-~~~~  434 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYR-QQSP  434 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH-hcCH
Confidence            4456677888888888877754   345566677778888888888888888877643  222333333333221 1223


Q ss_pred             hhHHHHHHHHHHhCC--------CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--C-CcchHHHHHHHHHHcCChhHH
Q 039695          247 VSGKVAHGVVVRSGC--------EFNDVVASALVDMYAKCGSVNYSDKVFNRISN--P-SVVTYTSMIVGAAKYGLGRFS  315 (605)
Q Consensus       247 ~~a~~~~~~~~~~g~--------~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A  315 (605)
                      ++|..++..+.....        ......+..+...+...|++++|.+.|++..+  | +...+..+...|.+.|++++|
T Consensus       435 ~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A  514 (1157)
T PRK11447        435 EKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQA  514 (1157)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            333333322111000        00011122233444445555555555554432  2 223344444455555555555


Q ss_pred             HHHHHHHHHcCCCC-CHHHH--------------------------------------------HHHHHHHhccCcHHHH
Q 039695          316 LDLFNEMISRGIKP-NDVTF--------------------------------------------VGVLHACSHSGLVDEG  350 (605)
Q Consensus       316 ~~l~~~m~~~g~~p-d~~t~--------------------------------------------~~ll~a~~~~g~~~~a  350 (605)
                      ...|++..+.  .| +...+                                            ..+...+...|+.++|
T Consensus       515 ~~~l~~al~~--~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA  592 (1157)
T PRK11447        515 DALMRRLAQQ--KPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEA  592 (1157)
T ss_pred             HHHHHHHHHc--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHH
Confidence            5555554432  11 11111                                            2233445555666666


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 039695          351 IQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       351 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      .++++.      .+++...+..+.+.+.+.|++++|++.|++.. ..|+ ++..+..+...+...|+.++|++.++++.+
T Consensus       593 ~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~  665 (1157)
T PRK11447        593 EALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPA  665 (1157)
T ss_pred             HHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            665541      13345666778888888899999998888754 3454 367888888888899999999999998888


Q ss_pred             cCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          430 SNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       430 ~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..|+++..+..++.++...|++++|.++++++.....
T Consensus       666 ~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~  702 (1157)
T PRK11447        666 TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAK  702 (1157)
T ss_pred             cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCc
Confidence            8888888888888889899999999999988876543

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.89  E-value=2.7e-18  Score=197.13  Aligned_cols=404  Identities=10%  Similarity=0.018  Sum_probs=299.9

Q ss_pred             hHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCC--CC---hhhHHHH------------HHHHHhc
Q 039695           44 ISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLE--PN---VVSYTSL------------MAGYINM  106 (605)
Q Consensus        44 ~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~---~~~~~~l------------i~~~~~~  106 (605)
                      ..+...+...++.. +.+..++..|...|.+.|++++|+..|++..+  |+   ...|..+            ...+.+.
T Consensus       286 ~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~  364 (1157)
T PRK11447        286 GKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKA  364 (1157)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHC
Confidence            33355555555543 33667777788888888888888888887633  22   1223222            2345677


Q ss_pred             CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHH
Q 039695          107 GQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVF  186 (605)
Q Consensus       107 g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~  186 (605)
                      |++++|+..|++..+... .+...+..+...+...|++++|.+.++.+++.. +.+...+..+...|. .++.++|...+
T Consensus       365 g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~~~~A~~~l  441 (1157)
T PRK11447        365 NNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQSPEKALAFI  441 (1157)
T ss_pred             CCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcCHHHHHHHH
Confidence            888888888888877532 245566667777888888888888888888764 344556666767664 45678888888


Q ss_pred             hhcCCCC------------hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHH
Q 039695          187 DLMGCRN------------VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHG  254 (605)
Q Consensus       187 ~~m~~~~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~  254 (605)
                      +.++...            ...+..+...+...|++++|++.|++..+..  +-+...+..+...+.+.|++++|...++
T Consensus       442 ~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~--P~~~~~~~~LA~~~~~~G~~~~A~~~l~  519 (1157)
T PRK11447        442 ASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD--PGSVWLTYRLAQDLRQAGQRSQADALMR  519 (1157)
T ss_pred             HhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            7765321            1234456677888999999999999988754  3345667778888999999999999999


Q ss_pred             HHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCC----c---------chHHHHHHHHHHcCChhHHHHHHHH
Q 039695          255 VVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPS----V---------VTYTSMIVGAAKYGLGRFSLDLFNE  321 (605)
Q Consensus       255 ~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~----~---------~~~~~li~~~~~~g~~~~A~~l~~~  321 (605)
                      .+.+.. +.+......+...+.+.|+.++|...++.+....    .         ..+..+...+...|+.++|..+++.
T Consensus       520 ~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~  598 (1157)
T PRK11447        520 RLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ  598 (1157)
T ss_pred             HHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            988754 3455555566667788999999999999886421    1         1123446678889999999999872


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCC-CCCc
Q 039695          322 MISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQV-DPDG  399 (605)
Q Consensus       322 m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~p~~  399 (605)
                           .+++...+..+...+...|++++|...|+...+   ..|+ ...+..++.+|...|++++|++.++.... .|+ 
T Consensus       599 -----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~---~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~-  669 (1157)
T PRK11447        599 -----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT---REPGNADARLGLIEVDIAQGDLAAARAQLAKLPATAND-  669 (1157)
T ss_pred             -----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC-
Confidence                 344566777888899999999999999999864   3565 88899999999999999999999998653 333 


Q ss_pred             hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc------hHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          400 GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN------AYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       400 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      +...+..+..++...|++++|.+.++++++..|+++.      .+..++.++...|++++|...+++...
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3667888889999999999999999999988765543      556678999999999999999998853

>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=1.1e-18  Score=170.70  Aligned_cols=362  Identities=15%  Similarity=0.149  Sum_probs=307.4

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhH-HHHHHH
Q 039695           93 VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVV-CSSLVD  171 (605)
Q Consensus        93 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~-~~~Li~  171 (605)
                      ..+|..+.+.+-..|++++|+.+++.|.+...+ ....|..+..++...|+.+.|.+.|.+.++.  .|+... .+.+.+
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~-fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgn  192 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELKPK-FIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcCch-hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhH
Confidence            457888999999999999999999999985322 5668999999999999999999999998875  455443 344556


Q ss_pred             HHHhCCCHHHHHHHHhhcCC--CC-hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCC-hhHHHhHHHhhcccCchh
Q 039695          172 MYGKCNDVDGARRVFDLMGC--RN-VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPN-QHMLASVINACASLGRLV  247 (605)
Q Consensus       172 ~y~~~g~~~~A~~~~~~m~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~  247 (605)
                      ..-..|++++|...+.+..+  |. .+.|+.|...+-.+|+...|+.-|++....   .|+ ...|..+-..+...+.++
T Consensus       193 Llka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl---dP~f~dAYiNLGnV~ke~~~~d  269 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL---DPNFLDAYINLGNVYKEARIFD  269 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC---CCcchHHHhhHHHHHHHHhcch
Confidence            66678999999998887654  33 478999999999999999999999998764   344 456777888888888889


Q ss_pred             hHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CC-cchHHHHHHHHHHcCChhHHHHHHHHHHH
Q 039695          248 SGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PS-VVTYTSMIVGAAKYGLGRFSLDLFNEMIS  324 (605)
Q Consensus       248 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~  324 (605)
                      .|...+....... +....++..|.-.|-..|.++-|...+++..+  |+ ...|+.|..++-..|+..+|...|.+...
T Consensus       270 ~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  270 RAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            8888887776643 44567778888889999999999999999875  44 36899999999999999999999999887


Q ss_pred             cCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCchh
Q 039695          325 RGIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGGP  401 (605)
Q Consensus       325 ~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~  401 (605)
                        ..|+ ....+.|...+...|.+++|..+|....   .+.|. ....+.|...|-..|++++|+.-+++ +.++|. -.
T Consensus       349 --l~p~hadam~NLgni~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~-fA  422 (966)
T KOG4626|consen  349 --LCPNHADAMNNLGNIYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPT-FA  422 (966)
T ss_pred             --hCCccHHHHHHHHHHHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCch-HH
Confidence              4454 4678889999999999999999999775   67888 77889999999999999999999987 456776 25


Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          402 LLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       402 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      ..++.+...|...|++..|.+.+.+++..+|.-..++..|+.+|-..|+..+|..-++...+....
T Consensus       423 da~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD  488 (966)
T KOG4626|consen  423 DALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD  488 (966)
T ss_pred             HHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC
Confidence            689999999999999999999999999999999999999999999999999999999988775543

>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=99.85  E-value=2.6e-17  Score=177.56  Aligned_cols=391  Identities=12%  Similarity=0.028  Sum_probs=286.1

Q ss_pred             HHHHHHHHHcCCChhHHHHHHhcC--CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChhhHHHHHHHHhcc
Q 039695           65 LNHLINCYVRLKKTQVARQLFDEM--LEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWP-NEFTFATVIKACSML  141 (605)
Q Consensus        65 ~~~li~~~~~~g~~~~A~~~f~~m--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~  141 (605)
                      +...-..|.+.|+++.|++.|++.  ..|+...|..+..+|.+.|++++|++.+...++.  .| +...+..+..++...
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALEL--DPDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHc
Confidence            334566778889999999999987  3477788888999999999999999999998875  34 455788888889999


Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCC-----------------------------
Q 039695          142 ADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCR-----------------------------  192 (605)
Q Consensus       142 ~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~-----------------------------  192 (605)
                      |++++|..-+..+...+-..+.. ...++.-+.+......+...++.-+..                             
T Consensus       208 g~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       208 GKYADALLDLTASCIIDGFRNEQ-SAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            99999988776665443111111 111111111111112222222221110                             


Q ss_pred             Ch---hhHHHHHHHH---HHcCChhHHHHHHHHHHHcCCCCCC-hhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcH
Q 039695          193 NV---VSWTSIIVAH---AQNAQGHEALEMFREFNYQSRDRPN-QHMLASVINACASLGRLVSGKVAHGVVVRSGCEFND  265 (605)
Q Consensus       193 ~~---~~~~~li~~~---~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~  265 (605)
                      +.   ..+..+...+   ...+++++|++.|++....+...|+ ...+..+...+...|++++|...+...++.. +.+.
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~  365 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVT  365 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcH
Confidence            00   0011111000   1236889999999998876523443 4566777777788999999999999998764 3456


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHH
Q 039695          266 VVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHAC  341 (605)
Q Consensus       266 ~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~  341 (605)
                      ..+..+...|...|++++|...|+...+   .+...|..+...|...|++++|+..|++..+.  .| +...+..+..++
T Consensus       366 ~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~  443 (615)
T TIGR00990       366 QSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQ  443 (615)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHH
Confidence            6888889999999999999999998764   45678889999999999999999999999885  34 456677788889


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhh------HHHHHHHHHHH
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPL------LWGTLLSASRL  413 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~------~~~~ll~~~~~  413 (605)
                      .+.|++++|...|+...+   ..|+ ...++.+..++...|++++|++.|++. ...|+....      .++..+..+..
T Consensus       444 ~~~g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~  520 (615)
T TIGR00990       444 YKEGSIASSMATFRRCKK---NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQW  520 (615)
T ss_pred             HHCCCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHH
Confidence            999999999999998864   3454 788999999999999999999999883 333431111      12222333445


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          414 HGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       414 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      .|++++|.+.++++++++|++..++..++.+|.+.|++++|.+.+++..+.
T Consensus       521 ~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       521 KQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            799999999999999999999889999999999999999999999998764

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=1e-18  Score=178.87  Aligned_cols=297  Identities=10%  Similarity=0.058  Sum_probs=193.1

Q ss_pred             HhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC-CC------hhhHHHHHHHHHHcCCh
Q 039695          138 CSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC-RN------VVSWTSIIVAHAQNAQG  210 (605)
Q Consensus       138 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~-~~------~~~~~~li~~~~~~g~~  210 (605)
                      +...|++++|...+..+.+.+ +.+..++..+...|.+.|++++|..+++.+.. ++      ...|..+...|.+.|++
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            345566666777766666653 33445666666666666666666666666543 11      13455556666666666


Q ss_pred             hHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhc
Q 039695          211 HEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNR  290 (605)
Q Consensus       211 ~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~  290 (605)
                      ++|+.+|.++.+..  +++..++..++..+...|++++|.+.+..+.+.+..+....                       
T Consensus       124 ~~A~~~~~~~l~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-----------------------  178 (389)
T PRK11788        124 DRAEELFLQLVDEG--DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE-----------------------  178 (389)
T ss_pred             HHHHHHHHHHHcCC--cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH-----------------------
Confidence            66666666665432  23344444444444444555555444444444321110000                       


Q ss_pred             cCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc--HH
Q 039695          291 ISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD--AK  368 (605)
Q Consensus       291 ~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~  368 (605)
                          ....|..+...+.+.|++++|...|+++.+.. +.+...+..+...+.+.|++++|.++++++...   .|+  ..
T Consensus       179 ----~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~  250 (389)
T PRK11788        179 ----IAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSE  250 (389)
T ss_pred             ----HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHH
Confidence                01123455666777788888888888877642 223456666777788888888888888887532   343  45


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL  447 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  447 (605)
                      .++.++.+|.+.|++++|...++++. ..|+  ...+..+...+...|++++|...++++++..|++. .+..++..+..
T Consensus       251 ~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~--~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~~~~~~  327 (389)
T PRK11788        251 VLPKLMECYQALGDEAEGLEFLRRALEEYPG--ADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLLDYHLA  327 (389)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC--chHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHHHHhhh
Confidence            67788888888899999988888754 4566  55668888899999999999999999999988875 55555655553


Q ss_pred             ---cCChhHHHHHHHHHHhCCCccCCc
Q 039695          448 ---AGEWENVHSLRSEMKRTGIHKEPG  471 (605)
Q Consensus       448 ---~g~~~~a~~~~~~m~~~~~~~~~~  471 (605)
                         .|+.+++..++++|.++++.++|.
T Consensus       328 ~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        328 EAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             ccCCccchhHHHHHHHHHHHHHhCCCC
Confidence               568999999999999999988885

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.84  E-value=4.2e-16  Score=171.44  Aligned_cols=446  Identities=12%  Similarity=0.006  Sum_probs=286.3

Q ss_pred             hhhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChhHHHHHHHHHHHhCCCCchHHHHHHHHH--------HHc
Q 039695            3 KSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINC--------YVR   74 (605)
Q Consensus         3 ~~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~--------~~~   74 (605)
                      +-+.+.|++++|+..+++..+.  .|+...+...+....+......+++.+.+.. +-+..++..+...        |.+
T Consensus        86 ~~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i~~~~kA~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q  162 (987)
T PRK09782         86 EAYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAIPVEVKSVTTVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQ  162 (987)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHhccChhHHHHHHHHHHhC-CCChhHHHHHHHHhhccchhhhhh
Confidence            3455667777777777766543  3444444444444444444456666666553 3334444444444        666


Q ss_pred             CCChhHHHHHHhcCCCC--ChhhHHH-HHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc-cCChHHHHHH
Q 039695           75 LKKTQVARQLFDEMLEP--NVVSYTS-LMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSM-LADLITGKQI  150 (605)
Q Consensus        75 ~g~~~~A~~~f~~m~~~--~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~-~~~~~~a~~~  150 (605)
                      .+....+++  .+...|  +..+... +...|.+.|++++|++++.++.+.+.. +..-...+-.++.. .++ +.+..+
T Consensus       163 ~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al  238 (987)
T PRK09782        163 LPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLAL  238 (987)
T ss_pred             HHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHH
Confidence            666666665  233223  3333333 378888888888899999888887543 33334555556665 355 666666


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC-----CChhhHHH--------------------------
Q 039695          151 HTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC-----RNVVSWTS--------------------------  199 (605)
Q Consensus       151 ~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~-----~~~~~~~~--------------------------  199 (605)
                      +..    .+..++.++..+++.|.+.|+.++|.+++++++.     |+..+|--                          
T Consensus       239 ~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~  314 (987)
T PRK09782        239 QSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQY  314 (987)
T ss_pred             hch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHH
Confidence            442    3346788888999999999999999999888742     11000000                          


Q ss_pred             ----HHH---------------------------------------------------------------HHHHcCChhH
Q 039695          200 ----IIV---------------------------------------------------------------AHAQNAQGHE  212 (605)
Q Consensus       200 ----li~---------------------------------------------------------------~~~~~g~~~~  212 (605)
                          ++.                                                               ..++.|+.++
T Consensus       315 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~  394 (987)
T PRK09782        315 VVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSRE  394 (987)
T ss_pred             HHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHH
Confidence                000                                                               0134556666


Q ss_pred             HHHHHHHHHH-cCCCCCChhHHHhHHHhhccc------------------------------------------------
Q 039695          213 ALEMFREFNY-QSRDRPNQHMLASVINACASL------------------------------------------------  243 (605)
Q Consensus       213 A~~~~~~m~~-~~~~~p~~~t~~~ll~a~~~~------------------------------------------------  243 (605)
                      |.++|+.... .+...++......++..+...                                                
T Consensus       395 a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~  474 (987)
T PRK09782        395 AADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPS  474 (987)
T ss_pred             HHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCC
Confidence            6666665543 111112222222333333222                                                


Q ss_pred             ---------------CchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCcchHHHHHHHH
Q 039695          244 ---------------GRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PSVVTYTSMIVGA  306 (605)
Q Consensus       244 ---------------~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~  306 (605)
                                     ++.++|...+.......  |+......+...+...|++++|...|+++..  |+...+..+...+
T Consensus       475 ~~~~a~~~LG~~l~~~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~al  552 (987)
T PRK09782        475 YDAAAWNRLAKCYRDTLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTA  552 (987)
T ss_pred             CCHHHHHHHHHHHHhCCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHH
Confidence                           23333444333333322  3332233334444577888888888876653  4445566667777


Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHH
Q 039695          307 AKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       307 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  386 (605)
                      .+.|+.++|..+|++..+.. +++...+..+.......|++++|...+++..   .+.|+...|..+..++.+.|++++|
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL---~l~P~~~a~~~LA~~l~~lG~~deA  628 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSL---NIAPSANAYVARATIYRQRHNVPAA  628 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHH---HhCCCHHHHHHHHHHHHHCCCHHHH
Confidence            88888888888888887753 2223333334445556699999999998886   4577888899999999999999999


Q ss_pred             HHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          387 YKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       387 ~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +..+++.. ..|+ +...+..+..++...|+.++|+..++++++..|+++.++..++.+|...|++++|...+++..+..
T Consensus       629 ~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        629 VSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            99998854 4555 367888899999999999999999999999999999999999999999999999999999988755


Q ss_pred             C
Q 039695          466 I  466 (605)
Q Consensus       466 ~  466 (605)
                      .
T Consensus       708 P  708 (987)
T PRK09782        708 D  708 (987)
T ss_pred             C
Confidence            3

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=5.9e-18  Score=173.19  Aligned_cols=293  Identities=13%  Similarity=0.073  Sum_probs=227.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHh
Q 039695           99 LMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYN---LVVCSSLVDMYGK  175 (605)
Q Consensus        99 li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~Li~~y~~  175 (605)
                      ....+...|++++|+..|.++.+.+. .+..++..+...+...|++++|..+++.+.+.+..++   ..++..+...|.+
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVDP-ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            34456678999999999999998642 2455888899999999999999999999987542222   3568889999999


Q ss_pred             CCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHH
Q 039695          176 CNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVA  252 (605)
Q Consensus       176 ~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~  252 (605)
                      .|++++|..+|+++.+   .+..+++.++..+.+.|++++|++.++.+...+ ..++...                    
T Consensus       120 ~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~--------------------  178 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLG-GDSLRVE--------------------  178 (389)
T ss_pred             CCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhc-CCcchHH--------------------
Confidence            9999999999999975   567789999999999999999999999998765 2221110                    


Q ss_pred             HHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--C-CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 039695          253 HGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--P-SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP  329 (605)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  329 (605)
                                 ....+..+...+.+.|++++|.+.|+++.+  | +...+..+...|.+.|++++|.++|+++...+...
T Consensus       179 -----------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~  247 (389)
T PRK11788        179 -----------IAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEY  247 (389)
T ss_pred             -----------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhh
Confidence                       011233455566677777777777776653  2 34466777788888999999999999988753333


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHH
Q 039695          330 NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLL  408 (605)
Q Consensus       330 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll  408 (605)
                      ...++..+..++...|++++|...++.+.+   ..|+...+..++..+.+.|++++|.++++++ ...|+  ...++.++
T Consensus       248 ~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~--~~~~~~l~  322 (389)
T PRK11788        248 LSEVLPKLMECYQALGDEAEGLEFLRRALE---EYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPS--LRGFHRLL  322 (389)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcC--HHHHHHHH
Confidence            345678888899999999999999998853   3677667788999999999999999999864 45577  77888888


Q ss_pred             HHHHH---cCChHHHHHHHHHHHh
Q 039695          409 SASRL---HGRVDIAVEASNQLIE  429 (605)
Q Consensus       409 ~~~~~---~g~~~~a~~~~~~~~~  429 (605)
                      ..+..   +|+.+++...++++++
T Consensus       323 ~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        323 DYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             HHhhhccCCccchhHHHHHHHHHH
Confidence            77664   5688888888888875

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=4.6e-17  Score=175.07  Aligned_cols=351  Identities=10%  Similarity=-0.007  Sum_probs=253.3

Q ss_pred             cCCChhHHHHHHhcCCC------CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHH
Q 039695           74 RLKKTQVARQLFDEMLE------PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITG  147 (605)
Q Consensus        74 ~~g~~~~A~~~f~~m~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a  147 (605)
                      +..+++.---.|..-++      .+..-...++..+.+.|++++|+.+++..+..... +...+..++.+....|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~-~~~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKN-GRDLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCC-chhHHHHHhhhHhhcCCHHHH
Confidence            44555555555554433      12233445666777888888888888888776443 233444455666678888888


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 039695          148 KQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQS  224 (605)
Q Consensus       148 ~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  224 (605)
                      .+.++.+.+.. +.+...+..+...+.+.|++++|...|++...   .+...|..+...+...|++++|...++.+....
T Consensus        96 ~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~  174 (656)
T PRK15174         96 LQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV  174 (656)
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC
Confidence            88888888764 44566777788888888888888888887754   345677788888888888888888888776543


Q ss_pred             CCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHH
Q 039695          225 RDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTS  301 (605)
Q Consensus       225 ~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~  301 (605)
                        +.+...+.. +..+...|++++|...+..+++....++......+...+.+.|+.++|...|+....   .+...+..
T Consensus       175 --P~~~~a~~~-~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~  251 (656)
T PRK15174        175 --PPRGDMIAT-CLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRS  251 (656)
T ss_pred             --CCCHHHHHH-HHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence              122222222 234667788888888888877654334444555567778888999989888888764   34566777


Q ss_pred             HHHHHHHcCChhH----HHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHH
Q 039695          302 MIVGAAKYGLGRF----SLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVD  375 (605)
Q Consensus       302 li~~~~~~g~~~~----A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~  375 (605)
                      +...|.+.|++++    |+..|++....  .| +...+..+...+...|++++|...++....   ..|+ ...+..+..
T Consensus       252 Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~---l~P~~~~a~~~La~  326 (656)
T PRK15174        252 LGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLA---THPDLPYVRAMYAR  326 (656)
T ss_pred             HHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHH
Confidence            8888888898885    78899988874  34 456788888888999999999999998863   4565 667777888


Q ss_pred             HHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          376 MLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       376 ~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      +|.+.|++++|.+.++++. ..|+ ....+..+..++...|+.++|...++++++..|++.
T Consensus       327 ~l~~~G~~~eA~~~l~~al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        327 ALRQVGQYTAASDEFVQLAREKGV-TSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            9999999999999998865 4455 123344456778899999999999999999988864

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.83  E-value=1.3e-16  Score=175.33  Aligned_cols=393  Identities=12%  Similarity=0.042  Sum_probs=249.7

Q ss_pred             HHHHHHHHHcCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChhhHHHHHHHHhc
Q 039695           65 LNHLINCYVRLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWP-NEFTFATVIKACSM  140 (605)
Q Consensus        65 ~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-d~~t~~~ll~a~~~  140 (605)
                      ..-.+......|+.++|++++.+...   .+...+..+...+.+.|++++|..+|++.++.  .| +...+..+...+..
T Consensus        18 ~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~   95 (765)
T PRK10049         18 IADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLAD   95 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            33444555566777777766666532   23334666666666677777777777766653  23 33344555556666


Q ss_pred             cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHHcCChhHHHHHH
Q 039695          141 LADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--R-NVVSWTSIIVAHAQNAQGHEALEMF  217 (605)
Q Consensus       141 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~  217 (605)
                      .|+.++|...++.+++.. +.+.. +..+..++...|+.++|...++++..  | +...+..+...+.+.+..++|++.+
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            677777777777666653 33444 66666666677777777777766644  2 3344455566666666666676666


Q ss_pred             HHHHHcCCCCCCh------hHHHhHHHhh-----cccCch---hhHHHHHHHHHHh-CCCCcHh--HHHH---HHHHHHh
Q 039695          218 REFNYQSRDRPNQ------HMLASVINAC-----ASLGRL---VSGKVAHGVVVRS-GCEFNDV--VASA---LVDMYAK  277 (605)
Q Consensus       218 ~~m~~~~~~~p~~------~t~~~ll~a~-----~~~~~~---~~a~~~~~~~~~~-g~~~~~~--~~~~---li~~y~~  277 (605)
                      +....    .|+.      ......+...     ...+++   +.|...++.+.+. ...|+..  ...+   .+..+..
T Consensus       174 ~~~~~----~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~  249 (765)
T PRK10049        174 DDANL----TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLA  249 (765)
T ss_pred             HhCCC----CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHH
Confidence            54432    1221      0111111111     111223   5566666666643 1122211  1111   1223456


Q ss_pred             cCCHHHHHHHHhccCCCC--cchH--HHHHHHHHHcCChhHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhccCcHHHH
Q 039695          278 CGSVNYSDKVFNRISNPS--VVTY--TSMIVGAAKYGLGRFSLDLFNEMISRGIKP---NDVTFVGVLHACSHSGLVDEG  350 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~~~~--~~~~--~~li~~~~~~g~~~~A~~l~~~m~~~g~~p---d~~t~~~ll~a~~~~g~~~~a  350 (605)
                      .|++++|+..|+.+.+.+  ...+  ..+...|...|++++|+..|+++.......   .......+..++...|++++|
T Consensus       250 ~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA  329 (765)
T PRK10049        250 RDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGA  329 (765)
T ss_pred             hhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHH
Confidence            688888888888887532  1211  224667888889999999988877642111   123455666677888999999


Q ss_pred             HHHHHHHHHhcC----------CCCc---HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCC
Q 039695          351 IQHLDSMYRKYG----------IIPD---AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGR  416 (605)
Q Consensus       351 ~~~~~~m~~~~~----------~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~  416 (605)
                      .++++.+.....          -.|+   ...+..+...+...|++++|++.++++. ..|+ +...+..+...+...|+
T Consensus       330 ~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~-n~~l~~~lA~l~~~~g~  408 (765)
T PRK10049        330 LTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG-NQGLRIDYASVLQARGW  408 (765)
T ss_pred             HHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCC
Confidence            988888854311          1123   2355677888889999999999998854 3444 37789999999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          417 VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       417 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +++|++.++++++.+|+++..+..++..+.+.|+|++|..+++++.+...
T Consensus       409 ~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        409 PRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             HHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999887543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=1.3e-16  Score=171.58  Aligned_cols=329  Identities=12%  Similarity=0.018  Sum_probs=267.9

Q ss_pred             hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHH
Q 039695          128 EFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAH  204 (605)
Q Consensus       128 ~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~  204 (605)
                      ..-...++..+...|+++.|..+++..+.... -+......++......|++++|...|+++..   .+...|..+...+
T Consensus        42 ~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p-~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l  120 (656)
T PRK15174         42 EQNIILFAIACLRKDETDVGLTLLSDRVLTAK-NGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVL  120 (656)
T ss_pred             ccCHHHHHHHHHhcCCcchhHHHhHHHHHhCC-CchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            33455677788899999999999999988753 3455556666777789999999999999865   3566788889999


Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHH
Q 039695          205 AQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYS  284 (605)
Q Consensus       205 ~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  284 (605)
                      .+.|++++|+..|++.....  +.+...+..+..++...|+.++|...+..+......+ ...+..+. .+.+.|++++|
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l~--P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~~-~l~~~g~~~eA  196 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLAF--SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATCL-SFLNKSRLPED  196 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHHH-HHHHcCCHHHH
Confidence            99999999999999998753  3456677888889999999999999999887765333 33333333 47889999999


Q ss_pred             HHHHhccCCC----CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHH----HHHHHHH
Q 039695          285 DKVFNRISNP----SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDE----GIQHLDS  356 (605)
Q Consensus       285 ~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~----a~~~~~~  356 (605)
                      ...++.+.+.    +...+..+...+.+.|++++|+..|++..... +.+...+..+..++...|++++    |...|+.
T Consensus       197 ~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~  275 (656)
T PRK15174        197 HDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRH  275 (656)
T ss_pred             HHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHH
Confidence            9999987653    23344555678899999999999999999853 3356677788889999999986    7899998


Q ss_pred             HHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 039695          357 MYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       357 m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      ..   .+.|+ ...+..+...+.+.|++++|...+++.. ..|+ +...+..+..++...|++++|...++++++.+|++
T Consensus       276 Al---~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~  351 (656)
T PRK15174        276 AL---QFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREKGVT  351 (656)
T ss_pred             HH---hhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccc
Confidence            86   45666 7889999999999999999999998854 4454 36678889999999999999999999999999998


Q ss_pred             CchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          435 ANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       435 ~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +..+..++.++...|++++|.+.+++..+...
T Consensus       352 ~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        352 SKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            77777788899999999999999999877644

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.80  E-value=2.2e-15  Score=165.58  Aligned_cols=396  Identities=11%  Similarity=-0.006  Sum_probs=294.4

Q ss_pred             HHHHHHHhhChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCC---CCChhhHHHHHHHHHhcCCh
Q 039695           33 FIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEML---EPNVVSYTSLMAGYINMGQP  109 (605)
Q Consensus        33 ~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~~  109 (605)
                      +..+..-.++...+..++....... +.+...+..+...+.+.|++++|.++|++..   ..+...+..+...+...|++
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~   99 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQY   99 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH
Confidence            4444444444444466666655422 4455568889999999999999999999962   34567788899999999999


Q ss_pred             hHHHHHHHHHHhCCCCC-ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhh
Q 039695          110 QIALLLFQKMLGNLVWP-NEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDL  188 (605)
Q Consensus       110 ~~a~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~  188 (605)
                      ++|+..+++..+.  .| +.. +..+..++...|+.++|...++.+.+.. +.+...+..+..++.+.|..+.|.+.++.
T Consensus       100 ~eA~~~l~~~l~~--~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~  175 (765)
T PRK10049        100 DEALVKAKQLVSG--APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDD  175 (765)
T ss_pred             HHHHHHHHHHHHh--CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHh
Confidence            9999999999886  34 444 7778888899999999999999999975 44666777788899999999999999998


Q ss_pred             cCC-CCh------hhHHHHHHHHH-----HcCCh---hHHHHHHHHHHHcCCCCCChh-HHHh----HHHhhcccCchhh
Q 039695          189 MGC-RNV------VSWTSIIVAHA-----QNAQG---HEALEMFREFNYQSRDRPNQH-MLAS----VINACASLGRLVS  248 (605)
Q Consensus       189 m~~-~~~------~~~~~li~~~~-----~~g~~---~~A~~~~~~m~~~~~~~p~~~-t~~~----ll~a~~~~~~~~~  248 (605)
                      ... |+.      .....++..+.     ..+++   ++|++.++.+...-...|+.. .+..    .+.++...++.++
T Consensus       176 ~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~e  255 (765)
T PRK10049        176 ANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKD  255 (765)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHH
Confidence            776 211      01122222222     22234   788999998886421334332 2211    1344567799999


Q ss_pred             HHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCC-------cchHHHHHHHHHHcCChhHHHHHHHH
Q 039695          249 GKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPS-------VVTYTSMIVGAAKYGLGRFSLDLFNE  321 (605)
Q Consensus       249 a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~l~~~  321 (605)
                      |...++.+.+.+.+........+...|...|++++|...|+.+.+.+       ...+..+..++.+.|++++|..++++
T Consensus       256 A~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~  335 (765)
T PRK10049        256 VISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAH  335 (765)
T ss_pred             HHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            99999999987632112222335778999999999999999886422       12455667788999999999999999


Q ss_pred             HHHcCC-----------CCCH---HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHH
Q 039695          322 MISRGI-----------KPND---VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       322 m~~~g~-----------~pd~---~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  386 (605)
                      +.....           .|+.   ..+..+...+...|+.++|++.++++...   .|+ ...+..+..++...|++++|
T Consensus       336 ~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~---~P~n~~l~~~lA~l~~~~g~~~~A  412 (765)
T PRK10049        336 TINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN---APGNQGLRIDYASVLQARGWPRAA  412 (765)
T ss_pred             HhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhcCCHHHH
Confidence            987521           2332   24456667888899999999999998643   454 88899999999999999999


Q ss_pred             HHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCch
Q 039695          387 YKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       387 ~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  437 (605)
                      ++.+++.. ..|+ +...+..+...+...|++++|+.+++++++..|+++.+
T Consensus       413 ~~~l~~al~l~Pd-~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~  463 (765)
T PRK10049        413 ENELKKAEVLEPR-NINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGV  463 (765)
T ss_pred             HHHHHHHHhhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHH
Confidence            99999854 4565 35677778888999999999999999999999999754

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.78  E-value=9.6e-15  Score=157.60  Aligned_cols=395  Identities=11%  Similarity=-0.030  Sum_probs=269.1

Q ss_pred             HHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHH---HHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCC
Q 039695           67 HLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLM---AGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLAD  143 (605)
Q Consensus        67 ~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li---~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~  143 (605)
                      .++..+...|+.++|+..+++...|+...+..+.   ..|...|++++|+++|+++.+.... |...+..++..+...++
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q  151 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGR  151 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCC
Confidence            6777777778888888888877666444433333   3566668888888888888775332 34555566667777778


Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          144 LITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--R-NVVSWTSIIVAHAQNAQGHEALEMFREF  220 (605)
Q Consensus       144 ~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m  220 (605)
                      .++|++.++.+.+.  .|+...+..++..+...++..+|.+.++++.+  | +...+..+..+..+.|-...|+++..+-
T Consensus       152 ~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~  229 (822)
T PRK14574        152 GGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPTSEEVLKNHLEILQRNRIVEPALRLAKEN  229 (822)
T ss_pred             HHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhC
Confidence            88888777777665  34445555555555455666557777777754  3 4455666777777777777777766543


Q ss_pred             HHcCCCCCChhH------HHhHHHhh-----cccCchhh---HHHHHHHHHHh-C-CCCcHhH-HHHH---HHHHHhcCC
Q 039695          221 NYQSRDRPNQHM------LASVINAC-----ASLGRLVS---GKVAHGVVVRS-G-CEFNDVV-ASAL---VDMYAKCGS  280 (605)
Q Consensus       221 ~~~~~~~p~~~t------~~~ll~a~-----~~~~~~~~---a~~~~~~~~~~-g-~~~~~~~-~~~l---i~~y~~~g~  280 (605)
                      ...  +.|...-      ....++--     ....++..   +..-++.+... + .++.... ..+.   +-++.+.|+
T Consensus       230 p~~--f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r  307 (822)
T PRK14574        230 PNL--VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQ  307 (822)
T ss_pred             ccc--cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhh
Confidence            211  1111110      11111100     01122223   33333333331 1 1222122 2333   445678899


Q ss_pred             HHHHHHHHhccCCCC--cc--hHHHHHHHHHHcCChhHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHhccCcHHHHH
Q 039695          281 VNYSDKVFNRISNPS--VV--TYTSMIVGAAKYGLGRFSLDLFNEMISRG-----IKPNDVTFVGVLHACSHSGLVDEGI  351 (605)
Q Consensus       281 ~~~A~~~~~~~~~~~--~~--~~~~li~~~~~~g~~~~A~~l~~~m~~~g-----~~pd~~t~~~ll~a~~~~g~~~~a~  351 (605)
                      +.++.+.|+.+..+.  +.  +-.++..+|...+++++|+.+|+++....     ..++......|..++..++++++|.
T Consensus       308 ~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~  387 (822)
T PRK14574        308 TADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAY  387 (822)
T ss_pred             HHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHH
Confidence            999999999998532  23  44567899999999999999999987642     1223344578899999999999999


Q ss_pred             HHHHHHHHhcC------------CCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChH
Q 039695          352 QHLDSMYRKYG------------IIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       352 ~~~~~m~~~~~------------~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      .+++.+.+...            -.|| ...+..++..+...|++.+|++.++++...-+.+...+..+...+...|.+.
T Consensus       388 ~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~  467 (822)
T PRK14574        388 QFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPR  467 (822)
T ss_pred             HHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHH
Confidence            99999964211            1123 4556667888899999999999999975332334889999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          419 IAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +|++.++.+..++|++..+...++..+...|+|++|.++.+.+.+...
T Consensus       468 ~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~P  515 (822)
T PRK14574        468 KAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSP  515 (822)
T ss_pred             HHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCC
Confidence            999999999999999999999999999999999999999988877654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.77  E-value=1.5e-14  Score=159.43  Aligned_cols=446  Identities=10%  Similarity=0.050  Sum_probs=320.2

Q ss_pred             chhhhhccchHHHHHHHHHhhhCCC-CCChhhHHHHHHHhhChhHHHHHHHHHHHhCCCCc-hHHHHHHHHHHHcCCChh
Q 039695            2 KKSLTRNLIFTLAASSLTRQNKRSS-CHTKAHFIQQLQECKHLISLASVHSEILKSGFLSN-TFTLNHLINCYVRLKKTQ   79 (605)
Q Consensus         2 ~~~l~~~~~~~~a~~~l~~m~~~g~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~   79 (605)
                      .+.+.+.|+.++|.+.+..+...-. .|...++.-.+..........  .....+ .+.++ ....-.++..+.+.++++
T Consensus       254 a~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~--~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  330 (987)
T PRK09782        254 ATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQA--LANYTV-QFADNRQYVVGATLPVLLKEGQYD  330 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhh--ccchhh-hhHHHHHHHHHHHHHHHHhccHHH
Confidence            4567889999999999999875533 366666666665555443220  000111 11111 122334578899999999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHH--hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh
Q 039695           80 VARQLFDEMLEPNVVSYTSLMAGYI--NMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETF  157 (605)
Q Consensus        80 ~A~~~f~~m~~~~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  157 (605)
                      .|.++.+ ....+. .  ..++...  ..+...++...+..|.+... -+......+--.....|+.++|.++++.....
T Consensus       331 ~~~~~~~-~~~~~~-~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~~-~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~  405 (987)
T PRK09782        331 AAQKLLA-TLPANE-M--LEERYAVSVATRNKAEALRLARLLYQQEP-ANLTRLDQLTWQLMQNGQSREAADLLLQRYPF  405 (987)
T ss_pred             HHHHHhc-CCCcch-H--HHHHHhhccccCchhHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHhcCC
Confidence            8888754 222222 2  2333333  34666777777777876521 13333333333345779999999999988763


Q ss_pred             -C-CCCchhHHHHHHHHHHhCCC---HHHHHHH------------Hh-------------hcCC---C--ChhhHHHHHH
Q 039695          158 -G-FQYNLVVCSSLVDMYGKCND---VDGARRV------------FD-------------LMGC---R--NVVSWTSIIV  202 (605)
Q Consensus       158 -g-~~~~~~~~~~Li~~y~~~g~---~~~A~~~------------~~-------------~m~~---~--~~~~~~~li~  202 (605)
                       + -..+....+.|++.|.+.+.   ..++..+            ..             ....   +  +...|..+..
T Consensus       406 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~  485 (987)
T PRK09782        406 QGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAK  485 (987)
T ss_pred             CcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHH
Confidence             1 12345566688899988877   3333333            11             1111   2  5667788887


Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHH
Q 039695          203 AHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVN  282 (605)
Q Consensus       203 ~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  282 (605)
                      ++.. +++++|+..|.+....   .|+......+..++...|++++|...+..+...  +|+...+..+...+.+.|+.+
T Consensus       486 ~l~~-~~~~eAi~a~~~Al~~---~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~  559 (987)
T PRK09782        486 CYRD-TLPGVALYAWLQAEQR---QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGA  559 (987)
T ss_pred             HHHh-CCcHHHHHHHHHHHHh---CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHH
Confidence            7776 8999999988887764   467655555556667899999999999987654  344445667788899999999


Q ss_pred             HHHHHHhccCCCCcchHHHHHH---HHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 039695          283 YSDKVFNRISNPSVVTYTSMIV---GAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYR  359 (605)
Q Consensus       283 ~A~~~~~~~~~~~~~~~~~li~---~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  359 (605)
                      +|.+.|+...+.++..++....   ...+.|++++|+..|++..+  ..|+...+..+..++.+.|++++|...++... 
T Consensus       560 eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL-  636 (987)
T PRK09782        560 ARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAAL-  636 (987)
T ss_pred             HHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-
Confidence            9999999887654444443333   33445999999999999987  45678889999999999999999999999886 


Q ss_pred             hcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCch
Q 039695          360 KYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       360 ~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  437 (605)
                        .+.|+ ...+..+...+...|++++|++.+++.. ..|+ ++..+..+..++...|++++|+..+++++++.|++..+
T Consensus       637 --~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~-~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i  713 (987)
T PRK09782        637 --ELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPD-DPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALI  713 (987)
T ss_pred             --HhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchh
Confidence              45676 7888899999999999999999998753 4554 37799999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          438 YVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       438 ~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      ....++...+..+++.|.+-+++....++.
T Consensus       714 ~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~  743 (987)
T PRK09782        714 TPLTPEQNQQRFNFRRLHEEVGRRWTFSFD  743 (987)
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHhhcCcc
Confidence            999999999999999999988877766553

>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=99.76  E-value=7.3e-15  Score=158.59  Aligned_cols=359  Identities=9%  Similarity=0.014  Sum_probs=262.4

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 039695           95 SYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYG  174 (605)
Q Consensus        95 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~  174 (605)
                      .+...-..+.+.|++++|+..|++.++  +.|+...|..+..++...|++++|...+..+++.. +.+...+..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            355667788899999999999999887  56788889999999999999999999999999875 456778889999999


Q ss_pred             hCCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCCChhHHHhH--------------
Q 039695          175 KCNDVDGARRVFDLMGCR---NVVSWTSIIVAHAQNAQGHEALEMFREFNYQS-RDRPNQHMLASV--------------  236 (605)
Q Consensus       175 ~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~p~~~t~~~l--------------  236 (605)
                      ..|++++|..-|......   +......++..+..    ..+........... ...|........              
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  281 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLE  281 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhh
Confidence            999999999887655321   11111111111111    11111111111110 000100000000              


Q ss_pred             -------------HHh------hcccCchhhHHHHHHHHHHhC--CCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--
Q 039695          237 -------------INA------CASLGRLVSGKVAHGVVVRSG--CEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--  293 (605)
Q Consensus       237 -------------l~a------~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--  293 (605)
                                   +..      ....+.+++|...+...++.+  .+.....++.+...|...|++++|...|++..+  
T Consensus       282 ~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~  361 (615)
T TIGR00990       282 DSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD  361 (615)
T ss_pred             cccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence                         000      012356888889998888765  233456788888999999999999999998874  


Q ss_pred             CC-cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHH
Q 039695          294 PS-VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYT  371 (605)
Q Consensus       294 ~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~  371 (605)
                      |+ ..+|..+...+...|++++|+..|++..+.. +.+..++..+...+...|++++|...|+...   .+.|+ ...+.
T Consensus       362 P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal---~l~P~~~~~~~  437 (615)
T TIGR00990       362 PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSI---DLDPDFIFSHI  437 (615)
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HcCccCHHHHH
Confidence            43 4577888888999999999999999998752 2356788888889999999999999999886   45665 77788


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHH-------HHH
Q 039695          372 CVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVT-------LSN  443 (605)
Q Consensus       372 ~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~-------l~~  443 (605)
                      .+..++.+.|++++|+..|++.. ..|+ ++..|+.+...+...|++++|+..|++++++.|.+...+..       ...
T Consensus       438 ~la~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~  516 (615)
T TIGR00990       438 QLGVTQYKEGSIASSMATFRRCKKNFPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALA  516 (615)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHH
Confidence            89999999999999999998753 3443 37789999999999999999999999999999875443322       122


Q ss_pred             HHHhcCChhHHHHHHHHHHhCC
Q 039695          444 TYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       444 ~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .|...|++++|.+++++..+..
T Consensus       517 ~~~~~~~~~eA~~~~~kAl~l~  538 (615)
T TIGR00990       517 LFQWKQDFIEAENLCEKALIID  538 (615)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC
Confidence            3444799999999999887654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=2.5e-14  Score=134.68  Aligned_cols=311  Identities=14%  Similarity=0.145  Sum_probs=222.0

Q ss_pred             hhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhh--ChhHH----HHHHHHHHHhCCCCchHHHHHHHHHHHcCCC
Q 039695            4 SLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECK--HLISL----ASVHSEILKSGFLSNTFTLNHLINCYVRLKK   77 (605)
Q Consensus         4 ~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~--~~~~~----~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~   77 (605)
                      .+..+++.+.+.=++++|++.|+....-.-..+++-..  .....    .+-+-.|.+.| +.+..+|        |.|.
T Consensus       124 kmIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW--------K~G~  194 (625)
T KOG4422|consen  124 KMISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW--------KSGA  194 (625)
T ss_pred             HHHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc--------cccc
Confidence            35567777788888888888776655554444443321  11111    22222232222 2222333        4565


Q ss_pred             hhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh
Q 039695           78 TQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETF  157 (605)
Q Consensus        78 ~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  157 (605)
                      +.+  -+| +....+..+|.+||.|+++--..+.|.+++++-.....+.+..+||.+|.+..    +..++++..+|+..
T Consensus       195 vAd--L~~-E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~Lv~EMisq  267 (625)
T KOG4422|consen  195 VAD--LLF-ETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKLVAEMISQ  267 (625)
T ss_pred             HHH--HHH-hhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHHHHHHHHh
Confidence            544  344 44445778999999999999999999999999999889999999999998754    33458899999999


Q ss_pred             CCCCchhHHHHHHHHHHhCCCHHHHHHH----HhhcC----CCChhhHHHHHHHHHHcCChhH-HHHHHHHHHHc--C-C
Q 039695          158 GFQYNLVVCSSLVDMYGKCNDVDGARRV----FDLMG----CRNVVSWTSIIVAHAQNAQGHE-ALEMFREFNYQ--S-R  225 (605)
Q Consensus       158 g~~~~~~~~~~Li~~y~~~g~~~~A~~~----~~~m~----~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~--~-~  225 (605)
                      .+.||..|+|+++.+.++.|+++.|++.    +.+|+    +|...+|.-+|..+.+.+++.+ |..++.++...  | .
T Consensus       268 km~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~  347 (625)
T KOG4422|consen  268 KMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKT  347 (625)
T ss_pred             hcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCc
Confidence            9999999999999999999998876654    44554    4899999999999999888755 45555555431  1 0


Q ss_pred             CC---C-ChhHHHhHHHhhcccCchhhHHHHHHHHHHhC----CCCc---HhHHHHHHHHHHhcCCHHHHHHHHhccCC-
Q 039695          226 DR---P-NQHMLASVINACASLGRLVSGKVAHGVVVRSG----CEFN---DVVASALVDMYAKCGSVNYSDKVFNRISN-  293 (605)
Q Consensus       226 ~~---p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g----~~~~---~~~~~~li~~y~~~g~~~~A~~~~~~~~~-  293 (605)
                      ++   | |...|.+.++.|.+..+.+.|.++++......    +.++   ..-|..+.+..++...++.-...|+.|.. 
T Consensus       348 fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~  427 (625)
T KOG4422|consen  348 FKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPS  427 (625)
T ss_pred             ccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            22   2 56678899999999999999999998776521    2333   23455677778888888888888888863 


Q ss_pred             ---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 039695          294 ---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN  330 (605)
Q Consensus       294 ---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd  330 (605)
                         |+..+...++.+..-.|.++-.-+++..|+..|..-+
T Consensus       428 ~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r  467 (625)
T KOG4422|consen  428 AYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFR  467 (625)
T ss_pred             eecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhh
Confidence               6777777778888888888888888888777654433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.75  E-value=6.8e-14  Score=151.10  Aligned_cols=422  Identities=9%  Similarity=0.028  Sum_probs=305.8

Q ss_pred             hhhccchHHHHHHHHHhhhCCCC--CChhhHHHHHHHhhChhHHHHHHHHHHHhCCCCc-h--HHHHHHHHHHHcCCChh
Q 039695            5 LTRNLIFTLAASSLTRQNKRSSC--HTKAHFIQQLQECKHLISLASVHSEILKSGFLSN-T--FTLNHLINCYVRLKKTQ   79 (605)
Q Consensus         5 l~~~~~~~~a~~~l~~m~~~g~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~-~--~~~~~li~~~~~~g~~~   79 (605)
                      ..++|+++.|+..|.+..+....  |....+..++...++...+...++..+    .|+ .  ....++...|...|+++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCHH
Confidence            47899999999999998765322  112222333333333333344444443    332 2  23333356788889999


Q ss_pred             HHHHHHhcCCC--C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHH
Q 039695           80 VARQLFDEMLE--P-NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIET  156 (605)
Q Consensus        80 ~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  156 (605)
                      .|.++|+++.+  | ++..+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|.+.++++.+
T Consensus       120 ~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        120 QALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            99999999944  3 4667778889999999999999999999875  45656664444444445666669999999999


Q ss_pred             hCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhH--HHHHHHHHH---------cCC---hhHHHHHHHH
Q 039695          157 FGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSW--TSIIVAHAQ---------NAQ---GHEALEMFRE  219 (605)
Q Consensus       157 ~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~--~~li~~~~~---------~g~---~~~A~~~~~~  219 (605)
                      .. +.+...+..++....+.|-...|.++..+-+.   +...-|  ...+.-.++         ..+   .+.|+.-++.
T Consensus       198 ~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~  276 (822)
T PRK14574        198 LA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQN  276 (822)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHH
Confidence            85 66788889999999999999999999888764   111111  001111111         122   3456666666


Q ss_pred             HHHcCCCCCCh-hHH----HhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCC
Q 039695          220 FNYQSRDRPNQ-HML----ASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP  294 (605)
Q Consensus       220 m~~~~~~~p~~-~t~----~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~  294 (605)
                      +...-+..|.. .-|    .-.+-++...++..++...++.+...+.+....+-.++.++|...+++++|..+|..+..+
T Consensus       277 l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~  356 (822)
T PRK14574        277 LLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYS  356 (822)
T ss_pred             HHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc
Confidence            65422122322 222    2345577888999999999999999998878889999999999999999999999988542


Q ss_pred             ---------CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCC-----------CCCH---HHHHHHHHHHhccCcHHHHH
Q 039695          295 ---------SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGI-----------KPND---VTFVGVLHACSHSGLVDEGI  351 (605)
Q Consensus       295 ---------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-----------~pd~---~t~~~ll~a~~~~g~~~~a~  351 (605)
                               +......|.-+|...+++++|..+++++.+.-.           .||+   ..+..++..+...|++.+|+
T Consensus       357 ~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae  436 (822)
T PRK14574        357 DGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQ  436 (822)
T ss_pred             cccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHH
Confidence                     222346789999999999999999999987311           1222   23444566778899999999


Q ss_pred             HHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 039695          352 QHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       352 ~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      +.++.+..   ..| |......+.+.+...|.+.+|++.++... ..|+ +..+...++.++...++++.|..+.+.+.+
T Consensus       437 ~~le~l~~---~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~-~~~~~~~~~~~al~l~e~~~A~~~~~~l~~  512 (822)
T PRK14574        437 KKLEDLSS---TAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPR-SLILERAQAETAMALQEWHQMELLTDDVIS  512 (822)
T ss_pred             HHHHHHHH---hCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCc-cHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            99999963   345 58889999999999999999999998755 3444 366777888889999999999999999999


Q ss_pred             cCCCCCch
Q 039695          430 SNQQVANA  437 (605)
Q Consensus       430 ~~p~~~~~  437 (605)
                      ..|+++.+
T Consensus       513 ~~Pe~~~~  520 (822)
T PRK14574        513 RSPEDIPS  520 (822)
T ss_pred             hCCCchhH
Confidence            99999754

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

Probab=99.66  E-value=1.6e-12  Score=134.69  Aligned_cols=400  Identities=13%  Similarity=0.130  Sum_probs=233.5

Q ss_pred             CCchHHHHHHHHHHHcCCChhHHHHHHhcCCCCC------hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh--h
Q 039695           59 LSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPN------VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEF--T  130 (605)
Q Consensus        59 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~--t  130 (605)
                      ..|+.+.+.|.+.|--.|+++.+..+...+...+      ..+|--+-++|-..|++++|...|.+..+.  .||.+  .
T Consensus       267 ~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~  344 (1018)
T KOG2002|consen  267 NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLP  344 (1018)
T ss_pred             CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCcccc
Confidence            4567788888888888888888888887774322      345777888888889999999888777664  34543  4


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCC----CHHHHHHHHhhcCCC---ChhhHHHHHHH
Q 039695          131 FATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCN----DVDGARRVFDLMGCR---NVVSWTSIIVA  203 (605)
Q Consensus       131 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g----~~~~A~~~~~~m~~~---~~~~~~~li~~  203 (605)
                      +..+...+...|+++.+...|+.+.+.. +.+..+.-.|...|+..+    ..+.|..+......+   |...|-.+...
T Consensus       345 ~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql  423 (1018)
T KOG2002|consen  345 LVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQL  423 (1018)
T ss_pred             ccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4556777888889999988888888763 556667777777777664    445566665555432   33333333333


Q ss_pred             HHHcCChhHHHHHHHHH----HHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHh---CCCC------cHhHHHH
Q 039695          204 HAQNAQGHEALEMFREF----NYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRS---GCEF------NDVVASA  270 (605)
Q Consensus       204 ~~~~g~~~~A~~~~~~m----~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~---g~~~------~~~~~~~  270 (605)
                      +-+. ++..++..|...    ...+ ..+.....+.+.......|.++.|...+......   -..+      ++.+-..
T Consensus       424 ~e~~-d~~~sL~~~~~A~d~L~~~~-~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN  501 (1018)
T KOG2002|consen  424 LEQT-DPWASLDAYGNALDILESKG-KQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN  501 (1018)
T ss_pred             HHhc-ChHHHHHHHHHHHHHHHHcC-CCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH
Confidence            2222 222223333222    1222 2233344444444444444444444444433332   0011      1111112


Q ss_pred             HHHHHHhc----------------------------------CCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChh
Q 039695          271 LVDMYAKC----------------------------------GSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGR  313 (605)
Q Consensus       271 li~~y~~~----------------------------------g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  313 (605)
                      |...+-..                                  +...+|...++...+   .|+..|+-+...|.....+.
T Consensus       502 larl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~  581 (1018)
T KOG2002|consen  502 LARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWK  581 (1018)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhc
Confidence            22222222                                  334445555544432   34445555555555555555


Q ss_pred             HHHHHHHHHHHc-CCCCCHHHHHHHHHHHhcc------------CcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhh
Q 039695          314 FSLDLFNEMISR-GIKPNDVTFVGVLHACSHS------------GLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGR  379 (605)
Q Consensus       314 ~A~~l~~~m~~~-g~~pd~~t~~~ll~a~~~~------------g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~  379 (605)
                      .|.+-|...... ...+|.++..+|.+.|...            +..++|+++|.+.++   ..| |...-+-+.-.++.
T Consensus       582 ~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~---~dpkN~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  582 PAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR---NDPKNMYAANGIGIVLAE  658 (1018)
T ss_pred             ccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh---cCcchhhhccchhhhhhh
Confidence            555544444331 1225666665555544321            335567777776642   333 46666777777788


Q ss_pred             cCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCCCchHHHHHHHHHhcCChhHHHHH
Q 039695          380 TGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN--QQVANAYVTLSNTYALAGEWENVHSL  457 (605)
Q Consensus       380 ~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~y~~~g~~~~a~~~  457 (605)
                      .|++.+|.++|.+....-+....+|-.+..+|...|++..|+++|+..++..  .+++.+...|+.++.+.|+|.+|.+.
T Consensus       659 kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~  738 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEA  738 (1018)
T ss_pred             ccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHH
Confidence            8888888888877652211125678888888888888888888888877643  34455677788888888888888887


Q ss_pred             HHHHHhCCC
Q 039695          458 RSEMKRTGI  466 (605)
Q Consensus       458 ~~~m~~~~~  466 (605)
                      ........+
T Consensus       739 ll~a~~~~p  747 (1018)
T KOG2002|consen  739 LLKARHLAP  747 (1018)
T ss_pred             HHHHHHhCC
Confidence            776665443

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.59  E-value=2.7e-10  Score=113.42  Aligned_cols=409  Identities=9%  Similarity=0.038  Sum_probs=302.3

Q ss_pred             HHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCC------CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-
Q 039695           54 LKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEML------EPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWP-  126 (605)
Q Consensus        54 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-  126 (605)
                      ...|+..+..-|-.=...+-+.|.+-.++.+.....      +.--.+|+.--..|.+.+.++-|..+|...++.  .| 
T Consensus       471 ~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv--fp~  548 (913)
T KOG0495|consen  471 QANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV--FPC  548 (913)
T ss_pred             hhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccc
Confidence            344555555555555555555555555555554431      122346777777777777777777777777663  23 


Q ss_pred             ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHH
Q 039695          127 NEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVA  203 (605)
Q Consensus       127 d~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~  203 (605)
                      +...|......--..|..+.-..+++.++..- +.....|-....-+-..|++..|+.++++.-+   .+...|-+-+..
T Consensus       549 k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKl  627 (913)
T KOG0495|consen  549 KKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKL  627 (913)
T ss_pred             hhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            44455555555556677788888888877653 44555666666777778898888888777643   356678888888


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHH
Q 039695          204 HAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNY  283 (605)
Q Consensus       204 ~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~  283 (605)
                      -..+..+++|..+|.+....   .|+...|..-++.---.+..++|.++++..++.- +.-...|-.+...+-+.++++.
T Consensus       628 e~en~e~eraR~llakar~~---sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~  703 (913)
T KOG0495|consen  628 EFENDELERARDLLAKARSI---SGTERVWMKSANLERYLDNVEEALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEM  703 (913)
T ss_pred             hhccccHHHHHHHHHHHhcc---CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHH
Confidence            88888999999999887764   4666666665555566788889999888887753 5556778888888888899999


Q ss_pred             HHHHHhccCC--C-CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 039695          284 SDKVFNRISN--P-SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRK  360 (605)
Q Consensus       284 A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  360 (605)
                      |+..|..-.+  | .+..|-.+...=-+.|+.-+|..++++....+.+ |...|...+..-.+.|..++|..+..+..++
T Consensus       704 aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  704 AREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQE  782 (913)
T ss_pred             HHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9988887765  4 3456777777777788899999999888776433 6788888889889999999999888877654


Q ss_pred             cCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHH
Q 039695          361 YGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVT  440 (605)
Q Consensus       361 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  440 (605)
                        .+.+...|.--|-+..+.++-..+.+.+++-.  .|  +.+.-++...+....+++.|..-|.++++.+|++..+|..
T Consensus       783 --cp~sg~LWaEaI~le~~~~rkTks~DALkkce--~d--phVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~  856 (913)
T KOG0495|consen  783 --CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HD--PHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAW  856 (913)
T ss_pred             --CCccchhHHHHHHhccCcccchHHHHHHHhcc--CC--chhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHH
Confidence              34457788888888888888777777777664  34  6677777788888899999999999999999999999999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCccCCceeEEEeC
Q 039695          441 LSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIR  478 (605)
Q Consensus       441 l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~  478 (605)
                      +-..+.+.|.-++-.+++.+.....  |.-|..|..+.
T Consensus       857 fykfel~hG~eed~kev~~~c~~~E--P~hG~~W~avS  892 (913)
T KOG0495|consen  857 FYKFELRHGTEEDQKEVLKKCETAE--PTHGELWQAVS  892 (913)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhccC--CCCCcHHHHHh
Confidence            9999999999999999999887754  45677887543

>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]

Probab=99.58  E-value=6.3e-12  Score=129.54  Aligned_cols=330  Identities=13%  Similarity=0.116  Sum_probs=223.0

Q ss_pred             cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhc---CCCChhhHHHHHHHHHHcCChhHHHHHH
Q 039695          141 LADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLM---GCRNVVSWTSIIVAHAQNAQGHEALEMF  217 (605)
Q Consensus       141 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m---~~~~~~~~~~li~~~~~~g~~~~A~~~~  217 (605)
                      .|++++|..++.++++.. +.+...|.+|...|-..|+.+++...+--.   ...|..-|-.+..-..+.|.+++|.-.|
T Consensus       152 rg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             hCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            377777777777777664 455666777777777777777776655433   2345566666666667777777777777


Q ss_pred             HHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHH----HHHHHHHHhcCCHHHHHHHHhccCC
Q 039695          218 REFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVA----SALVDMYAKCGSVNYSDKVFNRISN  293 (605)
Q Consensus       218 ~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~----~~li~~y~~~g~~~~A~~~~~~~~~  293 (605)
                      .+..+..  +++...+-.-...|-+.|+...|..-+.++.....+.|..-.    ...+..|...++-+.|.+.++....
T Consensus       231 ~rAI~~~--p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s  308 (895)
T KOG2076|consen  231 SRAIQAN--PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALS  308 (895)
T ss_pred             HHHHhcC--CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            7766653  445555555556666677777777777666665433232222    2234445555666667666665543


Q ss_pred             -----CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCC---------------------------CCHHHHHHHHHHH
Q 039695          294 -----PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIK---------------------------PNDVTFVGVLHAC  341 (605)
Q Consensus       294 -----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~---------------------------pd~~t~~~ll~a~  341 (605)
                           -+...+|.++..|.+...++.|......+......                           ++... ..+.-+.
T Consensus       309 ~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~icL  387 (895)
T KOG2076|consen  309 KEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMICL  387 (895)
T ss_pred             hccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhhh
Confidence                 23445677777777777777777777766652222                           22222 1222233


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCC--cHHHHHHHHHHHhhcCCHHHHHHHHHhCCCC-CCchhhHHHHHHHHHHHcCChH
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIP--DAKHYTCVVDMLGRTGRLDEAYKLAKSIQVD-PDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      .+....+....+...+ .+..+.|  +...|.-+.++|.+.|++.+|++++..+... +..+..+|--+..++...|..+
T Consensus       388 ~~L~~~e~~e~ll~~l-~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e  466 (895)
T KOG2076|consen  388 VHLKERELLEALLHFL-VEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYE  466 (895)
T ss_pred             hcccccchHHHHHHHH-HHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHH
Confidence            4444444444444444 3335444  4888999999999999999999999987633 3434779999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCceeEE
Q 039695          419 IAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWV  475 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~  475 (605)
                      +|.+.+++++...|++..+-..|...|-+.|+.++|.+++..+..-+....+++.|-
T Consensus       467 ~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~  523 (895)
T KOG2076|consen  467 EAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWE  523 (895)
T ss_pred             HHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhcccc
Confidence            999999999999999999999999999999999999999998874444344556664

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.58  E-value=5.4e-15  Score=143.40  Aligned_cols=255  Identities=17%  Similarity=0.149  Sum_probs=113.4

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHh-HHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcC
Q 039695          201 IVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLAS-VINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCG  279 (605)
Q Consensus       201 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~-ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  279 (605)
                      ...+.+.|++++|++++.+..... .+|+...|-. +...+...++.+.|...++.+...+ +.++..+..++.. ...+
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~-~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKI-APPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccc-cccccccccccccccccccccccccccccccccccc-ccccccccccccc-cccc
Confidence            334445555555555554322221 1233333332 2233344556666666666666554 2255566666666 6778


Q ss_pred             CHHHHHHHHhccC--CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 039695          280 SVNYSDKVFNRIS--NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRG-IKPNDVTFVGVLHACSHSGLVDEGIQHLDS  356 (605)
Q Consensus       280 ~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~  356 (605)
                      ++++|.+++...-  .++...+..++..+.+.++++++..++++..... .+++...|..+...+.+.|+.++|.+.+++
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888888877664  3566778888888999999999999999987632 345777788888889999999999999999


Q ss_pred             HHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          357 MYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQV--DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       357 m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      .++   ..|+ ......++..+...|+.+++.++++....  ..+  +..|..+..++...|+.+.|...++++.+..|+
T Consensus       172 al~---~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~--~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~  246 (280)
T PF13429_consen  172 ALE---LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDD--PDLWDALAAAYLQLGRYEEALEYLEKALKLNPD  246 (280)
T ss_dssp             HHH---H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTS--CCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT
T ss_pred             HHH---cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCH--HHHHHHHHHHhcccccccccccccccccccccc
Confidence            874   4675 77888999999999999998888776542  234  678999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          434 VANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       434 ~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      |+.....+++++...|+.++|.+++++..+
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            999999999999999999999999887643

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

Probab=99.57  E-value=1.1e-10  Score=121.49  Aligned_cols=367  Identities=10%  Similarity=0.046  Sum_probs=237.6

Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHH
Q 039695           91 PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVW--PNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSS  168 (605)
Q Consensus        91 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~--pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  168 (605)
                      .|++.-|.|-+-|.-.|++..++.+...+......  .-..+|-.+.+++-..|++++|.+.|.+..+..-..-+..+-.
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~G  347 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVG  347 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccc
Confidence            46777777888888888888888888777664311  1234577778888888888888888887776542222344456


Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHHcC----ChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhc
Q 039695          169 LVDMYGKCNDVDGARRVFDLMGC--R-NVVSWTSIIVAHAQNA----QGHEALEMFREFNYQSRDRPNQHMLASVINACA  241 (605)
Q Consensus       169 Li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~  241 (605)
                      |..+|.+.|+++.|...|+.+-.  | +..+...|...|+..+    ..++|..++.+....  .+.|...|..+...+.
T Consensus       348 lgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~--~~~d~~a~l~laql~e  425 (1018)
T KOG2002|consen  348 LGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ--TPVDSEAWLELAQLLE  425 (1018)
T ss_pred             hhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc--ccccHHHHHHHHHHHH
Confidence            77888888888888888887754  3 3445555556666554    456666666666553  2446666666666555


Q ss_pred             ccCchhhHHHHHHH----HHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-------CCcc------hHHHHHH
Q 039695          242 SLGRLVSGKVAHGV----VVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN-------PSVV------TYTSMIV  304 (605)
Q Consensus       242 ~~~~~~~a~~~~~~----~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-------~~~~------~~~~li~  304 (605)
                      ...-+.. ...+..    +...+-++.+.+.|.+...+...|+++.|...|.....       +|..      +--.+..
T Consensus       426 ~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlar  504 (1018)
T KOG2002|consen  426 QTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLAR  504 (1018)
T ss_pred             hcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHH
Confidence            4433332 444443    33456567788889999999999999999998887652       2221      1122344


Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCH
Q 039695          305 GAAKYGLGRFSLDLFNEMISRGIKPNDV-TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRL  383 (605)
Q Consensus       305 ~~~~~g~~~~A~~l~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~  383 (605)
                      .+-..++.+.|.+.|......  .|+-+ .|..++......+...+|...+.......  ..++..++-+.+.+.+...+
T Consensus       505 l~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d--~~np~arsl~G~~~l~k~~~  580 (1018)
T KOG2002|consen  505 LLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID--SSNPNARSLLGNLHLKKSEW  580 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc--cCCcHHHHHHHHHHHhhhhh
Confidence            455567788888888888774  44433 23333322223466777777777765432  33344555566677777777


Q ss_pred             HHHHHHHH----hCCCCCCchhhHHHHHHHHHHH------------cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039695          384 DEAYKLAK----SIQVDPDGGPLLWGTLLSASRL------------HGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL  447 (605)
Q Consensus       384 ~~A~~~~~----~m~~~p~~~~~~~~~ll~~~~~------------~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  447 (605)
                      .-|.+-|.    +....+|  +.+.-+|.+.|.+            .+..+.|+++|.++++.+|.|..+-+.++-+++.
T Consensus       581 ~~a~k~f~~i~~~~~~~~D--~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~  658 (1018)
T KOG2002|consen  581 KPAKKKFETILKKTSTKTD--AYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAE  658 (1018)
T ss_pred             cccccHHHHHHhhhccCCc--hhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhh
Confidence            66666333    3333345  5666666665532            2345678888888888888887777778888888


Q ss_pred             cCChhHHHHHHHHHHhCCC
Q 039695          448 AGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       448 ~g~~~~a~~~~~~m~~~~~  466 (605)
                      .|++.+|..+|.++++...
T Consensus       659 kg~~~~A~dIFsqVrEa~~  677 (1018)
T KOG2002|consen  659 KGRFSEARDIFSQVREATS  677 (1018)
T ss_pred             ccCchHHHHHHHHHHHHHh
Confidence            8888888888888887654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.52  E-value=5.6e-10  Score=105.83  Aligned_cols=405  Identities=11%  Similarity=0.092  Sum_probs=280.0

Q ss_pred             hChhHHHHHHHHHHHhCCCCchHHHHHHHHHH--HcCCChhHH-HHHHhcCC---CCChhhHHHHHHHHHhcCChhHHHH
Q 039695           41 KHLISLASVHSEILKSGFLSNTFTLNHLINCY--VRLKKTQVA-RQLFDEML---EPNVVSYTSLMAGYINMGQPQIALL  114 (605)
Q Consensus        41 ~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~--~~~g~~~~A-~~~f~~m~---~~~~~~~~~li~~~~~~g~~~~a~~  114 (605)
                      +...+.--+++.|...|...+..+--.|+..-  -...++.-| ++.|-.|.   +.+..+|-        .|...+  -
T Consensus       129 ~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK--------~G~vAd--L  198 (625)
T KOG4422|consen  129 REVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWK--------SGAVAD--L  198 (625)
T ss_pred             cccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccc--------cccHHH--H
Confidence            33444467788888888877777666665432  233333333 34455553   34555653        344333  2


Q ss_pred             HHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcC----
Q 039695          115 LFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMG----  190 (605)
Q Consensus       115 ~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~----  190 (605)
                      +|+.     .+-+..||.++|.+.++-...+.|.+++.+......+.+..++|.+|.+-+-.-+    .++..+|.    
T Consensus       199 ~~E~-----~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm  269 (625)
T KOG4422|consen  199 LFET-----LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKM  269 (625)
T ss_pred             HHhh-----cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhc
Confidence            3332     2236789999999999999999999999999888778999999999976554433    44555553    


Q ss_pred             CCChhhHHHHHHHHHHcCChhH----HHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhh-HHHHHHHHHH----hCC
Q 039695          191 CRNVVSWTSIIVAHAQNAQGHE----ALEMFREFNYQSRDRPNQHMLASVINACASLGRLVS-GKVAHGVVVR----SGC  261 (605)
Q Consensus       191 ~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~-a~~~~~~~~~----~g~  261 (605)
                      .||..|+|+++++..+.|+++.    |++++.+|++.| +.|...+|-.+|.-+.+.++... +..+...+..    ..+
T Consensus       270 ~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiG-VePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~f  348 (625)
T KOG4422|consen  270 TPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIG-VEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTF  348 (625)
T ss_pred             CCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhC-CCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcc
Confidence            5999999999999999998764    578889999999 99999999999998888877644 3344444433    112


Q ss_pred             ----CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--------CC---cchHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 039695          262 ----EFNDVVASALVDMYAKCGSVNYSDKVFNRISN--------PS---VVTYTSMIVGAAKYGLGRFSLDLFNEMISRG  326 (605)
Q Consensus       262 ----~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--------~~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g  326 (605)
                          +.|...+..-++.+....+.+-|.++-.-...        ++   ..-|..+....++....+.-+..|+.|+-.-
T Consensus       349 kp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~  428 (625)
T KOG4422|consen  349 KPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSA  428 (625)
T ss_pred             cCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccce
Confidence                33556677778888899999999888665542        22   2346677888889999999999999999888


Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcC-C--------HHH-----HHHHHHh
Q 039695          327 IKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTG-R--------LDE-----AYKLAKS  392 (605)
Q Consensus       327 ~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g-~--------~~~-----A~~~~~~  392 (605)
                      +-|+..+...+++|....+.++-..+++..+ ..+|..-+...-.-+...+++.. .        +..     |..+++.
T Consensus       429 y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~-~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~  507 (625)
T KOG4422|consen  429 YFPHSQTMIHLLRALDVANRLEVIPRIWKDS-KEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEA  507 (625)
T ss_pred             ecCCchhHHHHHHHHhhcCcchhHHHHHHHH-HHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999999988888888 55665444444444444444443 1        111     1122211


Q ss_pred             CC------CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC---CCCCc--hHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          393 IQ------VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN---QQVAN--AYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       393 m~------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---p~~~~--~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      ..      ...+..+...+..+..+.+.|..++|.+++..+....   |..+.  +..-+.+.-.+......|..+++.|
T Consensus       508 ~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  508 YESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            11      0112225567777777889999999999998887543   44332  2334555556677788888888888


Q ss_pred             HhCCC
Q 039695          462 KRTGI  466 (605)
Q Consensus       462 ~~~~~  466 (605)
                      ...+.
T Consensus       588 ~~~n~  592 (625)
T KOG4422|consen  588 SAFNL  592 (625)
T ss_pred             HHcCc
Confidence            76655

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.50  E-value=2.7e-11  Score=123.13  Aligned_cols=285  Identities=12%  Similarity=0.025  Sum_probs=173.4

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHH--HHHHHHHHhCCCHHHHH
Q 039695          106 MGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVC--SSLVDMYGKCNDVDGAR  183 (605)
Q Consensus       106 ~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~--~~Li~~y~~~g~~~~A~  183 (605)
                      .|++++|.+.+....+.+-.| ...|.....+....|+.+.+.+.+..+.+.  .|+....  ......+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            477777776666544432111 122333334446677777777777777654  3443322  23356777777777777


Q ss_pred             HHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhC
Q 039695          184 RVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSG  260 (605)
Q Consensus       184 ~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  260 (605)
                      ..++++.+   .+......+...|.+.|++++|++++..+.+.+ ..+ ......+-                       
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~-~~~-~~~~~~l~-----------------------  228 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAH-VGD-EEHRAMLE-----------------------  228 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcC-CCC-HHHHHHHH-----------------------
Confidence            77777654   345566677777777788888887777777665 221 11111000                       


Q ss_pred             CCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHH
Q 039695          261 CEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGV  337 (605)
Q Consensus       261 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~l  337 (605)
                          ..++..++....+..+.+...++++.+++   .++.....+...+...|+.++|.+++++..+.  +||....  +
T Consensus       229 ----~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~  300 (398)
T PRK10747        229 ----QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--L  300 (398)
T ss_pred             ----HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--H
Confidence                00111222222223334445555555542   45556667777777778888888888777663  4444221  2


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcC
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHG  415 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g  415 (605)
                      +.+....++.+++.+..+...++   .|+ ...+.++...+.+.|++++|.+.|+.. ...|+  ...+..|...+...|
T Consensus       301 l~~~l~~~~~~~al~~~e~~lk~---~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~--~~~~~~La~~~~~~g  375 (398)
T PRK10747        301 LIPRLKTNNPEQLEKVLRQQIKQ---HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD--AYDYAWLADALDRLH  375 (398)
T ss_pred             HHhhccCCChHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--HHHHHHHHHHHHHcC
Confidence            33444557788888887777543   343 666777888888888888888888774 35577  777777888888888


Q ss_pred             ChHHHHHHHHHHHhcC
Q 039695          416 RVDIAVEASNQLIESN  431 (605)
Q Consensus       416 ~~~~a~~~~~~~~~~~  431 (605)
                      +.++|.+.+++.+.+-
T Consensus       376 ~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        376 KPEEAAAMRRDGLMLT  391 (398)
T ss_pred             CHHHHHHHHHHHHhhh
Confidence            8888888888877643

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.50  E-value=4e-11  Score=114.04  Aligned_cols=269  Identities=11%  Similarity=0.082  Sum_probs=186.7

Q ss_pred             HHhCCCHHHHHHHHhhcCCCChhhHHH----HH-HHHHH-cCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCch
Q 039695          173 YGKCNDVDGARRVFDLMGCRNVVSWTS----II-VAHAQ-NAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRL  246 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~~~~~~~~~----li-~~~~~-~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~  246 (605)
                      |.+.|+++.|.+++.-....|..+-++    |- --|.+ ..++..|.+.-+......  +-|....+.--+.....|++
T Consensus       429 ~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d--ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  429 LLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID--RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc--ccCHHHhhcCCceeeecCcH
Confidence            456666666666665554433322211    11 11222 223444444443333221  22333333333344557888


Q ss_pred             hhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC---CCCcchHHHHHHHHHHcCChhHHHHHHHHHH
Q 039695          247 VSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS---NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMI  323 (605)
Q Consensus       247 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~  323 (605)
                      +.|...+.+.+...-.-....|| +.-.+-+.|++++|...|-++.   ..++...-.+.+.|-...++.+|++++.+..
T Consensus       507 dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~  585 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQAN  585 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc
Confidence            88888888888765433334444 3334667889999999887764   3566666677788888889999999987766


Q ss_pred             HcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchh
Q 039695          324 SRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGP  401 (605)
Q Consensus       324 ~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~  401 (605)
                      .. ++.|+.....|...|-+.|+-.+|.+.+-.   .+..-| +.++..-|..-|....-+++|+..|++.. ..|+  .
T Consensus       586 sl-ip~dp~ilskl~dlydqegdksqafq~~yd---syryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~--~  659 (840)
T KOG2003|consen  586 SL-IPNDPAILSKLADLYDQEGDKSQAFQCHYD---SYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPN--Q  659 (840)
T ss_pred             cc-CCCCHHHHHHHHHHhhcccchhhhhhhhhh---cccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCcc--H
Confidence            54 555677888888999999999999887763   345545 58888888888899999999999998854 6788  8


Q ss_pred             hHHHHHHHHH-HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          402 LLWGTLLSAS-RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       402 ~~~~~ll~~~-~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      .-|..++..| ++.|++..|..+++......|.+......|+.++...|.
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            8999887665 678999999999999999999999999999998887774

>KOG0495 consensus HAT repeat protein [RNA processing and modification]

Probab=99.49  E-value=2.6e-09  Score=106.56  Aligned_cols=422  Identities=11%  Similarity=0.089  Sum_probs=328.3

Q ss_pred             hccchHHHHHHHHH----hhhCCCCCChhhHHHHHHHhhChhHH---HHHHHHHHHhCCCCc--hHHHHHHHHHHHcCCC
Q 039695            7 RNLIFTLAASSLTR----QNKRSSCHTKAHFIQQLQECKHLISL---ASVHSEILKSGFLSN--TFTLNHLINCYVRLKK   77 (605)
Q Consensus         7 ~~~~~~~a~~~l~~----m~~~g~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~   77 (605)
                      ++|+.+-..+++.+    ++..|+..+...+..--.+|-..+..   +.+....+..|+...  ..+|+.-.+.|.+.+.
T Consensus       452 ~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~  531 (913)
T KOG0495|consen  452 ANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPA  531 (913)
T ss_pred             hcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcch
Confidence            45666666665554    55667888888888777778777665   777777777776533  3578888899999999


Q ss_pred             hhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHH
Q 039695           78 TQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHI  154 (605)
Q Consensus        78 ~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~  154 (605)
                      ++-|+.+|....+   .+...|......=-..|..++-..+|++....- +-....|....+-.-..|+...|+.++..+
T Consensus       532 ~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~a  610 (913)
T KOG0495|consen  532 IECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQA  610 (913)
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            9999999987744   356678877777677899999999999998863 224445555556667789999999999999


Q ss_pred             HHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCCh-h
Q 039695          155 ETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQ-H  231 (605)
Q Consensus       155 ~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~-~  231 (605)
                      .+.. +.+..+|-+-+..-..+..++.|+.+|.+...  +....|.--+..---.+..++|++++++..+.   -|+- .
T Consensus       611 f~~~-pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~---fp~f~K  686 (913)
T KOG0495|consen  611 FEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALKS---FPDFHK  686 (913)
T ss_pred             HHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh---CCchHH
Confidence            9876 44778999999999999999999999998765  66677776666666788999999999988874   3554 4


Q ss_pred             HHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHH
Q 039695          232 MLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAK  308 (605)
Q Consensus       232 t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  308 (605)
                      .|..+-..+-+.++++.|...|..=.+. ++..+..|-.|...--+.|++-.|+.+|++..-   .|...|-..|..-.+
T Consensus       687 l~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR  765 (913)
T KOG0495|consen  687 LWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELR  765 (913)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHH
Confidence            5556666777778888887776544432 456677899999999999999999999998763   466889999999999


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHH
Q 039695          309 YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYK  388 (605)
Q Consensus       309 ~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  388 (605)
                      .|+.++|..+..+..+. .+-+...|..-|-...+.++-......+    +  ...-|+.+.-.+..++-...+++.|.+
T Consensus       766 ~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DAL----k--kce~dphVllaia~lfw~e~k~~kar~  838 (913)
T KOG0495|consen  766 AGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDAL----K--KCEHDPHVLLAIAKLFWSEKKIEKARE  838 (913)
T ss_pred             cCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHH----H--hccCCchhHHHHHHHHHHHHHHHHHHH
Confidence            99999999999888875 5556677777777666666644443333    3  235566777778888999999999999


Q ss_pred             HHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHH
Q 039695          389 LAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLS  442 (605)
Q Consensus       389 ~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  442 (605)
                      .|.+.. ..|+ +..+|.-+...+.++|.-+.-.+++.+....+|.....|....
T Consensus       839 Wf~Ravk~d~d-~GD~wa~fykfel~hG~eed~kev~~~c~~~EP~hG~~W~avS  892 (913)
T KOG0495|consen  839 WFERAVKKDPD-NGDAWAWFYKFELRHGTEEDQKEVLKKCETAEPTHGELWQAVS  892 (913)
T ss_pred             HHHHHHccCCc-cchHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCcHHHHHh
Confidence            998854 4554 3668999999999999999999999999999999877776553

>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B

Probab=99.48  E-value=2.8e-13  Score=131.43  Aligned_cols=254  Identities=11%  Similarity=0.057  Sum_probs=83.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHH-HHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCC
Q 039695          100 MAGYINMGQPQIALLLFQKMLGNLVWPNEFTFAT-VIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCND  178 (605)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~-ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  178 (605)
                      -..+.+.|++++|++++++-.....+|+...|-. +...+...++.+.|.+.++.+...+ +.++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccccc
Confidence            3444555666666666644333322233333322 2333444566666666666666554 2244455555555 56666


Q ss_pred             HHHHHHHHhhcCC--CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHH
Q 039695          179 VDGARRVFDLMGC--RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVV  256 (605)
Q Consensus       179 ~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~  256 (605)
                      +++|.++++..-+  ++...+..++..+.+.++++++.+++.........+++...|......+.+.|+.++|...+...
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~a  172 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKA  172 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6666666654422  44555666666666667777777766665543323445555666666666666666666666666


Q ss_pred             HHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC---CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 039695          257 VRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS---NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVT  333 (605)
Q Consensus       257 ~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  333 (605)
                      ++.. |.|..+.+.++.++...|+.+++.+++....   ..|...|..+..+|...|++++|+..|++.... .+.|..+
T Consensus       173 l~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-~p~d~~~  250 (280)
T PF13429_consen  173 LELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-NPDDPLW  250 (280)
T ss_dssp             HHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-STT-HHH
T ss_pred             HHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccc-ccccccc
Confidence            6654 3355666667777777777766555555443   245566777777777777777777777776664 2335666


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHH
Q 039695          334 FVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       334 ~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      ...+..++...|+.++|.++..++
T Consensus       251 ~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  251 LLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHT---------------
T ss_pred             cccccccccccccccccccccccc
Confidence            667777777777777777776655

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.48  E-value=4.3e-11  Score=121.61  Aligned_cols=276  Identities=12%  Similarity=0.040  Sum_probs=191.8

Q ss_pred             CCCHHHHHHHHhhcCCC--ChhhHHHH-HHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHH--hHHHhhcccCchhhHH
Q 039695          176 CNDVDGARRVFDLMGCR--NVVSWTSI-IVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLA--SVINACASLGRLVSGK  250 (605)
Q Consensus       176 ~g~~~~A~~~~~~m~~~--~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~--~ll~a~~~~~~~~~a~  250 (605)
                      .|+++.|++.+...+..  ++..+..+ .....+.|+++.|.+.|.++.+   ..|+.....  .....+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~---~~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAE---LADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            57777777666655442  12222222 3333667777777777777754   234443332  2244556677777777


Q ss_pred             HHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcc-----------hHHHHHHHHHHcCChhHHHHHH
Q 039695          251 VAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVV-----------TYTSMIVGAAKYGLGRFSLDLF  319 (605)
Q Consensus       251 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~-----------~~~~li~~~~~~g~~~~A~~l~  319 (605)
                      ..++.+.+.. |.++.+...+...|.+.|++++|.+++..+.+....           +|..++.......+.+...+++
T Consensus       174 ~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        174 HGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            7777776665 556677777788888888888888777777642221           2333344444455566666777


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC
Q 039695          320 NEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPD  398 (605)
Q Consensus       320 ~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~  398 (605)
                      +.+... .+.+......+..++...|+.++|.+.+++..+   ..|+....  ++......++.+++++.+++.. ..|+
T Consensus       253 ~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~  326 (398)
T PRK10747        253 KNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGD  326 (398)
T ss_pred             HhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCC
Confidence            766443 345777888899999999999999999998864   35554322  2223335599999999998754 4454


Q ss_pred             chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          399 GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       399 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                       ++..+.++...|...++++.|.+.|+++++..|++ ..|..|..++.+.|+.++|.+++++-..
T Consensus       327 -~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        327 -TPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             -CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence             47788899999999999999999999999999986 5678999999999999999999986643

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.46  E-value=1.7e-11  Score=122.71  Aligned_cols=276  Identities=16%  Similarity=0.107  Sum_probs=183.1

Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC------CChhhHHHHHHHHHHcCChhHHHHH
Q 039695          143 DLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC------RNVVSWTSIIVAHAQNAQGHEALEM  216 (605)
Q Consensus       143 ~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~------~~~~~~~~li~~~~~~g~~~~A~~~  216 (605)
                      +..+|...|+.+... ..-...+...+..+|...+++++|+++|+.+..      .+...|.+.+-.+-+    +-++..
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~  408 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSY  408 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHH
Confidence            345666666664333 233335666677777777777777777777654      355666666554332    122222


Q ss_pred             HH-HHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCC-
Q 039695          217 FR-EFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP-  294 (605)
Q Consensus       217 ~~-~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-  294 (605)
                      +. ++....                                     +..+.+|-++.+.|.-.++.+.|.+.|++..+- 
T Consensus       409 Laq~Li~~~-------------------------------------~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld  451 (638)
T KOG1126|consen  409 LAQDLIDTD-------------------------------------PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD  451 (638)
T ss_pred             HHHHHHhhC-------------------------------------CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC
Confidence            22 222221                                     223445555555566666666666666665532 


Q ss_pred             --CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHH
Q 039695          295 --SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND-VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHY  370 (605)
Q Consensus       295 --~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~  370 (605)
                        ...+|+.+..-+.....+|.|...|+..+.  +.|.. ..|..+...|.+.++++.|+-.|+.+.   .+.|. .+..
T Consensus       452 p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~  526 (638)
T KOG1126|consen  452 PRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVIL  526 (638)
T ss_pred             CccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCchhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHH
Confidence              345666666666667777777777776654  33322 345566777888888888888888765   67776 6667


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 039695          371 TCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAG  449 (605)
Q Consensus       371 ~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  449 (605)
                      .++...+-+.|+.|+|++++++.. ..|. ++..----+..+...+++++|.+.++++.++-|++..+|..++.+|-+.|
T Consensus       527 ~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~  605 (638)
T KOG1126|consen  527 CHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLG  605 (638)
T ss_pred             hhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHc
Confidence            777888889999999999998853 3332 14443344555667889999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHhCCC
Q 039695          450 EWENVHSLRSEMKRTGI  466 (605)
Q Consensus       450 ~~~~a~~~~~~m~~~~~  466 (605)
                      +.+.|..-|.-+.+.+.
T Consensus       606 ~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  606 NTDLALLHFSWALDLDP  622 (638)
T ss_pred             cchHHHHhhHHHhcCCC
Confidence            99999988877766544

>KOG2003 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.46  E-value=4.3e-11  Score=113.82  Aligned_cols=409  Identities=12%  Similarity=0.129  Sum_probs=267.3

Q ss_pred             HHHHHHHHhCCCCchHHHH-HHHHHHHcCCChhHHHHHHhcCCC--CC------hhhHHHHHHHHHhcCChhHHHHHHHH
Q 039695           48 SVHSEILKSGFLSNTFTLN-HLINCYVRLKKTQVARQLFDEMLE--PN------VVSYTSLMAGYINMGQPQIALLLFQK  118 (605)
Q Consensus        48 ~~~~~~~~~g~~~~~~~~~-~li~~~~~~g~~~~A~~~f~~m~~--~~------~~~~~~li~~~~~~g~~~~a~~~~~~  118 (605)
                      ..++.+++...-|+.-... .+-+.|.+...+..|++.++....  |+      +...|.+--.|.+.|.++.|+..|+.
T Consensus       222 ntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~dainsfdh  301 (840)
T KOG2003|consen  222 NTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDDAINSFDH  301 (840)
T ss_pred             hhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchhhHhhHHH
Confidence            3445555665556554322 233556777888899888764421  22      23455556678899999999999999


Q ss_pred             HHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchh--------HHHHHHHHHHhCCC-----------H
Q 039695          119 MLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLV--------VCSSLVDMYGKCND-----------V  179 (605)
Q Consensus       119 m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~--------~~~~Li~~y~~~g~-----------~  179 (605)
                      ..+.  .||-.+-..|+-++...|+-++.++.|..++.....+|..        .-..|++--.+...           .
T Consensus       302 ~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~lk~~ek~~ka~a  379 (840)
T KOG2003|consen  302 CMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDHLKNMEKENKADA  379 (840)
T ss_pred             HHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHHHHHHHHhhhhhH
Confidence            8774  5787765556666667899999999999998753322221        11222222222211           1


Q ss_pred             HHHH----HHHhhcCCCChh---hHH------------------HHHHHHHHcCChhHHHHHHHHHHHcCCCCCChh--H
Q 039695          180 DGAR----RVFDLMGCRNVV---SWT------------------SIIVAHAQNAQGHEALEMFREFNYQSRDRPNQH--M  232 (605)
Q Consensus       180 ~~A~----~~~~~m~~~~~~---~~~------------------~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~--t  232 (605)
                      +++.    ++..-+..||-.   -|-                  .-...|.++|+++.|++++.-..+.. .+.-..  +
T Consensus       380 ek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~kd-nk~~saaa~  458 (840)
T KOG2003|consen  380 EKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEKKD-NKTASAAAN  458 (840)
T ss_pred             HHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHhcc-chhhHHHhh
Confidence            1111    111111122211   010                  01234789999999999998876554 222111  1


Q ss_pred             HHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHH---HHHHc
Q 039695          233 LASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIV---GAAKY  309 (605)
Q Consensus       233 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~---~~~~~  309 (605)
                      -..++.-+....++..|.++-+..+... .-+....+.-.+.-...|++++|.+.+++....|...-.+|..   .+-..
T Consensus       459 nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfniglt~e~~  537 (840)
T KOG2003|consen  459 NLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNIGLTAEAL  537 (840)
T ss_pred             hhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHh
Confidence            1222222223346677777766665432 2233333333344456899999999999999877766555543   46778


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHH
Q 039695          310 GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYK  388 (605)
Q Consensus       310 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~  388 (605)
                      |+.++|++.|-++... +.-+......+.+.|....+..+|++++.+..   .+.|+ +.+..-|.+.|-+.|+-..|.+
T Consensus       538 ~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~---slip~dp~ilskl~dlydqegdksqafq  613 (840)
T KOG2003|consen  538 GNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQAN---SLIPNDPAILSKLADLYDQEGDKSQAFQ  613 (840)
T ss_pred             cCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhc---ccCCCCHHHHHHHHHHhhcccchhhhhh
Confidence            9999999999887653 34466777788888988999999999988764   55664 8999999999999999999988


Q ss_pred             HH-HhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          389 LA-KSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       389 ~~-~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .. +...--|. +..+..-|..-|....=.+.++..|+++.-+.|+....-..+..++.+.|+++.|..+++.+..+-
T Consensus       614 ~~ydsyryfp~-nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkf  690 (840)
T KOG2003|consen  614 CHYDSYRYFPC-NIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKF  690 (840)
T ss_pred             hhhhcccccCc-chHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence            74 33332222 255555566777777778999999999998899876555566677889999999999999886653

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.46  E-value=3.9e-10  Score=108.04  Aligned_cols=193  Identities=10%  Similarity=0.093  Sum_probs=157.8

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCCCC---cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISNPS---VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHAC  341 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  341 (605)
                      +.|...+.+.|+-.++.++|...|++..+-|   ...|+.|..-|....+...|++-++..++- .+-|-..|-.|..+|
T Consensus       330 ~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi-~p~DyRAWYGLGQaY  408 (559)
T KOG1155|consen  330 PETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDI-NPRDYRAWYGLGQAY  408 (559)
T ss_pred             ccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhc-CchhHHHHhhhhHHH
Confidence            3456667777888888888888888887533   467999999999999999999999999885 334788999999999


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHH
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIA  420 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a  420 (605)
                      .-.+.+.-|+-+|++..   .+.|+ ...|.+|.+.|.+.+++++|++-|.....-.|.+...+..|...+.+.++.++|
T Consensus       409 eim~Mh~YaLyYfqkA~---~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eA  485 (559)
T KOG1155|consen  409 EIMKMHFYALYYFQKAL---ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEA  485 (559)
T ss_pred             HHhcchHHHHHHHHHHH---hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHH
Confidence            99999999999999774   56775 899999999999999999999999886533342357899999999999999999


Q ss_pred             HHHHHHHHh-------cCCCCCchHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          421 VEASNQLIE-------SNQQVANAYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       421 ~~~~~~~~~-------~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      .+.+++-++       .+|....+-..|..-+-+.+++++|...-...
T Consensus       486 a~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  486 AQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             HHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            999998886       23444445667888889999999998876544

>TIGR00540 hemY_coli hemY protein

Probab=99.46  E-value=2.6e-10  Score=116.56  Aligned_cols=290  Identities=10%  Similarity=-0.006  Sum_probs=153.9

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChh-hHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHH
Q 039695          105 NMGQPQIALLLFQKMLGNLVWPNEF-TFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGAR  183 (605)
Q Consensus       105 ~~g~~~~a~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~  183 (605)
                      ..|+++.|.+.+.+..+.  .|+.. .+-....+....|+.+.+.+.+..+.+....+...+.-.....+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            357777777777665553  23322 223334455566777777777766655432222223334456666667777777


Q ss_pred             HHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhC
Q 039695          184 RVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSG  260 (605)
Q Consensus       184 ~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  260 (605)
                      ..++.+.+   .+...+..+...|.+.|++++|.+++....+.+ +. +...+..+-.                      
T Consensus       174 ~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~-~~-~~~~~~~l~~----------------------  229 (409)
T TIGR00540       174 HGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAG-LF-DDEEFADLEQ----------------------  229 (409)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC-CC-CHHHHHHHHH----------------------
Confidence            66666644   244455566666666666666666666666554 21 2211111000                      


Q ss_pred             CCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHH---
Q 039695          261 CEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTF---  334 (605)
Q Consensus       261 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~---  334 (605)
                           ..+..+++.-......+...+.++..++   .+...+..+...+...|+.++|.+++++..+.  .||....   
T Consensus       230 -----~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~  302 (409)
T TIGR00540       230 -----KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLP  302 (409)
T ss_pred             -----HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhH
Confidence                 0011111111111223333444444442   35666777777777777777887877777764  3333210   


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHh---CCCCCCchhhHHHHHHHHH
Q 039695          335 VGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKS---IQVDPDGGPLLWGTLLSAS  411 (605)
Q Consensus       335 ~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~---m~~~p~~~~~~~~~ll~~~  411 (605)
                      ..........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.   ....|+  ...+..+...+
T Consensus       303 ~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~--~~~~~~La~ll  380 (409)
T TIGR00540       303 LCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLD--ANDLAMAADAF  380 (409)
T ss_pred             HHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCC--HHHHHHHHHHH
Confidence            1111122234566666666666543322222224455666666777777777777762   234555  55566666667


Q ss_pred             HHcCChHHHHHHHHHHHh
Q 039695          412 RLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~  429 (605)
                      .+.|+.++|.+++++.+.
T Consensus       381 ~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       381 DQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            777777777777666554

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.

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.45  E-value=3.6e-10  Score=108.96  Aligned_cols=385  Identities=16%  Similarity=0.137  Sum_probs=239.7

Q ss_pred             HHHHHcCCChhHHHHHHhcC--CCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh-hHHHHHHHHhccCCh
Q 039695           69 INCYVRLKKTQVARQLFDEM--LEPN-VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEF-TFATVIKACSMLADL  144 (605)
Q Consensus        69 i~~~~~~g~~~~A~~~f~~m--~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~~~~  144 (605)
                      -+-|-+.|.+++|++.+.+.  ..|| ++-|...-.+|...|+++++.+--.+.++  +.|+-. .+..-.+++-..|++
T Consensus       122 GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALE--l~P~Y~KAl~RRA~A~E~lg~~  199 (606)
T KOG0547|consen  122 GNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALE--LNPDYVKALLRRASAHEQLGKF  199 (606)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhh--cCcHHHHHHHHHHHHHHhhccH
Confidence            34566778888888888877  3466 77788888888888888888777666665  345432 444444566666776


Q ss_pred             HHHHHHHHHHH-HhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHH----------------------
Q 039695          145 ITGKQIHTHIE-TFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWT----------------------  198 (605)
Q Consensus       145 ~~a~~~~~~~~-~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~----------------------  198 (605)
                      .++..=..-.- -.|+.... + ..+++--.+.--...+.+-+.+-..   |+....+                      
T Consensus       200 ~eal~D~tv~ci~~~F~n~s-~-~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksD  277 (606)
T KOG0547|consen  200 DEALFDVTVLCILEGFQNAS-I-EPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSD  277 (606)
T ss_pred             HHHHHhhhHHHHhhhcccch-h-HHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccch
Confidence            66553221111 11111110 0 0011100011111222222221111   1111111                      


Q ss_pred             -HHHHHHHH--cC---ChhHHHHHHHHHHHcCCCCCChh---------HHHhHHHh--hcccCchhhHHHHHHHHHHhCC
Q 039695          199 -SIIVAHAQ--NA---QGHEALEMFREFNYQSRDRPNQH---------MLASVINA--CASLGRLVSGKVAHGVVVRSGC  261 (605)
Q Consensus       199 -~li~~~~~--~g---~~~~A~~~~~~m~~~~~~~p~~~---------t~~~ll~a--~~~~~~~~~a~~~~~~~~~~g~  261 (605)
                       .+..++-.  .+   .+.+|...+.+-.......++..         .-..++.+  ..-.|+.-.+.+-++.+++...
T Consensus       278 a~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~~  357 (606)
T KOG0547|consen  278 AALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLDP  357 (606)
T ss_pred             hhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcCc
Confidence             11111100  11   23333333322211110111111         11111111  2234677788888888887653


Q ss_pred             CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHH
Q 039695          262 EFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGV  337 (605)
Q Consensus       262 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~l  337 (605)
                      . +...|--+..+|....+.++..+.|++..+   .|..+|..-.+.+.-.+++++|..=|++.+.  +.| +...|..+
T Consensus       358 ~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~--L~pe~~~~~iQl  434 (606)
T KOG0547|consen  358 A-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAIS--LDPENAYAYIQL  434 (606)
T ss_pred             c-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhh--cChhhhHHHHHH
Confidence            3 333466777889999999999999998874   4556777777777778899999999999887  445 45667777


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCc-------hhhHHHHHHH
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDG-------GPLLWGTLLS  409 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~-------~~~~~~~ll~  409 (605)
                      -.+..+.+.+++++..|++..+++  +.-+++|+-....+...++++.|.+.|+.. ...|..       .+.+-.+++-
T Consensus       435 ~~a~Yr~~k~~~~m~~Fee~kkkF--P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~  512 (606)
T KOG0547|consen  435 CCALYRQHKIAESMKTFEEAKKKF--PNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLV  512 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhC--CCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhh
Confidence            777778899999999999997653  334889999999999999999999999873 333320       1333334443


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .- -.+++..|+.++.++++++|....+|..|+.+-.+.|+.++|.++|++-..
T Consensus       513 ~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  513 LQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             hc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            33 338999999999999999999999999999999999999999999987643

>TIGR00540 hemY_coli hemY protein

Probab=99.45  E-value=1.3e-10  Score=118.86  Aligned_cols=280  Identities=10%  Similarity=0.044  Sum_probs=187.6

Q ss_pred             cCCChhHHHHHHhcCCC--CCh-hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh--hHHHHHHHHhccCChHHHH
Q 039695           74 RLKKTQVARQLFDEMLE--PNV-VSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEF--TFATVIKACSMLADLITGK  148 (605)
Q Consensus        74 ~~g~~~~A~~~f~~m~~--~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~--t~~~ll~a~~~~~~~~~a~  148 (605)
                      ..|+++.|.+.+.+..+  |+. ..+-.......+.|+++.|.+.|.+..+..  |+..  .-......+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHH
Confidence            57999999999988744  433 233344566777899999999999987643  4543  3333467778899999999


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCC---ChhhHHHHH----HHHHHcCChhHHHHHHHHHH
Q 039695          149 QIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCR---NVVSWTSII----VAHAQNAQGHEALEMFREFN  221 (605)
Q Consensus       149 ~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li----~~~~~~g~~~~A~~~~~~m~  221 (605)
                      ..++.+.+.. +.+..+...+..+|.+.|++++|.+.++.+.+.   +...+..+-    .+....+..+++.+.+..+.
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999999986 557788899999999999999999999988753   222222111    11122222222222222222


Q ss_pred             HcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCcch-
Q 039695          222 YQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PSVVT-  298 (605)
Q Consensus       222 ~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~-  298 (605)
                      ...   |                             + ..+.++..+..+...+...|+.++|.+++++..+  ||... 
T Consensus       253 ~~~---p-----------------------------~-~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~  299 (409)
T TIGR00540       253 KNQ---P-----------------------------R-HRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAI  299 (409)
T ss_pred             HHC---C-----------------------------H-HHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccc
Confidence            211   1                             0 0123556666677777777777777777777654  33321 


Q ss_pred             --HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH---HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHH
Q 039695          299 --YTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND---VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCV  373 (605)
Q Consensus       299 --~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~---~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l  373 (605)
                        +..........++.+.+.+.+++..+.  .|+.   ....++...|.+.|++++|.+.|+.. ......|+...+..+
T Consensus       300 ~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a-~a~~~~p~~~~~~~L  376 (409)
T TIGR00540       300 SLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNV-AACKEQLDANDLAMA  376 (409)
T ss_pred             hhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHh-HHhhcCCCHHHHHHH
Confidence              122222233356777888888777763  4443   44557777888899999999999853 233567888888899


Q ss_pred             HHHHhhcCCHHHHHHHHHh
Q 039695          374 VDMLGRTGRLDEAYKLAKS  392 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~  392 (605)
                      ...+.+.|+.++|.+++++
T Consensus       377 a~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       377 ADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             HHHHHHcCCHHHHHHHHHH
Confidence            9999999999999998876

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=99.44  E-value=8.7e-10  Score=114.12  Aligned_cols=315  Identities=12%  Similarity=0.082  Sum_probs=220.1

Q ss_pred             cCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChhhHHHHHHHHhccCChHHHHH
Q 039695           74 RLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWP-NEFTFATVIKACSMLADLITGKQ  149 (605)
Q Consensus        74 ~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~~~~~~a~~  149 (605)
                      ..|+.++|.+++.++.+   .+..+|.+|-..|-+.|+.++++..+-..-.  +.| |..-|..+-......|.++.|.-
T Consensus       151 arg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAH--L~p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  151 ARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAH--LNPKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             HhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHh--cCCCChHHHHHHHHHHHhcccHHHHHH
Confidence            34999999999998843   4678899999999999999998877644433  333 56678888888888999999999


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCCh-hh-------HHHHHHHHHHcCChhHHHHHHHHHH
Q 039695          150 IHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNV-VS-------WTSIIVAHAQNAQGHEALEMFREFN  221 (605)
Q Consensus       150 ~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~-~~-------~~~li~~~~~~g~~~~A~~~~~~m~  221 (605)
                      .+.++++.. +++....---..+|-+.|+...|.+-|.++-..++ +.       --.++..|...++-+.|++.+....
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            999999886 56666666677889999999999888888755222 11       1123555666777788888888776


Q ss_pred             HcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHh---------------------------CCCCcHhH-HHHHHH
Q 039695          222 YQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRS---------------------------GCEFNDVV-ASALVD  273 (605)
Q Consensus       222 ~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~---------------------------g~~~~~~~-~~~li~  273 (605)
                      ..+.-..+...++.++..+.+...++.+..........                           +.+++..+ ...+--
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            64434556666777777777777777777665555441                           22333333 222222


Q ss_pred             HHHhcCCHHHHHHHHhccC----CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHH
Q 039695          274 MYAKCGSVNYSDKVFNRIS----NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDE  349 (605)
Q Consensus       274 ~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~  349 (605)
                      ...+.+...++..-|-...    ..++..|.-+..+|.+.|++.+|+.+|..+...-..-+...|..+..++...|..++
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            2233444444444433222    134456777778888888888888888888875444456677788888888888888


Q ss_pred             HHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 039695          350 GIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ  394 (605)
Q Consensus       350 a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~  394 (605)
                      |.+.|+..+   ...|+ ...--.|...|-+.|+.++|.+.+..+.
T Consensus       468 A~e~y~kvl---~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  468 AIEFYEKVL---ILAPDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHHHHHHH---hcCCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            888888776   44565 5666677778888888888888888764

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.39  E-value=1.7e-08  Score=97.13  Aligned_cols=402  Identities=11%  Similarity=0.102  Sum_probs=289.7

Q ss_pred             CchHHHHHHHHHHHcCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039695           60 SNTFTLNHLINCYVRLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIK  136 (605)
Q Consensus        60 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~  136 (605)
                      .+...|-.....=-..+++..|+.+|++...   +++..|---+..=.++..+..|..++++....=...|..=| --+-
T Consensus        71 ~~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWy-KY~y  149 (677)
T KOG1915|consen   71 LNMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWY-KYIY  149 (677)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHH-HHHH
Confidence            3444554444444456788899999998754   67778888888889999999999999998774222233322 2233


Q ss_pred             HHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcC--CCChhhHHHHHHHHHHcCChhHHH
Q 039695          137 ACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMG--CRNVVSWTSIIVAHAQNAQGHEAL  214 (605)
Q Consensus       137 a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~--~~~~~~~~~li~~~~~~g~~~~A~  214 (605)
                      .=-..|++..|.++|+.-.+  ..|+...|++.|+.=.+-..++.|+.++++..  .|++.+|--...-=.++|....|.
T Consensus       150 mEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHH
Confidence            33467999999999998876  58999999999999999999999999999864  599999998888888999999999


Q ss_pred             HHHHHHHHcCCCCCChhHHHhHHHhh----cccCchhhHHHHHHHHHHhCCCCc--HhHHHHHHHHHHhcCCHHHHHHH-
Q 039695          215 EMFREFNYQSRDRPNQHMLASVINAC----ASLGRLVSGKVAHGVVVRSGCEFN--DVVASALVDMYAKCGSVNYSDKV-  287 (605)
Q Consensus       215 ~~~~~m~~~~~~~p~~~t~~~ll~a~----~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~y~~~g~~~~A~~~-  287 (605)
                      .+|....+.-   .|...-..+..++    .....++.|.-++...+..- +.+  ...|..+...--+-|+....+.+ 
T Consensus       228 ~VyerAie~~---~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~I  303 (677)
T KOG1915|consen  228 SVYERAIEFL---GDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAI  303 (677)
T ss_pred             HHHHHHHHHh---hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHH
Confidence            9998876532   2333333333333    34567788888888888753 333  45666666655556665443333 


Q ss_pred             -------HhccCCC---CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-------HHHHHHHHHH---hccCcH
Q 039695          288 -------FNRISNP---SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND-------VTFVGVLHAC---SHSGLV  347 (605)
Q Consensus       288 -------~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~-------~t~~~ll~a~---~~~g~~  347 (605)
                             ++.+...   |-.+|--.+..-...|+.+...++|++.+.. ++|-.       ..|.-+=.+|   ....++
T Consensus       304 v~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~  382 (677)
T KOG1915|consen  304 VGKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDV  382 (677)
T ss_pred             hhhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence                   2223333   3456666677777789999999999998875 66632       2232222222   346788


Q ss_pred             HHHHHHHHHHHHhcCCCCc-HHHHHHHHHHH----hhcCCHHHHHHHHHh-CCCCCCchhhHHHHHHHHHHHcCChHHHH
Q 039695          348 DEGIQHLDSMYRKYGIIPD-AKHYTCVVDML----GRTGRLDEAYKLAKS-IQVDPDGGPLLWGTLLSASRLHGRVDIAV  421 (605)
Q Consensus       348 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~----~~~g~~~~A~~~~~~-m~~~p~~~~~~~~~ll~~~~~~g~~~~a~  421 (605)
                      +.+.++|+..+   .+.|. ..++.-+--+|    .|+.++..|.+++.. +..-|.  ..++...|..-.+.++++...
T Consensus       383 ertr~vyq~~l---~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK--~KlFk~YIelElqL~efDRcR  457 (677)
T KOG1915|consen  383 ERTRQVYQACL---DLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPK--DKLFKGYIELELQLREFDRCR  457 (677)
T ss_pred             HHHHHHHHHHH---hhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCc--hhHHHHHHHHHHHHhhHHHHH
Confidence            89999998885   35554 55665555554    467889999998876 345577  788888888888999999999


Q ss_pred             HHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCceeE
Q 039695          422 EASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSW  474 (605)
Q Consensus       422 ~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  474 (605)
                      .++++.++..|.+..+|...+..-...|++|.|..+|+...+....--|-.-|
T Consensus       458 kLYEkfle~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellw  510 (677)
T KOG1915|consen  458 KLYEKFLEFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLW  510 (677)
T ss_pred             HHHHHHHhcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHH
Confidence            99999999999998888888888888999999999998887765433333333

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.38  E-value=7.6e-10  Score=101.44  Aligned_cols=216  Identities=11%  Similarity=0.043  Sum_probs=130.3

Q ss_pred             cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCC---chhHHHHHHHHHHhCCCHHHH
Q 039695          106 MGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQY---NLVVCSSLVDMYGKCNDVDGA  182 (605)
Q Consensus       106 ~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~Li~~y~~~g~~~~A  182 (605)
                      +.++++|+++|-+|.+.... +..+..+|-+.+-+.|..+.|..+|+.+.++.--+   -....-.|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~-t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPE-TFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcCch-hhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            46788999999999884321 33455677788889999999999999888752111   122445677788899999999


Q ss_pred             HHHHhhcCCCCh---hhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChh----HHHhHHHhhcccCchhhHHHHHHH
Q 039695          183 RRVFDLMGCRNV---VSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQH----MLASVINACASLGRLVSGKVAHGV  255 (605)
Q Consensus       183 ~~~~~~m~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~----t~~~ll~a~~~~~~~~~a~~~~~~  255 (605)
                      +.+|..+.+...   .+..-|+..|-+..+|++|++.-+++.+.+ -++..+    .|..+........+.+.|...+..
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~-~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~k  205 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLG-GQTYRVEIAQFYCELAQQALASSDVDRARELLKK  205 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcC-CccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            999999877333   355668889999999999999999888766 333322    233344444444455555555555


Q ss_pred             HHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc----chHHHHHHHHHHcCChhHHHHHHHHHHH
Q 039695          256 VVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV----VTYTSMIVGAAKYGLGRFSLDLFNEMIS  324 (605)
Q Consensus       256 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~  324 (605)
                      ..+.+ +..+..--.+.+.+...|+++.|.+.++.+.+.|.    .+...|..+|.+.|+.++....+.++.+
T Consensus       206 Alqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         206 ALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            54443 22333333344444444444444444444443222    1223333444444444444444444433

>PF13041 PPR_2: PPR repeat family

Probab=99.36  E-value=1.6e-12  Score=88.75  Aligned_cols=50  Identities=32%  Similarity=0.620  Sum_probs=47.9

Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 039695           91 PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSM  140 (605)
Q Consensus        91 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~  140 (605)
                      ||+++||++|++|++.|++++|+++|++|.+.|++||..||+++|++|++
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            89999999999999999999999999999999999999999999999874

>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]

Probab=99.34  E-value=1e-10  Score=117.22  Aligned_cols=246  Identities=12%  Similarity=0.098  Sum_probs=188.9

Q ss_pred             CChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhC--CCCcHhHHHHHHHHHHhcCCHH-HH
Q 039695          208 AQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSG--CEFNDVVASALVDMYAKCGSVN-YS  284 (605)
Q Consensus       208 g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~y~~~g~~~-~A  284 (605)
                      -+..+|+..|......  +.-.......+..+|...+++++++.+|+.+.+..  .-.+..+|.+.+--+-+.=.+. -|
T Consensus       333 y~~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~La  410 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLA  410 (638)
T ss_pred             HHHHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHH
Confidence            3567888888885443  33444666777888889999999999999888753  1224556665543322211111 12


Q ss_pred             HHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCC
Q 039695          285 DKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGI  363 (605)
Q Consensus       285 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~  363 (605)
                      ..+.+ +....+.+|-++.+.|.-+++.+.|++.|++.++  +.| ..++|+.+-.-+.....+|.|...|+..+   + 
T Consensus       411 q~Li~-~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al---~-  483 (638)
T KOG1126|consen  411 QDLID-TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL---G-  483 (638)
T ss_pred             HHHHh-hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh---c-
Confidence            22222 2235678999999999999999999999999988  556 67888888777888889999999999764   4 


Q ss_pred             CCcHHHHH---HHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          364 IPDAKHYT---CVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       364 ~p~~~~~~---~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                       .++.+|+   -|.-.|.+.++++.|+-.|++.. +.|. +.+....+...+.+.|+.++|++++++++.++|.++-.-.
T Consensus       484 -~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~  561 (638)
T KOG1126|consen  484 -VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKY  561 (638)
T ss_pred             -CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHH
Confidence             4445555   45677999999999999999854 5564 3677778888899999999999999999999999999989


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          440 TLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       440 ~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      ..+..+...+++++|.+.++++++-
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHh
Confidence            9999999999999999999999874

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.34  E-value=3.8e-09  Score=104.01  Aligned_cols=393  Identities=10%  Similarity=0.005  Sum_probs=269.3

Q ss_pred             CchHHHHHHHHHHHcCCChhHHHHHHhc--CCCCChhhHHHHHHHHHhcCChhHHHHHHH----HHHhC---------CC
Q 039695           60 SNTFTLNHLINCYVRLKKTQVARQLFDE--MLEPNVVSYTSLMAGYINMGQPQIALLLFQ----KMLGN---------LV  124 (605)
Q Consensus        60 ~~~~~~~~li~~~~~~g~~~~A~~~f~~--m~~~~~~~~~~li~~~~~~g~~~~a~~~~~----~m~~~---------g~  124 (605)
                      -|+..---+.++|.-.|+.+.|..+...  +.+.|..........+.+..++++|+.++.    .+..-         -+
T Consensus        47 ~dp~d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~~~~l  126 (611)
T KOG1173|consen   47 NDPADIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDAANTL  126 (611)
T ss_pred             CChHHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhhhcee
Confidence            3444334466667666777777766653  456777787878888888888888888777    22110         01


Q ss_pred             CCChhh----HHHHH-------HHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh------------------
Q 039695          125 WPNEFT----FATVI-------KACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGK------------------  175 (605)
Q Consensus       125 ~pd~~t----~~~ll-------~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~------------------  175 (605)
                      .+|..-    -+.-.       +.+....+.++|+..+.++....    +..+.++...-..                  
T Consensus       127 ~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D----~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a  202 (611)
T KOG1173|consen  127 ELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLAD----AKCFEAFEKLVSAHMLTAQEEFELLESLDLA  202 (611)
T ss_pred             ccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcc----hhhHHHHHHHHHHHhcchhHHHHHHhcccHH
Confidence            111111    11111       23344556677777776665443    2222222111110                  


Q ss_pred             --C-CCHHHHHHHHhhc----CC----------------CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhH
Q 039695          176 --C-NDVDGARRVFDLM----GC----------------RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHM  232 (605)
Q Consensus       176 --~-g~~~~A~~~~~~m----~~----------------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t  232 (605)
                        + .+.+.-+.+|+-.    ..                .++.....-..-+...+++.+.++++....+..  ++....
T Consensus       203 ~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d--pfh~~~  280 (611)
T KOG1173|consen  203 MLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKD--PFHLPC  280 (611)
T ss_pred             hhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC--CCCcch
Confidence              0 1111122222211    00                123333344455677899999999999988764  556666


Q ss_pred             HHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc---chHHHHHHHHHHc
Q 039695          233 LASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV---VTYTSMIVGAAKY  309 (605)
Q Consensus       233 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~  309 (605)
                      +..-|.++...|+...-..+-..+++.- |....+|-++.-.|.-.|+.++|++.|.+...-|.   ..|-.....|+-.
T Consensus       281 ~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e  359 (611)
T KOG1173|consen  281 LPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGE  359 (611)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhc
Confidence            6666667778887776666666666553 66788999999999999999999999998775443   5899999999999


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHH
Q 039695          310 GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYK  388 (605)
Q Consensus       310 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~  388 (605)
                      |..++|+..+...-+. ++-...-+.-+.--|.+.++.+.|.++|.+..   ++-|+ +.+.+-+.-..-..+.+.+|..
T Consensus       360 ~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~  435 (611)
T KOG1173|consen  360 GEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALK  435 (611)
T ss_pred             chHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHH
Confidence            9999999999877663 22122223334456788899999999999775   77775 7777777777778899999999


Q ss_pred             HHHhCC-----CCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          389 LAKSIQ-----VDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       389 ~~~~m~-----~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      +|+...     ..+.  .-..+|+.|..+|++.+.+++|+..+++.+.+.|.++.+|..++-+|...|+++.|...|.+.
T Consensus       436 ~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKa  515 (611)
T KOG1173|consen  436 YFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKA  515 (611)
T ss_pred             HHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            998642     1111  013468899999999999999999999999999999999999999999999999999999876


Q ss_pred             Hh
Q 039695          462 KR  463 (605)
Q Consensus       462 ~~  463 (605)
                      ..
T Consensus       516 L~  517 (611)
T KOG1173|consen  516 LA  517 (611)
T ss_pred             Hh
Confidence            54

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.34  E-value=2.4e-10  Score=107.59  Aligned_cols=200  Identities=13%  Similarity=0.096  Sum_probs=164.3

Q ss_pred             CcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 039695          263 FNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLH  339 (605)
Q Consensus       263 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  339 (605)
                      .....+..+...|...|++++|.+.|++..+   .+...+..+...|...|++++|.+.|++..+.. +.+...+..+..
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            3456777888999999999999999998763   345677888889999999999999999988753 335567777888


Q ss_pred             HHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChH
Q 039695          340 ACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       340 a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      .+...|++++|.+.++..............+..+...+...|++++|...+++.. ..|+ +...|..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHH
Confidence            8899999999999999986432222335677778889999999999999998753 3333 2668888999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          419 IAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +|...++++++..|.++..+..++..+...|+.++|..+.+.+...
T Consensus       187 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       187 DARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999999999988888888888999999999999999998877653

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.

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.33  E-value=1.9e-09  Score=111.01  Aligned_cols=89  Identities=11%  Similarity=0.123  Sum_probs=76.2

Q ss_pred             HHHHHhhhCCCCCChhhHHHHHHHhhChhHH--HHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCCCCh
Q 039695           16 SSLTRQNKRSSCHTKAHFIQQLQECKHLISL--ASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNV   93 (605)
Q Consensus        16 ~~l~~m~~~g~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~   93 (605)
                      .+|..|+..|+.|+..||.+++..++..+++  ..++..|.-..++.+..+++.++....+.++.+.+.       +|..
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaatif~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~a   83 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAATIFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLA   83 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCccccchhhhhcccccccchhHHHHHhcccccccccCCC-------CCch
Confidence            5677888899999999999999999988877  447888888888888889999998888888877765       7888


Q ss_pred             hhHHHHHHHHHhcCChhH
Q 039695           94 VSYTSLMAGYINMGQPQI  111 (605)
Q Consensus        94 ~~~~~li~~~~~~g~~~~  111 (605)
                      .+|+.|..+|.+.|+...
T Consensus        84 Dtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             hHHHHHHHHHHhccchHH
Confidence            999999999999998754

>PF13041 PPR_2: PPR repeat family

Probab=99.33  E-value=3.9e-12  Score=86.78  Aligned_cols=50  Identities=40%  Similarity=0.614  Sum_probs=47.6

Q ss_pred             CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 039695          294 PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH  343 (605)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~  343 (605)
                      ||+++||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
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            78999999999999999999999999999999999999999999999875

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.33  E-value=7.7e-11  Score=121.05  Aligned_cols=263  Identities=16%  Similarity=0.184  Sum_probs=192.6

Q ss_pred             HHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCC
Q 039695          215 EMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP  294 (605)
Q Consensus       215 ~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~  294 (605)
                      .++..+...| +.||.+||.+++..|+..|+.+.|- +|..|.-...+.+..+++.++......++.+.+.       +|
T Consensus        11 nfla~~e~~g-i~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep   81 (1088)
T KOG4318|consen   11 NFLALHEISG-ILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EP   81 (1088)
T ss_pred             hHHHHHHHhc-CCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CC
Confidence            4566778888 9999999999999999999999999 9999999999999999999999999999987766       78


Q ss_pred             CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 039695          295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVV  374 (605)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li  374 (605)
                      ...+|+.|..+|.++|+..- ++..++           -...+...++..|....-..++..+.-..+.-||..+   .+
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~-fe~veq-----------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~i  146 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLIL-FEVVEQ-----------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AI  146 (1088)
T ss_pred             chhHHHHHHHHHHhccchHH-HHHHHH-----------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HH
Confidence            88999999999999999865 222222           2223444556666655555555544323345566543   56


Q ss_pred             HHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCCh-HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhH
Q 039695          375 DMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRV-DIAVEASNQLIESNQQVANAYVTLSNTYALAGEWEN  453 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~-~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  453 (605)
                      ..+.-.|.++.++++...+|...-.++...  ++.-+...... +.-....+...+  ..++.+|..+..+-..+|+.+.
T Consensus       147 lllv~eglwaqllkll~~~Pvsa~~~p~~v--fLrqnv~~ntpvekLl~~cksl~e--~~~s~~l~a~l~~alaag~~d~  222 (1088)
T KOG4318|consen  147 LLLVLEGLWAQLLKLLAKVPVSAWNAPFQV--FLRQNVVDNTPVEKLLNMCKSLVE--APTSETLHAVLKRALAAGDVDG  222 (1088)
T ss_pred             HHHHHHHHHHHHHHHHhhCCcccccchHHH--HHHHhccCCchHHHHHHHHHHhhc--CCChHHHHHHHHHHHhcCchhh
Confidence            667778999999999999884332112222  35544443333 333333333333  3457899999999999999999


Q ss_pred             HHHHHHHHHhCCCccCCceeEEEeCCEEeeeeccccCccchHHHHHHHHHHHHHHHHCCccCCCccc
Q 039695          454 VHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGYVGGKTGL  520 (605)
Q Consensus       454 a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~~pd~~~~  520 (605)
                      |..+..+|+++|++-.+.+.|..+-+        ..       ...-++.+.+-|++.|+.||+.|+
T Consensus       223 Ak~ll~emke~gfpir~HyFwpLl~g--------~~-------~~q~~e~vlrgmqe~gv~p~seT~  274 (1088)
T KOG4318|consen  223 AKNLLYEMKEKGFPIRAHYFWPLLLG--------IN-------AAQVFEFVLRGMQEKGVQPGSETQ  274 (1088)
T ss_pred             HHHHHHHHHHcCCCcccccchhhhhc--------Cc-------cchHHHHHHHHHHHhcCCCCcchh
Confidence            99999999999999999999986533        11       113344678889999999997664

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.32  E-value=1.9e-08  Score=96.73  Aligned_cols=314  Identities=11%  Similarity=0.024  Sum_probs=210.8

Q ss_pred             HhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCCh-hhHHHHHHHHHHcCChhHHHHH
Q 039695          138 CSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNV-VSWTSIIVAHAQNAQGHEALEM  216 (605)
Q Consensus       138 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~-~~~~~li~~~~~~g~~~~A~~~  216 (605)
                      .-..|..+.|...|...+.. .+   ..|.+-+....-..+.+.+..+....+..+. ..---+..+|....+.+++++-
T Consensus       174 ~k~~~~~s~A~~sfv~~v~~-~P---~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q~~e~~~k  249 (559)
T KOG1155|consen  174 LKELGLLSLAIDSFVEVVNR-YP---WFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQHEEALQK  249 (559)
T ss_pred             HHhhchHHHHHHHHHHHHhc-CC---cchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455556666655555432 12   2233333333333444444444433332211 1111233455555567777777


Q ss_pred             HHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCC--CCcHhHHHHHHHHHHhcCCHH-HHHHHHhccCC
Q 039695          217 FREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGC--EFNDVVASALVDMYAKCGSVN-YSDKVFNRISN  293 (605)
Q Consensus       217 ~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~y~~~g~~~-~A~~~~~~~~~  293 (605)
                      .......| ++-+...-+....+.-...++++|..+|+.+.+...  -.|..+|+.++-.-..+..+. -|..+++ +.+
T Consensus       250 ~e~l~~~g-f~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~-idK  327 (559)
T KOG1155|consen  250 KERLSSVG-FPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSN-IDK  327 (559)
T ss_pred             HHHHHhcc-CCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHH-hcc
Confidence            77777666 444444444444444566788888888888887631  114455655443222222222 2222222 222


Q ss_pred             CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHH
Q 039695          294 PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYT  371 (605)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~  371 (605)
                      --+.|.-.+.+-|.-.++.++|...|++..+.  .|. ...|+.+.+-|....+...|.+-++..+   .+.| |-..|-
T Consensus       328 yR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv---di~p~DyRAWY  402 (559)
T KOG1155|consen  328 YRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAV---DINPRDYRAWY  402 (559)
T ss_pred             CCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHHH---hcCchhHHHHh
Confidence            23345555666778889999999999999884  444 4567777788999999999999999886   5666 588899


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          372 CVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       372 ~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      .|.++|.-.+...-|+-.|++.. .+|+ ++..|.+|..+|.+.++.++|++.|+.++..+..+..+|..|++.|-+.++
T Consensus       403 GLGQaYeim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d  481 (559)
T KOG1155|consen  403 GLGQAYEIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKD  481 (559)
T ss_pred             hhhHHHHHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHh
Confidence            99999999999999999999854 5554 388999999999999999999999999999988788899999999999999


Q ss_pred             hhHHHHHHHHHHh
Q 039695          451 WENVHSLRSEMKR  463 (605)
Q Consensus       451 ~~~a~~~~~~m~~  463 (605)
                      .++|...+++-.+
T Consensus       482 ~~eAa~~yek~v~  494 (559)
T KOG1155|consen  482 LNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998776

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.32  E-value=1.6e-08  Score=95.69  Aligned_cols=367  Identities=12%  Similarity=0.025  Sum_probs=246.7

Q ss_pred             chHHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHh-cC-Ch-hH-------------HHHHHHHHHhCC-
Q 039695           61 NTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYIN-MG-QP-QI-------------ALLLFQKMLGNL-  123 (605)
Q Consensus        61 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~-~g-~~-~~-------------a~~~~~~m~~~g-  123 (605)
                      +...-...+.+|...++-++|.....+.+..-...-+.||.+..+ .| +- ++             |+..+.-..+.+ 
T Consensus        96 ~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp~aL~~i~~ll~l~v  175 (564)
T KOG1174|consen   96 DAEQRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRECPMALQVIEALLELGV  175 (564)
T ss_pred             cHHHHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhcchHHHHHHHHHHHhh
Confidence            344455667788888899999998888866433344444433332 22 11 11             122222222222 


Q ss_pred             --------------CCCChhhHHHHHHHHh--ccCChHHHHHHHHHHHHh-CCCCchhHHHHHHHHHHhCCCHHHHHHHH
Q 039695          124 --------------VWPNEFTFATVIKACS--MLADLITGKQIHTHIETF-GFQYNLVVCSSLVDMYGKCNDVDGARRVF  186 (605)
Q Consensus       124 --------------~~pd~~t~~~ll~a~~--~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~Li~~y~~~g~~~~A~~~~  186 (605)
                                    +.|+..+....+.+++  ..++-..+.+.+-.+.+. -++.|+....++.+.|...|+.++|...|
T Consensus       176 ~g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~F  255 (564)
T KOG1174|consen  176 NGNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIF  255 (564)
T ss_pred             cchhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHH
Confidence                          2344444444555543  335555555555555444 36778889999999999999999999999


Q ss_pred             hhcCCCChhhHHHH---HHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCC
Q 039695          187 DLMGCRNVVSWTSI---IVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEF  263 (605)
Q Consensus       187 ~~m~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~  263 (605)
                      ++...-|+.+...|   .-.+.+.|++++...+...+....  +-....|..-+...-...+++.|..+-+..++.. +.
T Consensus       256 e~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~--~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r  332 (564)
T KOG1174|consen  256 SSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV--KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PR  332 (564)
T ss_pred             HHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh--hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cc
Confidence            98876555443332   234567888888888877775432  2223333333333345567777777777666654 33


Q ss_pred             cHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHH-H
Q 039695          264 NDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVL-H  339 (605)
Q Consensus       264 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll-~  339 (605)
                      +...+-.-...+...|+.++|.-.|+....   -+..+|.-|+..|...|...+|..+-+..... ++.+..+...+. .
T Consensus       333 ~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~  411 (564)
T KOG1174|consen  333 NHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTL  411 (564)
T ss_pred             cchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcce
Confidence            344444445667788999999999987653   46789999999999999999999887766553 344555554441 2


Q ss_pred             HHh-ccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCchhhHHHHHHHHHHHcCC
Q 039695          340 ACS-HSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGGPLLWGTLLSASRLHGR  416 (605)
Q Consensus       340 a~~-~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~~~~~~ll~~~~~~g~  416 (605)
                      .|. ....-++|..+++.-.   .+.|+ ...-+.+...+.+.|+.++++.++++ +...||  ....+.|...++..+.
T Consensus       412 V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D--~~LH~~Lgd~~~A~Ne  486 (564)
T KOG1174|consen  412 VLFPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPD--VNLHNHLGDIMRAQNE  486 (564)
T ss_pred             eeccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccc--cHHHHHHHHHHHHhhh
Confidence            232 2334578888888654   67888 66677888899999999999999987 445677  8888999999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCCc
Q 039695          417 VDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       417 ~~~a~~~~~~~~~~~p~~~~  436 (605)
                      +.+|...|..++.++|++-.
T Consensus       487 ~Q~am~~y~~ALr~dP~~~~  506 (564)
T KOG1174|consen  487 PQKAMEYYYKALRQDPKSKR  506 (564)
T ss_pred             HHHHHHHHHHHHhcCccchH
Confidence            99999999999999998754

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.32  E-value=3.2e-07  Score=88.66  Aligned_cols=444  Identities=11%  Similarity=0.105  Sum_probs=298.1

Q ss_pred             hccchHHHHHHHHHhhhCCCCCChhh----HHHHHHHhhChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHH
Q 039695            7 RNLIFTLAASSLTRQNKRSSCHTKAH----FIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVAR   82 (605)
Q Consensus         7 ~~~~~~~a~~~l~~m~~~g~~~~~~~----~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~   82 (605)
                      .+++...|..+|++......  ...|    |+..=-.+.....++.+++..+..-...| ..|-..+.+=-..|++.-|+
T Consensus        85 sq~e~~RARSv~ERALdvd~--r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaR  161 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDY--RNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGAR  161 (677)
T ss_pred             hHHHHHHHHHHHHHHHhccc--ccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHH
Confidence            34566677777777665431  2222    22222223333444778887776543333 34445555555679999999


Q ss_pred             HHHhcC--CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh-C-
Q 039695           83 QLFDEM--LEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETF-G-  158 (605)
Q Consensus        83 ~~f~~m--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-g-  158 (605)
                      ++|++=  -+|+...|++.|..=.+...++.|..+|++..-  +.|+..+|.--.+.=.+.|....+.++++.+++. | 
T Consensus       162 qiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~  239 (677)
T KOG1915|consen  162 QIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGD  239 (677)
T ss_pred             HHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhh
Confidence            999864  469999999999999999999999999998876  5689888888888778889999999999888764 2 


Q ss_pred             CCCchhHHHHHHHHHHhCCCHHHHHHHHhhc----CC-CChhhHHHHHHHHHHcCCh---hHHHHH-----HHHHHHcCC
Q 039695          159 FQYNLVVCSSLVDMYGKCNDVDGARRVFDLM----GC-RNVVSWTSIIVAHAQNAQG---HEALEM-----FREFNYQSR  225 (605)
Q Consensus       159 ~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m----~~-~~~~~~~~li~~~~~~g~~---~~A~~~-----~~~m~~~~~  225 (605)
                      -..+...+++....=.++..++.|.-+|.-.    +. +....|.....-=-+-|+.   ++++--     |+.+...+ 
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-  318 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-  318 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-
Confidence            1122344555555556778888888887644    33 2233344333333334443   333322     23333332 


Q ss_pred             CCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHh-HHHHHHHH--------HHhcCCHHHHHHHHhccCC---
Q 039695          226 DRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDV-VASALVDM--------YAKCGSVNYSDKVFNRISN---  293 (605)
Q Consensus       226 ~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~--------y~~~g~~~~A~~~~~~~~~---  293 (605)
                       +-|-.++--.+..-...|+.+...++++.++..-.+.... .+...|-.        -....+++.++++|+...+   
T Consensus       319 -p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIP  397 (677)
T KOG1915|consen  319 -PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIP  397 (677)
T ss_pred             -CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcC
Confidence             4566677777777777899999999999888654222211 12111111        1345788888888877654   


Q ss_pred             CCcchHHHHHHH----HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HH
Q 039695          294 PSVVTYTSMIVG----AAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AK  368 (605)
Q Consensus       294 ~~~~~~~~li~~----~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~  368 (605)
                      ....|+.-+=-.    -.++.+...|.+++...+  |.-|-..+|-..|..-.+.+.+|....+++..+   ...|. ..
T Consensus       398 HkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfl---e~~Pe~c~  472 (677)
T KOG1915|consen  398 HKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFL---EFSPENCY  472 (677)
T ss_pred             cccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHH---hcChHhhH
Confidence            334455544333    346788888888887765  577888899888888888999999999999885   45564 77


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCCCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQVDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYA  446 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  446 (605)
                      +|......=...|+.+.|..+|+-....|.  .....|.+.|.--...|.++.|..+++++++..+... +|...+..-.
T Consensus       473 ~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~k-vWisFA~fe~  551 (677)
T KOG1915|consen  473 AWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVK-VWISFAKFEA  551 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccch-HHHhHHHHhc
Confidence            787777777788999999999987654442  2256888888888899999999999999998877654 6776665544


Q ss_pred             -----hcC-----------ChhHHHHHHHHHHh
Q 039695          447 -----LAG-----------EWENVHSLRSEMKR  463 (605)
Q Consensus       447 -----~~g-----------~~~~a~~~~~~m~~  463 (605)
                           +.|           +...|.++|++...
T Consensus       552 s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  552 SASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             cccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence                 334           45567777776643

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.31  E-value=1.7e-08  Score=95.66  Aligned_cols=294  Identities=11%  Similarity=0.052  Sum_probs=187.4

Q ss_pred             HHHHHHHh--cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 039695           98 SLMAGYIN--MGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGK  175 (605)
Q Consensus        98 ~li~~~~~--~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~  175 (605)
                      .+..+..+  .|++.+|.++..+-.+.+-.| ...|..-..+.-..|+.+.+-.++.++.+..-.++..+.-+.......
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  589999999988877766443 234555666777889999999999888887446777788888888888


Q ss_pred             CCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHH
Q 039695          176 CNDVDGARRVFDLMG---CRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVA  252 (605)
Q Consensus       176 ~g~~~~A~~~~~~m~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~  252 (605)
                      .|+.+.|..-.++..   .+++........+|.+.|++.+...++..|.+.+ .--|+..                 .+ 
T Consensus       166 ~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~-~l~~~e~-----------------~~-  226 (400)
T COG3071         166 RRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAG-LLSDEEA-----------------AR-  226 (400)
T ss_pred             CCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHcc-CCChHHH-----------------HH-
Confidence            999988888776654   3677788888899999999999999999998887 4333221                 00 


Q ss_pred             HHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC---CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 039695          253 HGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS---NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP  329 (605)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  329 (605)
                                ....+++.+++-....+..+.-...++..+   +.++..--+++.-+.+.|+.++|.++..+-.+.+..|
T Consensus       227 ----------le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~  296 (400)
T COG3071         227 ----------LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDP  296 (400)
T ss_pred             ----------HHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccCh
Confidence                      011233333333333333333333444444   2344455556666667777777777777777665655


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCchhhHHHHHH
Q 039695          330 NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGGPLLWGTLL  408 (605)
Q Consensus       330 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~~~~~~ll  408 (605)
                      .    ...+-.+.+.++.+.-.+..+.-.+.++-.|  ..+.+|...|.+.+.|.+|.+.|+. ++..|+  ...|+-+.
T Consensus       297 ~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s--~~~~~~la  368 (400)
T COG3071         297 R----LCRLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPS--ASDYAELA  368 (400)
T ss_pred             h----HHHHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC--hhhHHHHH
Confidence            5    2222345555666555555555544444444  4556666666666667666666665 345555  66666666


Q ss_pred             HHHHHcCChHHHHHHHHHHHh
Q 039695          409 SASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       409 ~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      .++.+.|+.++|.+..++.+.
T Consensus       369 ~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         369 DALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHcCChHHHHHHHHHHHH
Confidence            666666666666666666553

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.21  E-value=1.9e-08  Score=92.49  Aligned_cols=215  Identities=9%  Similarity=0.053  Sum_probs=137.6

Q ss_pred             cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC-CCh------hhHHHHHHHHHHcCChhHH
Q 039695          141 LADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC-RNV------VSWTSIIVAHAQNAQGHEA  213 (605)
Q Consensus       141 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~-~~~------~~~~~li~~~~~~g~~~~A  213 (605)
                      ..+.++|...|-+|.+.. +.+..+.-+|.+.|-+.|.+|.|+++-+.+.+ ||.      ...-.|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            467889999999998853 44566777899999999999999999988765 443      2344566778889999999


Q ss_pred             HHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcH----hHHHHHHHHHHhcCCHHHHHHHHh
Q 039695          214 LEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFND----VVASALVDMYAKCGSVNYSDKVFN  289 (605)
Q Consensus       214 ~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~----~~~~~li~~y~~~g~~~~A~~~~~  289 (605)
                      ..+|..+.+.+  .--......++..|-...+|++|...-..+.+.+-.+..    ..|.-|...+....+.+.|..++.
T Consensus       127 E~~f~~L~de~--efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         127 EDIFNQLVDEG--EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHhcch--hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            99999988765  233445667777777788888888877777776533321    123334444444555666666666


Q ss_pred             ccCCCCc--c-hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 039695          290 RISNPSV--V-TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMY  358 (605)
Q Consensus       290 ~~~~~~~--~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~  358 (605)
                      +..+.|.  + .--.+...+...|++.+|.+.++...+.+..--..+...|..+|.+.|+.+++..++..+.
T Consensus       205 kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~  276 (389)
T COG2956         205 KALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAM  276 (389)
T ss_pred             HHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            5543222  1 1222334455566666666666665554333333444555555566666666655555553

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.20  E-value=7.1e-09  Score=105.18  Aligned_cols=232  Identities=16%  Similarity=0.161  Sum_probs=160.7

Q ss_pred             hHHHhHHHhhcccCchhhHHHHHHHHHHh-----CC-CCcHh-HHHHHHHHHHhcCCHHHHHHHHhccCC----------
Q 039695          231 HMLASVINACASLGRLVSGKVAHGVVVRS-----GC-EFNDV-VASALVDMYAKCGSVNYSDKVFNRISN----------  293 (605)
Q Consensus       231 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-----g~-~~~~~-~~~~li~~y~~~g~~~~A~~~~~~~~~----------  293 (605)
                      .|...+...|...|+++.|..++...++.     |. .|.+. ..+.+..+|...+++++|..+|+++..          
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            34444666666666666666666665553     21 12222 223456677777777777777776642          


Q ss_pred             C-CcchHHHHHHHHHHcCChhHHHHHHHHHHH-----cCCCC-CH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcC--C
Q 039695          294 P-SVVTYTSMIVGAAKYGLGRFSLDLFNEMIS-----RGIKP-ND-VTFVGVLHACSHSGLVDEGIQHLDSMYRKYG--I  363 (605)
Q Consensus       294 ~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-----~g~~p-d~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~--~  363 (605)
                      | -..+++.|...|.+.|++++|..++++..+     .|..+ .. .-++.+...|...+.+++|..++....+.+.  +
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            1 124566667778888888877777766543     12222 22 2456677778899999999999887765443  2


Q ss_pred             CCc----HHHHHHHHHHHhhcCCHHHHHHHHHhCC-------CC-CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHh--
Q 039695          364 IPD----AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-------VD-PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIE--  429 (605)
Q Consensus       364 ~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~-------~~-p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~--  429 (605)
                      .++    ..+|+.|...|-..|++++|.+++++..       .+ .......++.|..+|.+.+++++|.++|.+...  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    5789999999999999999999998753       11 111134678899999999999999999988764  


Q ss_pred             --cCCCC---CchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          430 --SNQQV---ANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       430 --~~p~~---~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                        .+|+.   ..+|..|+..|.+.|++++|.++.+...
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence              34544   4588899999999999999999998875

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.20  E-value=1.9e-07  Score=95.55  Aligned_cols=400  Identities=15%  Similarity=0.096  Sum_probs=255.7

Q ss_pred             HhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhh-
Q 039695           55 KSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFT-  130 (605)
Q Consensus        55 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t-  130 (605)
                      ...+.-|+.+|..|.-+...+|+++.+.+.|++...   .....|+.+-..|...|....|+.+++.-......|+..+ 
T Consensus       316 ~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~  395 (799)
T KOG4162|consen  316 LKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISV  395 (799)
T ss_pred             HhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchH
Confidence            344567889999999999999999999999998743   3556799999999999999999999987765443454443 


Q ss_pred             HHHHHHHHh-ccCChHHHHHHHHHHHHh--CC--CCchhHHHHHHHHHHhC-----------CCHHHHHHHHhhcCC---
Q 039695          131 FATVIKACS-MLADLITGKQIHTHIETF--GF--QYNLVVCSSLVDMYGKC-----------NDVDGARRVFDLMGC---  191 (605)
Q Consensus       131 ~~~ll~a~~-~~~~~~~a~~~~~~~~~~--g~--~~~~~~~~~Li~~y~~~-----------g~~~~A~~~~~~m~~---  191 (605)
                      +-..-+.|. +.+..+++..+-.++++.  +.  ...+..|..+.-+|...           ....++.+.+++..+   
T Consensus       396 ~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~  475 (799)
T KOG4162|consen  396 LLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP  475 (799)
T ss_pred             HHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence            333334443 457777887777777662  11  22334455555555432           113455666666533   


Q ss_pred             --CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHh-CCCCcHhHH
Q 039695          192 --RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRS-GCEFNDVVA  268 (605)
Q Consensus       192 --~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~  268 (605)
                        |++.-|  +.--|+..++.+.|++..++....+ -.-+...+-.+.-.+...+++.+|..+.+..... |.  |-...
T Consensus       476 ~dp~~if~--lalq~A~~R~l~sAl~~~~eaL~l~-~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~--N~~l~  550 (799)
T KOG4162|consen  476 TDPLVIFY--LALQYAEQRQLTSALDYAREALALN-RGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD--NHVLM  550 (799)
T ss_pred             CCchHHHH--HHHHHHHHHhHHHHHHHHHHHHHhc-CCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--hhhhc
Confidence              333333  3334666778888888888887764 4556666666666667778888888877766542 21  00000


Q ss_pred             HHHHHHHHhcCCHHHHH--------------------------HHHhccC----C-CC-cchHHHHHHHHHHcCChhHHH
Q 039695          269 SALVDMYAKCGSVNYSD--------------------------KVFNRIS----N-PS-VVTYTSMIVGAAKYGLGRFSL  316 (605)
Q Consensus       269 ~~li~~y~~~g~~~~A~--------------------------~~~~~~~----~-~~-~~~~~~li~~~~~~g~~~~A~  316 (605)
                      ..-+..-..-++.++|.                          +.+..+.    + .+ +.++..+.. .++ -+...+.
T Consensus       551 ~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~-l~a-~~~~~~~  628 (799)
T KOG4162|consen  551 DGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSS-LVA-SQLKSAG  628 (799)
T ss_pred             hhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHH-HHH-hhhhhcc
Confidence            00011111122222222                          2222221    0 11 112222211 111 0000000


Q ss_pred             HHHHHHHHcCCCC--C------HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHH
Q 039695          317 DLFNEMISRGIKP--N------DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAY  387 (605)
Q Consensus       317 ~l~~~m~~~g~~p--d------~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~  387 (605)
                      .-. .|...-+.|  +      ...|......+...+..++|...+.+..   ++.|- ...|......+...|.++||.
T Consensus       629 se~-~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~  704 (799)
T KOG4162|consen  629 SEL-KLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAK  704 (799)
T ss_pred             ccc-ccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHH
Confidence            000 011111222  2      1234556677888899999988887763   55665 777777788889999999999


Q ss_pred             HHHHh-CCCCCCchhhHHHHHHHHHHHcCChHHHHH--HHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          388 KLAKS-IQVDPDGGPLLWGTLLSASRLHGRVDIAVE--ASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       388 ~~~~~-m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +.|.. ....|+ .+.+..++...+.+.|+...|..  ++..+++.+|.++.+|..|+.++-+.|+.++|.+.|....+.
T Consensus       705 ~af~~Al~ldP~-hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  705 EAFLVALALDPD-HVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHHHHHhcCCC-CcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            99876 445666 36789999999999999998888  999999999999999999999999999999999999988765


Q ss_pred             CC
Q 039695          465 GI  466 (605)
Q Consensus       465 ~~  466 (605)
                      ..
T Consensus       784 e~  785 (799)
T KOG4162|consen  784 EE  785 (799)
T ss_pred             cc
Confidence            43

>PRK12370 invasion protein regulator; Provisional

Probab=99.19  E-value=5.1e-09  Score=111.28  Aligned_cols=263  Identities=15%  Similarity=0.083  Sum_probs=186.4

Q ss_pred             CChhhHHHHHHHHHH-----cCChhHHHHHHHHHHHcCCCCCC-hhHHHhHHHhhc---------ccCchhhHHHHHHHH
Q 039695          192 RNVVSWTSIIVAHAQ-----NAQGHEALEMFREFNYQSRDRPN-QHMLASVINACA---------SLGRLVSGKVAHGVV  256 (605)
Q Consensus       192 ~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~---------~~~~~~~a~~~~~~~  256 (605)
                      .+...|...+.+-..     .+..++|+.+|++..+.   .|+ ...+..+..++.         ..+++++|...+..+
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l---dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~A  330 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM---SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKA  330 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHH
Confidence            345556666665322     23467999999998874   354 344444433332         234578899999998


Q ss_pred             HHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CC-cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-H
Q 039695          257 VRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PS-VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND-V  332 (605)
Q Consensus       257 ~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~-~  332 (605)
                      ++.. +.+...+..+...+...|++++|...|++..+  |+ ...|..+...+...|++++|+..+++..+.  .|+. .
T Consensus       331 l~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~  407 (553)
T PRK12370        331 TELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAA  407 (553)
T ss_pred             HhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChh
Confidence            8876 55778888889999999999999999999764  43 457888889999999999999999999885  4443 2


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSAS  411 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~  411 (605)
                      .+..++..+...|++++|...++++...  ..|+ ...+..+...|...|++++|...++++...+......++.+...+
T Consensus       408 ~~~~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~  485 (553)
T PRK12370        408 AGITKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEY  485 (553)
T ss_pred             hHHHHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHH
Confidence            2333444566689999999999987543  2353 556777888999999999999999886533332355666777777


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...|  +.|...++++++..-..+..+..+...|+-.|+-+.+... +++.+.+
T Consensus       486 ~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        486 CQNS--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hccH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            7777  4788878777764322222222366778888888888877 7776654

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.19  E-value=3.3e-08  Score=93.73  Aligned_cols=278  Identities=13%  Similarity=0.102  Sum_probs=170.2

Q ss_pred             CCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHH
Q 039695          176 CNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVA  252 (605)
Q Consensus       176 ~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~  252 (605)
                      .|++..|+++..+-.+   ..+..|..-+.+-.+.|+.+.+-.++.+.-+.. -.++.....+........|+...|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~-~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELA-GDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccC-CCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            3555555555544332   122333333344444555555555555554331 123333333344444455555555555


Q ss_pred             HHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc-----------chHHHHHHHHHHcCChhHHHHHHHH
Q 039695          253 HGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV-----------VTYTSMIVGAAKYGLGRFSLDLFNE  321 (605)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~-----------~~~~~li~~~~~~g~~~~A~~l~~~  321 (605)
                      ...+.+.+ +.++.+.......|.+.|++.....+...+.+...           .+|+.++.-....+..+.-...|++
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            55555544 33455555556666666666666666665554222           3566666655555555555556666


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCch
Q 039695          322 MISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGG  400 (605)
Q Consensus       322 m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~  400 (605)
                      ...+ .+-++..-.+++.-+...|+.++|.++..+..++ +..|+...+    -...+-++.+.-++..+. +...|+ +
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~L~~~----~~~l~~~d~~~l~k~~e~~l~~h~~-~  327 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPRLCRL----IPRLRPGDPEPLIKAAEKWLKQHPE-D  327 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChhHHHH----HhhcCCCCchHHHHHHHHHHHhCCC-C
Confidence            5543 4555666677777788899999999998888554 666662221    122344554444444433 222233 2


Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      +..+.+|...|.+++.+.+|...|+.+++..|+ ...|..++.+|.+.|+.++|.+++++...
T Consensus       328 p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s-~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         328 PLLLSTLGRLALKNKLWGKASEALEAALKLRPS-ASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            678999999999999999999999999999886 46899999999999999999999988764

>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.16  E-value=2.8e-07  Score=89.50  Aligned_cols=400  Identities=13%  Similarity=0.043  Sum_probs=246.2

Q ss_pred             hhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHh-hChhHHHHHHHHHHHh-CCCCch-HHHHHHHHHHHcCCChhH
Q 039695            4 SLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQEC-KHLISLASVHSEILKS-GFLSNT-FTLNHLINCYVRLKKTQV   80 (605)
Q Consensus         4 ~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~~~-g~~~~~-~~~~~li~~~~~~g~~~~   80 (605)
                      .+.++|.+++|++.+.+...  ..||..+|-+-..+| ...++++++.+.-.+. .+.|+- -.+..-..++-..|++++
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 KFFRNKKYDEAIKYYTQAIE--LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHEQLGKFDE  201 (606)
T ss_pred             hhhhcccHHHHHHHHHHHHh--cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHhhccHHH
Confidence            46789999999999999886  477755555544444 5667776666554432 344442 244444566667788877


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHH--------HHHh-CC--CCCChhhHHHHHHHHhccCChHHHHH
Q 039695           81 ARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQ--------KMLG-NL--VWPNEFTFATVIKACSMLADLITGKQ  149 (605)
Q Consensus        81 A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~--------~m~~-~g--~~pd~~t~~~ll~a~~~~~~~~~a~~  149 (605)
                      |+.=         +|-.+++.+|..+.-.--+.++++        +-.+ .+  +.|......+.+..+-..  +.    
T Consensus       202 al~D---------~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~--~~----  266 (606)
T KOG0547|consen  202 ALFD---------VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHAD--PK----  266 (606)
T ss_pred             HHHh---------hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccc--cc----
Confidence            7532         223334444433322222222222        2222 11  334443333333332110  00    


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhC-CCHHHHHHHHhhc-------CCC---C------hhhHHHHHHHHHHcCChhH
Q 039695          150 IHTHIETFGFQYNLVVCSSLVDMYGKC-NDVDGARRVFDLM-------GCR---N------VVSWTSIIVAHAQNAQGHE  212 (605)
Q Consensus       150 ~~~~~~~~g~~~~~~~~~~Li~~y~~~-g~~~~A~~~~~~m-------~~~---~------~~~~~~li~~~~~~g~~~~  212 (605)
                        ..+...+-..|...-..+=..|... ..+..|...+.+-       ...   |      ..+...-..-+.-.|++..
T Consensus       267 --~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~  344 (606)
T KOG0547|consen  267 --PLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLG  344 (606)
T ss_pred             --ccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchh
Confidence              0000000011111111121122111 1122232222211       111   1      1111111222445788999


Q ss_pred             HHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC
Q 039695          213 ALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS  292 (605)
Q Consensus       213 A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~  292 (605)
                      |.+.|+..+... -. +...|.-+..+|....+.++..+.|....+.+ +.++.+|..-..++.-.+++++|..=|++..
T Consensus       345 a~~d~~~~I~l~-~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai  421 (606)
T KOG0547|consen  345 AQEDFDAAIKLD-PA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAI  421 (606)
T ss_pred             hhhhHHHHHhcC-cc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999988765 22 22237777788899999999999999998876 5567788888888888999999999999987


Q ss_pred             CC---CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc---
Q 039695          293 NP---SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD---  366 (605)
Q Consensus       293 ~~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~---  366 (605)
                      .-   ++..|-.+-.+..+.+.+++++..|++.+++ ++--+..|+.....+...++++.|.+.|+..+   .+.|+   
T Consensus       422 ~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai---~LE~~~~~  497 (606)
T KOG0547|consen  422 SLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAI---ELEPREHL  497 (606)
T ss_pred             hcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHH---hhcccccc
Confidence            63   4556666767777889999999999999886 55567788888899999999999999999885   34444   


Q ss_pred             ------HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 039695          367 ------AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN  431 (605)
Q Consensus       367 ------~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  431 (605)
                            +.+.-.++..- -.+++..|.+++++.. ..|. ....|.+|...-.+.|+.++|+++|++...+-
T Consensus       498 ~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~lA  567 (606)
T KOG0547|consen  498 IIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQLA  567 (606)
T ss_pred             ccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence                  22222222222 3489999999998854 4443 35689999999999999999999999988764

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.16  E-value=1.8e-06  Score=85.95  Aligned_cols=433  Identities=12%  Similarity=0.071  Sum_probs=255.9

Q ss_pred             hhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChhHHHHHHHHHHHhCCCCchHHHHH--HHHHHH--cCCChhH
Q 039695            5 LTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNH--LINCYV--RLKKTQV   80 (605)
Q Consensus         5 l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--li~~~~--~~g~~~~   80 (605)
                      ..+++++++|++....+...+ .-|.+.+..-+-+..+.......+..+...+..   .+++.  +=.+||  +.+..++
T Consensus        22 ~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~---~~~~~~~fEKAYc~Yrlnk~De   97 (652)
T KOG2376|consen   22 HGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL---LVINSFFFEKAYCEYRLNKLDE   97 (652)
T ss_pred             hccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh---hhcchhhHHHHHHHHHcccHHH
Confidence            456889999999999988765 334455555555666666666556555444421   12222  234454  7789999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCC
Q 039695           81 ARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWP-NEFTFATVIKACSMLADLITGKQIHTHIETFGF  159 (605)
Q Consensus        81 A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  159 (605)
                      |...++....-+...-..-...+-+.|++++|+++|+.+.+.+..- |...-..++.+-..    ..+.    .+.....
T Consensus        98 alk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~~----~~q~v~~  169 (652)
T KOG2376|consen   98 ALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQVQ----LLQSVPE  169 (652)
T ss_pred             HHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhHH----HHHhccC
Confidence            9999996655555566666677788999999999999998875431 11112222221111    1111    1222222


Q ss_pred             CC--chhHHHHHHHHHHhCCCHHHHHHHHhhc--------CCCC-----hh-----hHHHHHHHHHHcCChhHHHHHHHH
Q 039695          160 QY--NLVVCSSLVDMYGKCNDVDGARRVFDLM--------GCRN-----VV-----SWTSIIVAHAQNAQGHEALEMFRE  219 (605)
Q Consensus       160 ~~--~~~~~~~Li~~y~~~g~~~~A~~~~~~m--------~~~~-----~~-----~~~~li~~~~~~g~~~~A~~~~~~  219 (605)
                      .|  +-..+-.....++..|++.+|+++++..        .+.|     ..     .---|.-.+...|+-.+|.++|..
T Consensus       170 v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~  249 (652)
T KOG2376|consen  170 VPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVD  249 (652)
T ss_pred             CCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            22  1122222445677899999999999876        1111     11     111244556778999999999999


Q ss_pred             HHHcCCCCCChhHHHhHHH---hhcccCchhh--HHHHHHH-----------HHHhCCCCcHhHHHHHHHHHHhcCCHHH
Q 039695          220 FNYQSRDRPNQHMLASVIN---ACASLGRLVS--GKVAHGV-----------VVRSGCEFNDVVASALVDMYAKCGSVNY  283 (605)
Q Consensus       220 m~~~~~~~p~~~t~~~ll~---a~~~~~~~~~--a~~~~~~-----------~~~~g~~~~~~~~~~li~~y~~~g~~~~  283 (605)
                      .+...  .+|........+   +...-..+-.  ....++.           +....-......-+.|+.+|.  +..+.
T Consensus       250 ~i~~~--~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q  325 (652)
T KOG2376|consen  250 IIKRN--PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQ  325 (652)
T ss_pred             HHHhc--CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHH
Confidence            98875  566644333322   2222222211  1111111           111111122334455666664  45567


Q ss_pred             HHHHHhccCCCC-cchHHHHHHHHH--HcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHH-----
Q 039695          284 SDKVFNRISNPS-VVTYTSMIVGAA--KYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLD-----  355 (605)
Q Consensus       284 A~~~~~~~~~~~-~~~~~~li~~~~--~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~-----  355 (605)
                      ++++-...+... ...+.+++....  +...+.+|.+++...-+....-........+.-....|+++.|.+++.     
T Consensus       326 ~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~  405 (652)
T KOG2376|consen  326 VRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLES  405 (652)
T ss_pred             HHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence            777777776432 334444444332  223467788887777664222223444455556677899999999998     


Q ss_pred             ---HHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHh--------CCCCCCchhhHHHHHHHHHHHcCChHHHHHHH
Q 039695          356 ---SMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKS--------IQVDPDGGPLLWGTLLSASRLHGRVDIAVEAS  424 (605)
Q Consensus       356 ---~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~--------m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~  424 (605)
                         .+ .+.+..|.  +-.+++.++.+.+.-+.|..++.+        +...+. -..+|.-+...-.++|+.++|...+
T Consensus       406 ~~ss~-~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~-l~~~~~~aa~f~lr~G~~~ea~s~l  481 (652)
T KOG2376|consen  406 WKSSI-LEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIA-LLSLMREAAEFKLRHGNEEEASSLL  481 (652)
T ss_pred             hhhhh-hhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchH-HHhHHHHHhHHHHhcCchHHHHHHH
Confidence               44 33344444  445678888888776655555443        222222 1234555555566789999999999


Q ss_pred             HHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHH
Q 039695          425 NQLIESNQQVANAYVTLSNTYALAGEWENVHSLR  458 (605)
Q Consensus       425 ~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~  458 (605)
                      +++.+.+|++..+...++.+|++. +.+.|..+-
T Consensus       482 eel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~  514 (652)
T KOG2376|consen  482 EELVKFNPNDTDLLVQLVTAYARL-DPEKAESLS  514 (652)
T ss_pred             HHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHh
Confidence            999999999999999999999886 455555543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.12  E-value=2e-08  Score=94.43  Aligned_cols=191  Identities=10%  Similarity=0.016  Sum_probs=103.5

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 039695           93 VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDM  172 (605)
Q Consensus        93 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~  172 (605)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.++...+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            3455566666666666666666666665532 1134455555666666666776766666666554 3344555566666


Q ss_pred             HHhCCCHHHHHHHHhhcCC-----CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchh
Q 039695          173 YGKCNDVDGARRVFDLMGC-----RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLV  247 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~  247 (605)
                      |...|++++|.+.|++...     .....|..+...+...|++++|...|.+.....  +.+...+..+...+...|+++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCChHHHHHHHHHHHHcCCHH
Confidence            6666666666666666532     122345555566666666666666666665432  222334444444455555555


Q ss_pred             hHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHH
Q 039695          248 SGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVF  288 (605)
Q Consensus       248 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  288 (605)
                      +|...+....+. .+.+...+..+...+.+.|+.++|..+.
T Consensus       187 ~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~  226 (234)
T TIGR02521       187 DARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYG  226 (234)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            555555544443 1223333333444444444444444433

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.10  E-value=8.7e-09  Score=109.53  Aligned_cols=213  Identities=13%  Similarity=0.036  Sum_probs=162.7

Q ss_pred             CchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHH---------hcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCC
Q 039695          244 GRLVSGKVAHGVVVRSGCEFNDVVASALVDMYA---------KCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGL  311 (605)
Q Consensus       244 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~---------~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  311 (605)
                      +.+++|...+...++.. +.+...+..+...|.         ..+++++|...+++..+   .+...|..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            34678889999888764 334556666665554         23457899999998875   355678888888999999


Q ss_pred             hhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHH
Q 039695          312 GRFSLDLFNEMISRGIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKL  389 (605)
Q Consensus       312 ~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~  389 (605)
                      +++|...|++..+.  .|+ ...+..+..++...|++++|...++...   .+.|+ ...+..+...+...|++++|...
T Consensus       354 ~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al---~l~P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        354 YIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECL---KLDPTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCCCChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999985  444 5667778888999999999999999886   45665 23333445557778999999999


Q ss_pred             HHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          390 AKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       390 ~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +++.. ..|+..+..+..+..++...|+.++|...++++....|.+......+...|...|  +.|...++.+.+.
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            98753 2222235667888888999999999999999988888887777888888888888  4788877777653

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.07  E-value=8.1e-09  Score=94.80  Aligned_cols=231  Identities=12%  Similarity=0.091  Sum_probs=161.5

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHh
Q 039695          198 TSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAK  277 (605)
Q Consensus       198 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  277 (605)
                      +-|..+|.+.|.+.+|.+.|+.-...   .|-..||..+-.+|.+..+++.|..++.+-++.- +-|+.........+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHH
Confidence            45667777778888887777776653   4566667777777777777777777766665542 4444444455566666


Q ss_pred             cCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 039695          278 CGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHL  354 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~  354 (605)
                      .++.++|.++++...+   .|+.+...+..+|.-.++++-|+.+|+++.+.|+. +...|+.+.-+|.-.+++|.++.-|
T Consensus       303 m~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            6777777777776654   34455555666677777777777777777777766 5566666666776667766666655


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 039695          355 DSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       355 ~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      ......                                + ..|+....+|-.|.......||+..|.+.|+-.+..+|++
T Consensus       382 ~RAlst--------------------------------a-t~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h  428 (478)
T KOG1129|consen  382 QRALST--------------------------------A-TQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQH  428 (478)
T ss_pred             HHHHhh--------------------------------c-cCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcch
Confidence            544211                                1 1233335577777777778899999999999999999999


Q ss_pred             CchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          435 ANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       435 ~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..+++.|+-.-.+.|+.++|..+++...+...
T Consensus       429 ~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  429 GEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            99999999999999999999999988776544

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.07  E-value=1.2e-05  Score=80.94  Aligned_cols=439  Identities=12%  Similarity=0.091  Sum_probs=239.8

Q ss_pred             CCCChhhHHHHHHHhhChhHH---HHHHHHHHHhCCC------------CchHHHHHHHHHHHcCCChhHHHHHHhcCCC
Q 039695           26 SCHTKAHFIQQLQECKHLISL---ASVHSEILKSGFL------------SNTFTLNHLINCYVRLKKTQVARQLFDEMLE   90 (605)
Q Consensus        26 ~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~------------~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~   90 (605)
                      +..+..||...|++......-   .-....+.+.|++            .++..-+-.|..+++.+++++|.+.+..+..
T Consensus       118 iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln  197 (835)
T KOG2047|consen  118 ITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLN  197 (835)
T ss_pred             HHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcC
Confidence            445667777777766443321   2222222333332            2344455667778888999998888887743


Q ss_pred             ----------CChhhHHHHHHHHHhcCChhH---HHHHHHHHHhCCCCCCh--hhHHHHHHHHhccCChHHHHHHHHHHH
Q 039695           91 ----------PNVVSYTSLMAGYINMGQPQI---ALLLFQKMLGNLVWPNE--FTFATVIKACSMLADLITGKQIHTHIE  155 (605)
Q Consensus        91 ----------~~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~g~~pd~--~t~~~ll~a~~~~~~~~~a~~~~~~~~  155 (605)
                                .+-..|+-+-...+++.+.-.   .-.+++.+..  .-+|.  ..|.+|.+-|.+.|.++.|..++++.+
T Consensus       198 ~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai  275 (835)
T KOG2047|consen  198 QDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAI  275 (835)
T ss_pred             chhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence                      233456666666666544332   2333444333  23443  357777888888888888888887776


Q ss_pred             HhCCCCchhHHHHHHHHHHhC----------------C------CHHHHHHHHhhcCC---------------CChhhHH
Q 039695          156 TFGFQYNLVVCSSLVDMYGKC----------------N------DVDGARRVFDLMGC---------------RNVVSWT  198 (605)
Q Consensus       156 ~~g~~~~~~~~~~Li~~y~~~----------------g------~~~~A~~~~~~m~~---------------~~~~~~~  198 (605)
                      ..-  ..+.-++.+.+.|+.-                |      +++-...-|+.+..               .++..|.
T Consensus       276 ~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~  353 (835)
T KOG2047|consen  276 QTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWH  353 (835)
T ss_pred             Hhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHH
Confidence            642  2333344444444321                1      12223333333322               1223333


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCCh------hHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCc---HhHHH
Q 039695          199 SIIVAHAQNAQGHEALEMFREFNYQSRDRPNQ------HMLASVINACASLGRLVSGKVAHGVVVRSGCEFN---DVVAS  269 (605)
Q Consensus       199 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~------~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~  269 (605)
                      .-+.  ...|++.+-...|.+....  +.|-.      ..+..+.+-|-..|+++.|+.+|+...+...+.-   ..+|.
T Consensus       354 kRV~--l~e~~~~~~i~tyteAv~~--vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~  429 (835)
T KOG2047|consen  354 KRVK--LYEGNAAEQINTYTEAVKT--VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWC  429 (835)
T ss_pred             hhhh--hhcCChHHHHHHHHHHHHc--cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHH
Confidence            2222  2345566666666666543  33321      2455666667777777777777777776543322   34555


Q ss_pred             HHHHHHHhcCCHHHHHHHHhccCC-C--------------------CcchHHHHHHHHHHcCC-----------------
Q 039695          270 ALVDMYAKCGSVNYSDKVFNRISN-P--------------------SVVTYTSMIVGAAKYGL-----------------  311 (605)
Q Consensus       270 ~li~~y~~~g~~~~A~~~~~~~~~-~--------------------~~~~~~~li~~~~~~g~-----------------  311 (605)
                      .-.++-.+..+++.|.++.++... |                    +...|...+.---..|-                 
T Consensus       430 ~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria  509 (835)
T KOG2047|consen  430 AWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA  509 (835)
T ss_pred             HHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC
Confidence            555666666667777766665431 1                    11123333322222333                 


Q ss_pred             -----------------hhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHh---ccCcHHHHHHHHHHHHHhcCCCCcH--H
Q 039695          312 -----------------GRFSLDLFNEMISRGIKPNDV-TFVGVLHACS---HSGLVDEGIQHLDSMYRKYGIIPDA--K  368 (605)
Q Consensus       312 -----------------~~~A~~l~~~m~~~g~~pd~~-t~~~ll~a~~---~~g~~~~a~~~~~~m~~~~~~~p~~--~  368 (605)
                                       ++++.+.|++=+..=..|+.. .|+..|.-+.   ....++.|..+|++.++  +.+|..  .
T Consensus       510 TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~--~Cpp~~aKt  587 (835)
T KOG2047|consen  510 TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD--GCPPEHAKT  587 (835)
T ss_pred             CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh--cCCHHHHHH
Confidence                             334444443322221123332 3333333332   23468899999998864  555542  1


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc--hHHHHHHH
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ--VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN--AYVTLSNT  444 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~--~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~--~~~~l~~~  444 (605)
                      .|-.....=-+.|....|++++++..  .++......||..|.-....=-+.....+|+++++.-|+...  ...-.+++
T Consensus       588 iyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdl  667 (835)
T KOG2047|consen  588 IYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADL  667 (835)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            22222222234688888999998864  333323457888776655554566778899999998776543  33345677


Q ss_pred             HHhcCChhHHHHHHHHHHhCCCccCCceeE
Q 039695          445 YALAGEWENVHSLRSEMKRTGIHKEPGCSW  474 (605)
Q Consensus       445 y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  474 (605)
                      -.+.|..+.|..++.--.+---+...+-.|
T Consensus       668 EtklGEidRARaIya~~sq~~dPr~~~~fW  697 (835)
T KOG2047|consen  668 ETKLGEIDRARAIYAHGSQICDPRVTTEFW  697 (835)
T ss_pred             hhhhhhHHHHHHHHHhhhhcCCCcCChHHH
Confidence            788999999999987665543333333344

>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.05  E-value=2.4e-07  Score=91.61  Aligned_cols=278  Identities=8%  Similarity=0.004  Sum_probs=208.9

Q ss_pred             CCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHh
Q 039695          159 FQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCR---NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLAS  235 (605)
Q Consensus       159 ~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~  235 (605)
                      +..++.+.-...+-+..++++.+..++++..-+.   ....+..-|.++...|+..+-..+=.++.+.-  +-.+.+|-+
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y--P~~a~sW~a  317 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY--PSKALSWFA  317 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC--CCCCcchhh
Confidence            3456666667777788899999999999988764   44456667888999999988888888887753  556788988


Q ss_pred             HHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCCh
Q 039695          236 VINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLG  312 (605)
Q Consensus       236 ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~  312 (605)
                      +.--|...|...+|++.+....... +.-...|-.+...|+-.|.-+.|...+....+   ..-..+--+..-|.+.++.
T Consensus       318 Vg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~  396 (611)
T KOG1173|consen  318 VGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNL  396 (611)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccH
Confidence            8888888899999999998876543 22345777888889988988888877665442   1111122234457788999


Q ss_pred             hHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC-C---CC-cHHHHHHHHHHHhhcCCHHHH
Q 039695          313 RFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYG-I---IP-DAKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       313 ~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~-~---~p-~~~~~~~li~~~~~~g~~~~A  386 (605)
                      +-|.++|.+...  +-| |+...+-+.-..-..+.+.+|..+|+..+..-. +   .+ ...+++.|..+|.+++++++|
T Consensus       397 kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  397 KLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            999999998876  444 556666665555667899999999987752110 1   11 345688899999999999999


Q ss_pred             HHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHH
Q 039695          387 YKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLS  442 (605)
Q Consensus       387 ~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  442 (605)
                      +..+++.. ..|. +..++.++.-.+...|+++.|...|.+.+.+.|++..+-..|.
T Consensus       475 I~~~q~aL~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  475 IDYYQKALLLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             HHHHHHHHHcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            99999843 3332 3889999999999999999999999999999999865544443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.04  E-value=1.9e-05  Score=79.55  Aligned_cols=395  Identities=11%  Similarity=0.033  Sum_probs=236.3

Q ss_pred             chHHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCC------CCCChhhHHHH
Q 039695           61 NTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNL------VWPNEFTFATV  134 (605)
Q Consensus        61 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g------~~pd~~t~~~l  134 (605)
                      ...+|...+......|-++.+.+++++..+-++..-+--|..++..+++++|.+.+...+...      .+-+...|.-+
T Consensus       137 H~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~el  216 (835)
T KOG2047|consen  137 HDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLEL  216 (835)
T ss_pred             hccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHH
Confidence            344666667777777777788888887777666667777788888888888877777665431      12233344444


Q ss_pred             HHHHhccCChHHHH---HHHHHHHHhCCCCc--hhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CChhhHHHHHHHHHHc
Q 039695          135 IKACSMLADLITGK---QIHTHIETFGFQYN--LVVCSSLVDMYGKCNDVDGARRVFDLMGC--RNVVSWTSIIVAHAQN  207 (605)
Q Consensus       135 l~a~~~~~~~~~a~---~~~~~~~~~g~~~~--~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~  207 (605)
                      -...++..+.-...   .+++..+..  -+|  ...|++|.+-|.+.|.++.|..+|++...  -.+.-++.+-.+|++-
T Consensus       217 cdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~F  294 (835)
T KOG2047|consen  217 CDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQF  294 (835)
T ss_pred             HHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHH
Confidence            44444333322222   222222221  122  35789999999999999999999987543  2222333333333321


Q ss_pred             ----------------CC------hhHHHHHHHHHHHcCCC----------CCChhHHHhHHHhhcccCchhhHHHHHHH
Q 039695          208 ----------------AQ------GHEALEMFREFNYQSRD----------RPNQHMLASVINACASLGRLVSGKVAHGV  255 (605)
Q Consensus       208 ----------------g~------~~~A~~~~~~m~~~~~~----------~p~~~t~~~ll~a~~~~~~~~~a~~~~~~  255 (605)
                                      |+      .+-.+.-|+.+....+.          +-+..++..-..  ...|+..+-...+.+
T Consensus       295 EE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyte  372 (835)
T KOG2047|consen  295 EESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTE  372 (835)
T ss_pred             HHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHH
Confidence                            11      22233333333322211          111222222221  223445555566666


Q ss_pred             HHHhC-----CCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcc-------hHHHHHHHHHHcCChhHHHHHHHHHH
Q 039695          256 VVRSG-----CEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVV-------TYTSMIVGAAKYGLGRFSLDLFNEMI  323 (605)
Q Consensus       256 ~~~~g-----~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~-------~~~~li~~~~~~g~~~~A~~l~~~m~  323 (605)
                      +++.=     ...-...|..+.+.|-..|+++.|+.+|++..+-+-.       +|-.-...=.++.+++.|+.+.+...
T Consensus       373 Av~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~  452 (835)
T KOG2047|consen  373 AVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRAT  452 (835)
T ss_pred             HHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhh
Confidence            66531     1112347888999999999999999999998874433       34444444556788999999887765


Q ss_pred             Hc----------C-CCC------CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHH
Q 039695          324 SR----------G-IKP------NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDE  385 (605)
Q Consensus       324 ~~----------g-~~p------d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~  385 (605)
                      ..          | .++      +...|...++.--..|-++....+++.+..-.-..|. +..|   ...+-....+++
T Consensus       453 ~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~Ny---AmfLEeh~yfee  529 (835)
T KOG2047|consen  453 HVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINY---AMFLEEHKYFEE  529 (835)
T ss_pred             cCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHH---HHHHHhhHHHHH
Confidence            32          1 111      1123444455445567888888899988644333454 2233   333556778999


Q ss_pred             HHHHHHhC-C-CCCCchhhHHHHHHHHHHH---cCChHHHHHHHHHHHhcCCCCCc--hHHHHHHHHHhcCChhHHHHHH
Q 039695          386 AYKLAKSI-Q-VDPDGGPLLWGTLLSASRL---HGRVDIAVEASNQLIESNQQVAN--AYVTLSNTYALAGEWENVHSLR  458 (605)
Q Consensus       386 A~~~~~~m-~-~~p~~~~~~~~~ll~~~~~---~g~~~~a~~~~~~~~~~~p~~~~--~~~~l~~~y~~~g~~~~a~~~~  458 (605)
                      +.+++++- + ++++.....|++.+.-+.+   ....+.|..+|+++++.-|+...  .|...+..-.+-|.-..|..++
T Consensus       530 sFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiy  609 (835)
T KOG2047|consen  530 SFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDGCPPEHAKTIYLLYAKLEEEHGLARHAMSIY  609 (835)
T ss_pred             HHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            99999983 3 4554345589988776643   23689999999999997775433  3334444445567788888888


Q ss_pred             HHHH
Q 039695          459 SEMK  462 (605)
Q Consensus       459 ~~m~  462 (605)
                      ++..
T Consensus       610 erat  613 (835)
T KOG2047|consen  610 ERAT  613 (835)
T ss_pred             HHHH
Confidence            8753

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.02  E-value=3.5e-08  Score=96.00  Aligned_cols=213  Identities=12%  Similarity=0.096  Sum_probs=132.9

Q ss_pred             chhhHHHHHHHHHHhC-CCC--cHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHH
Q 039695          245 RLVSGKVAHGVVVRSG-CEF--NDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDL  318 (605)
Q Consensus       245 ~~~~a~~~~~~~~~~g-~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l  318 (605)
                      ..+.+..-+..++... ..|  ....+..+...|.+.|+.++|...|++..+   .+...|+.+...|...|++++|...
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~  120 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEA  120 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4444555555555322 122  234566667777888888888888877653   3456788888888888888888888


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC
Q 039695          319 FNEMISRGIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDP  397 (605)
Q Consensus       319 ~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  397 (605)
                      |++..+  +.|+ ..++..+..++...|++++|.+.|+...+   ..|+..........+...+++++|.+.+++.....
T Consensus       121 ~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        121 FDSVLE--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            888876  3443 45667777777788888888888887753   35543222222223445677888888885532111


Q ss_pred             CchhhHHHHHHHHHHHcCChHHHHHHHHHHH-------hcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          398 DGGPLLWGTLLSASRLHGRVDIAVEASNQLI-------ESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       398 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +  +..|.. .......|+...+ +.++.+.       ++.|..+.+|..++..|.+.|++++|...|++..+.++
T Consensus       196 ~--~~~~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        196 D--KEQWGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             C--ccccHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            1  122321 2222335555443 2444443       34455667888888888888888888888888876554

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.00  E-value=4.1e-08  Score=86.28  Aligned_cols=163  Identities=16%  Similarity=0.136  Sum_probs=142.1

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDM  376 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~  376 (605)
                      ...|.-+|.+.|+...|.+-+++.++.  .| +..++..+...|...|..+.|.+.|+..+   .+.|+ ..+.|....-
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl---sl~p~~GdVLNNYG~F  112 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKAL---SLAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHH---hcCCCccchhhhhhHH
Confidence            445667899999999999999999885  34 45688888899999999999999999886   66776 7788888999


Q ss_pred             HhhcCCHHHHHHHHHhCCCCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHH
Q 039695          377 LGRTGRLDEAYKLAKSIQVDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENV  454 (605)
Q Consensus       377 ~~~~g~~~~A~~~~~~m~~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a  454 (605)
                      +|..|++++|...|++....|.  ....+|..+.-+..+.|+.+.|...+++.++.+|+.+.+...+.....+.|++-.|
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHH
Confidence            9999999999999998654543  12568999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCC
Q 039695          455 HSLRSEMKRTGI  466 (605)
Q Consensus       455 ~~~~~~m~~~~~  466 (605)
                      ...++....++.
T Consensus       193 r~~~~~~~~~~~  204 (250)
T COG3063         193 RLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHhccc
Confidence            999999988776

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.99  E-value=1.4e-06  Score=88.72  Aligned_cols=237  Identities=12%  Similarity=0.144  Sum_probs=143.3

Q ss_pred             hHHHHHHHHHHhCCCHHHHHHHHhhcCC----------CChh-hHHHHHHHHHHcCChhHHHHHHHHHHHc-----CCCC
Q 039695          164 VVCSSLVDMYGKCNDVDGARRVFDLMGC----------RNVV-SWTSIIVAHAQNAQGHEALEMFREFNYQ-----SRDR  227 (605)
Q Consensus       164 ~~~~~Li~~y~~~g~~~~A~~~~~~m~~----------~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~~~  227 (605)
                      .+..-|..+|...|+++.|..+|+...+          +.+. ..+.+...|...+++++|..+|+++...     |...
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            4455567777777777777777765432          2222 2234566778888888888888887532     1111


Q ss_pred             CC-hhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC---CCCcc-hHHHH
Q 039695          228 PN-QHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS---NPSVV-TYTSM  302 (605)
Q Consensus       228 p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~-~~~~l  302 (605)
                      |. ..|+..+..+|.+.|++++|...++.+.+                            +++...   .+.+. .++.+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~----------------------------I~~~~~~~~~~~v~~~l~~~  331 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALE----------------------------IYEKLLGASHPEVAAQLSEL  331 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHH----------------------------HHHHhhccChHHHHHHHHHH
Confidence            11 12233333344444444444444433322                            111100   01111 23445


Q ss_pred             HHHHHHcCChhHHHHHHHHHHH---cCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHHHHhc----C-CCCc-HHH
Q 039695          303 IVGAAKYGLGRFSLDLFNEMIS---RGIKPND----VTFVGVLHACSHSGLVDEGIQHLDSMYRKY----G-IIPD-AKH  369 (605)
Q Consensus       303 i~~~~~~g~~~~A~~l~~~m~~---~g~~pd~----~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~----~-~~p~-~~~  369 (605)
                      ...+...+++++|..++++..+   .-+.++.    .+++.|...+...|++++|.++|++.+...    + ..+. ...
T Consensus       332 ~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~  411 (508)
T KOG1840|consen  332 AAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKP  411 (508)
T ss_pred             HHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHH
Confidence            5556666777777777665443   1123333    467788888888888888888888776543    1 1222 556


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC--------CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQ--------VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~--------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      ++.|...|.+.++.++|.++|.+..        ..|+ ...+|..|...|...|+++.|+++.+.+..
T Consensus       412 l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~-~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  412 LNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPD-VTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCc-hHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            7778888888888888888876532        2233 345899999999999999999999988873

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.98  E-value=1.9e-08  Score=92.35  Aligned_cols=197  Identities=12%  Similarity=0.131  Sum_probs=161.6

Q ss_pred             cHhHHHHHHHHHHhcCCHHHHHHHHhccC--CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHH-HHHHH
Q 039695          264 NDVVASALVDMYAKCGSVNYSDKVFNRIS--NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFV-GVLHA  340 (605)
Q Consensus       264 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~-~ll~a  340 (605)
                      |-.--+-+...|.+.|.+.+|++.|+.-.  .|-+.||-.|-..|.+..++..|+.+|.+-.+  ..|-.+||. ...+.
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARI  299 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHH
Confidence            33344567888999999999999998776  37888999999999999999999999998887  456666654 56667


Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCchhhHHHHHHHHHHHcCCh
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQV--DPDGGPLLWGTLLSASRLHGRV  417 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~p~~~~~~~~~ll~~~~~~g~~  417 (605)
                      +...++.++|.++++...+   ..| +++...|+...|.-.++++-|+.+++++..  ..+  +..|+.+.-+|.-.+++
T Consensus       300 ~eam~~~~~a~~lYk~vlk---~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~s--peLf~NigLCC~yaqQ~  374 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLK---LHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQS--PELFCNIGLCCLYAQQI  374 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHh---cCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCC--hHHHhhHHHHHHhhcch
Confidence            7788999999999998864   344 478888888999999999999999987531  224  78999999999999999


Q ss_pred             HHHHHHHHHHHhcC--CC-CCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          418 DIAVEASNQLIESN--QQ-VANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       418 ~~a~~~~~~~~~~~--p~-~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      +.++..|++++...  |+ -..+|..|+......|++.-|.+.|+.....+..
T Consensus       375 D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~  427 (478)
T KOG1129|consen  375 DLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ  427 (478)
T ss_pred             hhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc
Confidence            99999999998753  32 2458999999999999999999999988765543

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.91  E-value=5.5e-07  Score=87.66  Aligned_cols=220  Identities=12%  Similarity=0.017  Sum_probs=133.6

Q ss_pred             ChhHHHHHHHHHHHcCCCCCC--hhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHH
Q 039695          209 QGHEALEMFREFNYQSRDRPN--QHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDK  286 (605)
Q Consensus       209 ~~~~A~~~~~~m~~~~~~~p~--~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~  286 (605)
                      ..+.++.-+.++.......|+  ...|......+...|+.++|...+...++.. +.+...++.+...|...|++++|..
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            344445555554433212222  1234444445555666666666666665544 4456777778888888888888888


Q ss_pred             HHhccCC--C-CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCC
Q 039695          287 VFNRISN--P-SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGI  363 (605)
Q Consensus       287 ~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~  363 (605)
                      .|+...+  | +..+|..+...+...|++++|++.|++..+.  .|+..........+...++.++|...|.....  ..
T Consensus       120 ~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~~  195 (296)
T PRK11189        120 AFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--KL  195 (296)
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--hC
Confidence            8887754  3 3467777788888889999999999888874  44433222222223456788999988876532  22


Q ss_pred             CCcHHHHHHHHHHHhhcCCHHH--HHHHHHh-CCCCCC---chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          364 IPDAKHYTCVVDMLGRTGRLDE--AYKLAKS-IQVDPD---GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       364 ~p~~~~~~~li~~~~~~g~~~~--A~~~~~~-m~~~p~---~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                      .|+...+ .++..+  .|++.+  +.+.+.+ ....+.   .....|..+...+...|++++|+..|+++++.+|.+..
T Consensus       196 ~~~~~~~-~~~~~~--lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~  271 (296)
T PRK11189        196 DKEQWGW-NIVEFY--LGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFV  271 (296)
T ss_pred             CccccHH-HHHHHH--ccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHH
Confidence            3332222 233333  344433  3333322 111111   11457999999999999999999999999999976543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.90  E-value=4.4e-08  Score=97.07  Aligned_cols=221  Identities=15%  Similarity=0.109  Sum_probs=176.7

Q ss_pred             hcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCC---CcchHHHHHHHHHHcCChhHHH
Q 039695          240 CASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP---SVVTYTSMIVGAAKYGLGRFSL  316 (605)
Q Consensus       240 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~  316 (605)
                      +.+.|++.+|.-.|+..++.. |.+...|.-|.......++-..|+..+.+..+-   |....-+|...|...|.-.+|+
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            346788888888888888876 667888999999999999989999999888763   4456666777899999999999


Q ss_pred             HHHHHHHHcCCC--------CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHH
Q 039695          317 DLFNEMISRGIK--------PNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYK  388 (605)
Q Consensus       317 ~l~~~m~~~g~~--------pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  388 (605)
                      +.++.-+....+        ++..+-..  ..+.....+....++|-++....+..+|+.++.+|.-.|--.|.++.|.+
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            999988654211        01000000  12233334556667777776776767889999999999999999999999


Q ss_pred             HHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          389 LAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       389 ~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      -|+.. ..+|+ +..+||-|...++...+.++|+.+|.+++++.|.-..+...|+-.|...|.+++|.+.|-.....
T Consensus       452 cf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  452 CFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            99984 56675 47899999999999999999999999999999999999999999999999999999998877653

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.87  E-value=4.2e-05  Score=78.94  Aligned_cols=402  Identities=14%  Similarity=0.044  Sum_probs=243.9

Q ss_pred             CCCChhhH---HHHHHHhhChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCC----CChhhHHH
Q 039695           26 SCHTKAHF---IQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLE----PNVVSYTS   98 (605)
Q Consensus        26 ~~~~~~~~---~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~----~~~~~~~~   98 (605)
                      .+.+...|   ...+..|++...+.+.++.....- -.....|+.+-..|+.+|.-..|..+.+.-..    |+..+--.
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            44444443   444555555555555555554432 33567888888999999999999999987632    33333222


Q ss_pred             HH-HHHH-hcCChhHHHHHHHHHHhC--CCC--CChhhHHHHHHHHhcc-----------CChHHHHHHHHHHHHhCCCC
Q 039695           99 LM-AGYI-NMGQPQIALLLFQKMLGN--LVW--PNEFTFATVIKACSML-----------ADLITGKQIHTHIETFGFQY  161 (605)
Q Consensus        99 li-~~~~-~~g~~~~a~~~~~~m~~~--g~~--pd~~t~~~ll~a~~~~-----------~~~~~a~~~~~~~~~~g~~~  161 (605)
                      ++ ..|. +-+..++++++-.+....  +..  .....|-.+--+|...           ....++.+.++++++.+ +.
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-~~  476 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PT  476 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CC
Confidence            22 3333 346777887777766552  111  1223333333333221           12346777888888776 33


Q ss_pred             chhHHHHHHHHHHhCCCHHHHHHHHhhcC----CCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHH
Q 039695          162 NLVVCSSLVDMYGKCNDVDGARRVFDLMG----CRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVI  237 (605)
Q Consensus       162 ~~~~~~~Li~~y~~~g~~~~A~~~~~~m~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll  237 (605)
                      |+.+.--|.--|+..++++.|.+...+..    .-+...|.-+.-.+...+++.+|+.+.+.....-  .-|-.....-+
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 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF--GDNHVLMDGKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh--hhhhhhchhhh
Confidence            44443344456788899999988877653    3678899999999999999999999998766532  11111111111


Q ss_pred             HhhcccCchhhHHHHHHHHHH---------------------hCC-------CCcHhHHHHHHHHHH---hcCCHHHHHH
Q 039695          238 NACASLGRLVSGKVAHGVVVR---------------------SGC-------EFNDVVASALVDMYA---KCGSVNYSDK  286 (605)
Q Consensus       238 ~a~~~~~~~~~a~~~~~~~~~---------------------~g~-------~~~~~~~~~li~~y~---~~g~~~~A~~  286 (605)
                      +.-...++.+++......+..                     .|+       ...+.++..+.....   +.-..+....
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            111112333332222211111                     111       011222222222211   1111111112


Q ss_pred             HHhccCCCCc------chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 039695          287 VFNRISNPSV------VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRK  360 (605)
Q Consensus       287 ~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  360 (605)
                      .+...+.|+.      ..|......+.+.++.++|...+.+.... .+-....|......+...|..++|.+.|....  
T Consensus       635 ~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al--  711 (799)
T KOG4162|consen  635 SSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL--  711 (799)
T ss_pred             cccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH--
Confidence            2222222332      24556667788899999999888887764 23344555555566777899999999988664  


Q ss_pred             cCCCCc-HHHHHHHHHHHhhcCCHHHHHH--HHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          361 YGIIPD-AKHYTCVVDMLGRTGRLDEAYK--LAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       361 ~~~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                       -+.|+ +...+++..++.+.|+..-|..  ++..+ ...|+ +...|-.|...+.+.|+.+.|.+.|..+.++++.+|.
T Consensus       712 -~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~-n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  712 -ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPL-NHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             -hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence             67887 7888999999999998777776  77664 45554 4889999999999999999999999999999877664

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.86  E-value=6.3e-05  Score=76.17  Aligned_cols=382  Identities=12%  Similarity=0.014  Sum_probs=215.4

Q ss_pred             HcCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhccCChHHHH
Q 039695           73 VRLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPN-EFTFATVIKACSMLADLITGK  148 (605)
Q Consensus        73 ~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~  148 (605)
                      ...|+-++|......-..   .+.+.|..+--.+-...++++|++.|......  .|| ...+.-+--.-+..++++...
T Consensus        52 ~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~--~~dN~qilrDlslLQ~QmRd~~~~~  129 (700)
T KOG1156|consen   52 NCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKI--EKDNLQILRDLSLLQIQMRDYEGYL  129 (700)
T ss_pred             hcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHHHhhhhHH
Confidence            345777777777765543   35566777777776777788888888877764  343 334443333344556666666


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC-----CChhhHHHH------HHHHHHcCChhHHHHHH
Q 039695          149 QIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC-----RNVVSWTSI------IVAHAQNAQGHEALEMF  217 (605)
Q Consensus       149 ~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~-----~~~~~~~~l------i~~~~~~g~~~~A~~~~  217 (605)
                      ..-..+.+.. +.....|..+.-++.-.|+...|..+.++...     ++...+.-.      .....+.|..++|++.+
T Consensus       130 ~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L  208 (700)
T KOG1156|consen  130 ETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHL  208 (700)
T ss_pred             HHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            6555555432 33445566677777777777777777665432     333333222      23345667777777766


Q ss_pred             HHHHHcCCCCCChhHH-HhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHH-HHHhccCC--
Q 039695          218 REFNYQSRDRPNQHML-ASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSD-KVFNRISN--  293 (605)
Q Consensus       218 ~~m~~~~~~~p~~~t~-~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~-~~~~~~~~--  293 (605)
                      ..-...   ..|...+ ..-...+.+.+++++|..++..++... |.+...|-.+..++++--+.-++. .+|....+  
T Consensus       209 ~~~e~~---i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn-Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y  284 (700)
T KOG1156|consen  209 LDNEKQ---IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN-PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY  284 (700)
T ss_pred             HhhhhH---HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC-chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC
Confidence            654321   1222222 233344566777777777777777664 334444444555554333333333 55554432  


Q ss_pred             CCcchHHHHHHHHHH-cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHH----HHHHHHHHHHhcC------
Q 039695          294 PSVVTYTSMIVGAAK-YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDE----GIQHLDSMYRKYG------  362 (605)
Q Consensus       294 ~~~~~~~~li~~~~~-~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~----a~~~~~~m~~~~~------  362 (605)
                      |-...-.-+--.... ..-.+..-+++..+.+.|+++--..+.++   +-.....+-    +..+...+ ...|      
T Consensus       285 ~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SL---yk~p~k~~~le~Lvt~y~~~L-~~~~~f~~~D  360 (700)
T KOG1156|consen  285 PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSL---YKDPEKVAFLEKLVTSYQHSL-SGTGMFNFLD  360 (700)
T ss_pred             cccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHH---HhchhHhHHHHHHHHHHHhhc-ccccCCCccc
Confidence            000000000000111 11233344566677777877533333332   222111111    11111111 1111      


Q ss_pred             ----CCCcH--HHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          363 ----IIPDA--KHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       363 ----~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                          -+|+.  -++-.++..+-+.|+++.|...++... -.|+ -+..|..-...+...|++++|...++++.+++-.|.
T Consensus       361 ~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPT-liEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR  439 (700)
T KOG1156|consen  361 DGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPT-LIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADR  439 (700)
T ss_pred             ccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCch-HHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhH
Confidence                13453  345567888899999999999998754 3343 233565666778889999999999999999986654


Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          436 NAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..-.--+.-..++.+.++|.++.....+.|.
T Consensus       440 ~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  440 AINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            3322344555688999999999998887774

>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=98.85  E-value=1.2e-06  Score=90.22  Aligned_cols=256  Identities=11%  Similarity=0.025  Sum_probs=156.4

Q ss_pred             HHHHhCCCHHHHHHHHhhcCC--CChhhHH-HHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhc-cc---
Q 039695          171 DMYGKCNDVDGARRVFDLMGC--RNVVSWT-SIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACA-SL---  243 (605)
Q Consensus       171 ~~y~~~g~~~~A~~~~~~m~~--~~~~~~~-~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~-~~---  243 (605)
                      ..+...|++++|++.++.-..  .|..+|. .....+.+.|+.++|..+|+.+...+   |+...|-..+..+. ..   
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN---Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN---PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHhhhccc
Confidence            445667777777777766543  4444443 44556667777777777777777654   55444444433332 11   


Q ss_pred             --CchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCCh-hHHHHHHH
Q 039695          244 --GRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLG-RFSLDLFN  320 (605)
Q Consensus       244 --~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~l~~  320 (605)
                        ...+....+++.+...-                                 |.......+.-.+.....+ ..+..++.
T Consensus        89 ~~~~~~~~~~~y~~l~~~y---------------------------------p~s~~~~rl~L~~~~g~~F~~~~~~yl~  135 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY---------------------------------PRSDAPRRLPLDFLEGDEFKERLDEYLR  135 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC---------------------------------ccccchhHhhcccCCHHHHHHHHHHHHH
Confidence              12233333333332221                                 1111111111111111111 23445566


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc-------------CCCCcH--HHHHHHHHHHhhcCCHHH
Q 039695          321 EMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKY-------------GIIPDA--KHYTCVVDMLGRTGRLDE  385 (605)
Q Consensus       321 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~-------------~~~p~~--~~~~~li~~~~~~g~~~~  385 (605)
                      .+...|+++   +|..|-.-|......+-..+++.......             .-.|+.  -++.-+...|.+.|++++
T Consensus       136 ~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~  212 (517)
T PF12569_consen  136 PQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEK  212 (517)
T ss_pred             HHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHH
Confidence            677777764   45555555555555555555555443221             112443  344666788889999999


Q ss_pred             HHHHHHh-CCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          386 AYKLAKS-IQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       386 A~~~~~~-m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      |++++++ +...|. .+..|..-...+...|++++|.+.++.+.++++.|-..-.-.+..+.++|+.++|.++.......
T Consensus       213 Al~~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~  291 (517)
T PF12569_consen  213 ALEYIDKAIEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTRE  291 (517)
T ss_pred             HHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCC
Confidence            9999987 445555 35688888999999999999999999999999988777777778888999999999999998877


Q ss_pred             CC
Q 039695          465 GI  466 (605)
Q Consensus       465 ~~  466 (605)
                      +.
T Consensus       292 ~~  293 (517)
T PF12569_consen  292 DV  293 (517)
T ss_pred             CC
Confidence            75

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 [], [].

>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=98.79  E-value=7.1e-06  Score=84.69  Aligned_cols=302  Identities=11%  Similarity=0.067  Sum_probs=174.2

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CChhhHH-HHHHHHHHc----
Q 039695          135 IKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--RNVVSWT-SIIVAHAQN----  207 (605)
Q Consensus       135 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~-~li~~~~~~----  207 (605)
                      ...+...|++++|++.+..-.+. +.....+.......|.+.|+.++|..+|..+..  |+-..|- .+..+..-.    
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~   89 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLS   89 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccc
Confidence            34557889999999999775544 344566778888999999999999999999976  4444444 444444222    


Q ss_pred             -CChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCch-hhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHH
Q 039695          208 -AQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRL-VSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSD  285 (605)
Q Consensus       208 -g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  285 (605)
                       ...+...++|+++...-   |.......+.-.+.....+ ..+..+.....+.|+|   .+++.|-..|......+-..
T Consensus        90 ~~~~~~~~~~y~~l~~~y---p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~  163 (517)
T PF12569_consen   90 DEDVEKLLELYDELAEKY---PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIE  163 (517)
T ss_pred             cccHHHHHHHHHHHHHhC---ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHH
Confidence             25677788888887643   5544444343233322222 3455566666777765   35666666665443333333


Q ss_pred             HHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCC
Q 039695          286 KVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND--VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGI  363 (605)
Q Consensus       286 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~--~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~  363 (605)
                      +++.....           .+...|.....-      ....-.|..  .++..+...|...|++++|.++.+..+   ..
T Consensus       164 ~l~~~~~~-----------~l~~~~~~~~~~------~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI---~h  223 (517)
T PF12569_consen  164 SLVEEYVN-----------SLESNGSFSNGD------DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAI---EH  223 (517)
T ss_pred             HHHHHHHH-----------hhcccCCCCCcc------ccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH---hc
Confidence            33222110           000000000000      000112333  233444555667777777777777665   34


Q ss_pred             CCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc------
Q 039695          364 IPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN------  436 (605)
Q Consensus       364 ~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~------  436 (605)
                      .|+ ++.|..-...|-+.|++++|.+.++....-...+..+-+-....+.+.|++++|.+.+......+-+...      
T Consensus       224 tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQ  303 (517)
T PF12569_consen  224 TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQ  303 (517)
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHH
Confidence            566 6777777777777777777777776654111111444444555666777777777777766554421111      


Q ss_pred             -hH--HHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          437 -AY--VTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       437 -~~--~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                       .|  .--+.+|.+.|++..|.+-|..+.+
T Consensus       304 c~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  304 CMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence             12  2456778888888888777666644

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 [], [].

>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=98.78  E-value=1.1e-06  Score=84.23  Aligned_cols=226  Identities=14%  Similarity=0.064  Sum_probs=144.4

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCC-CcHhHHHHHHHHH
Q 039695          197 WTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE-FNDVVASALVDMY  275 (605)
Q Consensus       197 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~y  275 (605)
                      ..-+.++|...|+++.++.-   +.. + ..|.......+...+....+-+.+..-+...+..... .+..+......+|
T Consensus        38 ~~~~~Rs~iAlg~~~~vl~e---i~~-~-~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~  112 (290)
T PF04733_consen   38 DFYQYRSYIALGQYDSVLSE---IKK-S-SSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATIL  112 (290)
T ss_dssp             HHHHHHHHHHTT-HHHHHHH---S-T-T-SSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChhHHHHH---hcc-C-CChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            33455666666666654432   222 2 2444444444444343323333333333222222222 3444444455677


Q ss_pred             HhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----cCcHHHHH
Q 039695          276 AKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH----SGLVDEGI  351 (605)
Q Consensus       276 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~----~g~~~~a~  351 (605)
                      ...|++++|.++++..  .+.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++..    ...+.+|.
T Consensus       113 ~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~~~~A~  187 (290)
T PF04733_consen  113 FHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGEKYQDAF  187 (290)
T ss_dssp             CCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             HHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCchhHHHHH
Confidence            8889999999888876  55666677788999999999999999999864  333 445555555543    34688999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCCh-HHHHHHHHHHHh
Q 039695          352 QHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRV-DIAVEASNQLIE  429 (605)
Q Consensus       352 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~-~~a~~~~~~~~~  429 (605)
                      .+|+++..+  ..+++.+.+.+..+....|++++|.+++.+. ...|+ ++.+...++.+....|+. +.+.+.+.++..
T Consensus       188 y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  188 YIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            999998543  4577888888999999999999999998874 34443 467777888888888887 677888889888


Q ss_pred             cCCCCC
Q 039695          430 SNQQVA  435 (605)
Q Consensus       430 ~~p~~~  435 (605)
                      ..|+++
T Consensus       265 ~~p~h~  270 (290)
T PF04733_consen  265 SNPNHP  270 (290)
T ss_dssp             HTTTSH
T ss_pred             hCCCCh
Confidence            888865

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.78  E-value=4.1e-06  Score=78.20  Aligned_cols=381  Identities=15%  Similarity=0.090  Sum_probs=226.9

Q ss_pred             HHHHHcCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChH
Q 039695           69 INCYVRLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLI  145 (605)
Q Consensus        69 i~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~  145 (605)
                      ..+|-+.|++++|..++..+.+   ++...|-.|.-++.-.|.+.+|..+-....+     +.---..++...-+.++-+
T Consensus        64 a~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk  138 (557)
T KOG3785|consen   64 AHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEK  138 (557)
T ss_pred             HHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHH
Confidence            3455677888888888876632   5556666666666666777777766543321     2223334445555677777


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CChhhHHHH-HHHHHHcCChhHHHHHHHHHHH
Q 039695          146 TGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--RNVVSWTSI-IVAHAQNAQGHEALEMFREFNY  222 (605)
Q Consensus       146 ~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~~  222 (605)
                      +-..+++.+...     ..-.-+|..+.--.-.+++|.+++.++..  |+-...|.- .-+|.+..-++-+.+++.-..+
T Consensus       139 ~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~  213 (557)
T KOG3785|consen  139 RILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLR  213 (557)
T ss_pred             HHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHH
Confidence            777777766542     23334455554555678899999988754  555566654 3466777777777777776655


Q ss_pred             cCCCCCChhHHHhHHHhhc--c--cCchhh--HHH----------HHHHHHHhCC------C------C-----cHhHHH
Q 039695          223 QSRDRPNQHMLASVINACA--S--LGRLVS--GKV----------AHGVVVRSGC------E------F-----NDVVAS  269 (605)
Q Consensus       223 ~~~~~p~~~t~~~ll~a~~--~--~~~~~~--a~~----------~~~~~~~~g~------~------~-----~~~~~~  269 (605)
                      .   .||.. +..=+.+|-  +  .|+..+  -+.          ..+.+.+.++      +      |     -+...-
T Consensus       214 q---~pdSt-iA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARl  289 (557)
T KOG3785|consen  214 Q---FPDST-IAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARL  289 (557)
T ss_pred             h---CCCcH-HHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhh
Confidence            3   24432 222222221  1  111111  011          1112222110      0      1     112233


Q ss_pred             HHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCC-------hhHHHHHHHHHHHcCCCCCHHH-HHHHHHHH
Q 039695          270 ALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGL-------GRFSLDLFNEMISRGIKPNDVT-FVGVLHAC  341 (605)
Q Consensus       270 ~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~-------~~~A~~l~~~m~~~g~~pd~~t-~~~ll~a~  341 (605)
                      .|+-.|.+.+++.+|..+..++...++.-|-.-...++..|+       ..-|...|+-.-+++..-|... --++.+++
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~f  369 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYF  369 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHH
Confidence            456668899999999999888765444444332233344443       2334444443333444444322 23455566


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHH-HHHHHcCChHHH
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLL-SASRLHGRVDIA  420 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll-~~~~~~g~~~~a  420 (605)
                      .-..++++.+-+++.+ +.+=...|...+| +.++++..|.+.+|.++|-.+....-.+..+|.+++ .+|..++.++.|
T Consensus       370 FL~~qFddVl~YlnSi-~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lA  447 (557)
T KOG3785|consen  370 FLSFQFDDVLTYLNSI-ESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLA  447 (557)
T ss_pred             HHHHHHHHHHHHHHHH-HHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHH
Confidence            6677889999888888 5655555566654 788999999999999999887622112266776655 566778888888


Q ss_pred             HHHHHHHHhcC-CCCCc-hHHHHHHHHHhcCChhHHHHHHHHHHhCCCcc
Q 039695          421 VEASNQLIESN-QQVAN-AYVTLSNTYALAGEWENVHSLRSEMKRTGIHK  468 (605)
Q Consensus       421 ~~~~~~~~~~~-p~~~~-~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~  468 (605)
                      ..++   ++.+ |.+.. ....+++-|.+++.+--|.+.|+.+...+..|
T Consensus       448 W~~~---lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  448 WDMM---LKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             HHHH---HhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence            6654   4444 43333 34456778899999999999999998876654

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.76  E-value=0.00037  Score=70.81  Aligned_cols=442  Identities=12%  Similarity=0.031  Sum_probs=256.2

Q ss_pred             ccchHHHHHHHHHhhhC-CCCCChhhHHH-HHHHhhChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHH
Q 039695            8 NLIFTLAASSLTRQNKR-SSCHTKAHFIQ-QLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLF   85 (605)
Q Consensus         8 ~~~~~~a~~~l~~m~~~-g~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f   85 (605)
                      .++++..++..+.+... +-.++...+-. .|...++..++......-++. -..+.+.|..+--.+-...++++|++.|
T Consensus        20 ~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~-d~~S~vCwHv~gl~~R~dK~Y~eaiKcy   98 (700)
T KOG1156|consen   20 TKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRN-DLKSHVCWHVLGLLQRSDKKYDEAIKCY   98 (700)
T ss_pred             HHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhcc-CcccchhHHHHHHHHhhhhhHHHHHHHH
Confidence            45666666666665542 11222222222 233334444443333333332 2345667777766666678999999999


Q ss_pred             hcCC---CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-ChhhHHHHHHHHhccCChHHHHHHHHHHHHhC-CC
Q 039695           86 DEML---EPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWP-NEFTFATVIKACSMLADLITGKQIHTHIETFG-FQ  160 (605)
Q Consensus        86 ~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g-~~  160 (605)
                      ....   ..|...|--+--.-++.|+++.....-.+..+.  .| ....|.....+.--.|+...|..+.+...+.. -.
T Consensus        99 ~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~  176 (700)
T KOG1156|consen   99 RNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTS  176 (700)
T ss_pred             HHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence            9763   346677777766667788888888887777764  33 44567778888888899999999999888775 24


Q ss_pred             CchhHHHHHH------HHHHhCCCHHHHHHHHhhcCC--CChhh-HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChh
Q 039695          161 YNLVVCSSLV------DMYGKCNDVDGARRVFDLMGC--RNVVS-WTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQH  231 (605)
Q Consensus       161 ~~~~~~~~Li------~~y~~~g~~~~A~~~~~~m~~--~~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~  231 (605)
                      |+...+.-..      ....+.|..+.|.+-+.....  -|-.. -.+....+.+.++.++|..++..+....   ||..
T Consensus       177 ~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn---Pdn~  253 (700)
T KOG1156|consen  177 PSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN---PDNL  253 (700)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC---chhH
Confidence            5555544332      234567888888887776543  12222 2344566788999999999999998754   7777


Q ss_pred             HHHhHHHhhc-c-cCchhhHHHHHHHHHHhCCCCc--HhHHHHHHHHHHhcCCHHHHHHHHhccCCC-CcchHHHHHHHH
Q 039695          232 MLASVINACA-S-LGRLVSGKVAHGVVVRSGCEFN--DVVASALVDMYAKCGSVNYSDKVFNRISNP-SVVTYTSMIVGA  306 (605)
Q Consensus       232 t~~~ll~a~~-~-~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~  306 (605)
                      -|...+..+. + .+..+....++....+.-....  ..+--.+++.   ..-.+...+++..+.+. -+..+..+.+-|
T Consensus       254 ~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~---eel~~~vdkyL~~~l~Kg~p~vf~dl~SLy  330 (700)
T KOG1156|consen  254 DYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNG---EELKEIVDKYLRPLLSKGVPSVFKDLRSLY  330 (700)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCc---chhHHHHHHHHHHHhhcCCCchhhhhHHHH
Confidence            6666555544 2 2333333355554443211000  0000001100   01111122222222222 122333333333


Q ss_pred             HHcCChhHHHHHHHHHH----HcC----------CCCCHH--HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHH
Q 039695          307 AKYGLGRFSLDLFNEMI----SRG----------IKPNDV--TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKH  369 (605)
Q Consensus       307 ~~~g~~~~A~~l~~~m~----~~g----------~~pd~~--t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~  369 (605)
                      -.-...+-..++.-.+.    ..|          -+|...  |+..+...+-+.|+++.|..+.+..+   +-.|+ ++.
T Consensus       331 k~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliEl  407 (700)
T KOG1156|consen  331 KDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIEL  407 (700)
T ss_pred             hchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHHH
Confidence            22111111111111111    111          134443  44456677888999999999999775   66888 778


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCCC--CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc-------hHHH
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQV--DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN-------AYVT  440 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~~--~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~  440 (605)
                      |..=..++...|.+++|..++++...  .||  ...-.--..-..+.+++++|.++..+..+.+-+-..       .|..
T Consensus       408 y~~KaRI~kH~G~l~eAa~~l~ea~elD~aD--R~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~  485 (700)
T KOG1156|consen  408 YLVKARIFKHAGLLDEAAAWLDEAQELDTAD--RAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQ  485 (700)
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhccchh--HHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHh
Confidence            88888999999999999999988652  233  222223334445778899999998887765531111       2222


Q ss_pred             H--HHHHHhcCChhHHHHHHHHHHh
Q 039695          441 L--SNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       441 l--~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      +  +.+|.++|++..|.+=|..+.+
T Consensus       486 ~E~g~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  486 LEDGEAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             HhhhHHHHHHHHHHHHHHHHhhHHH
Confidence            2  5678888888888876666544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.76  E-value=0.00015  Score=68.09  Aligned_cols=240  Identities=11%  Similarity=0.035  Sum_probs=147.9

Q ss_pred             hhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHH-----HHhcCCHHHH
Q 039695          210 GHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDM-----YAKCGSVNYS  284 (605)
Q Consensus       210 ~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~-----y~~~g~~~~A  284 (605)
                      .+.|++++-.+..   +.|...  ..++--+.+.++..+|..+...+.  ...|-.++...++.+     ......+.-|
T Consensus       270 gEgALqVLP~L~~---~IPEAR--lNL~iYyL~q~dVqeA~~L~Kdl~--PttP~EyilKgvv~aalGQe~gSreHlKiA  342 (557)
T KOG3785|consen  270 GEGALQVLPSLMK---HIPEAR--LNLIIYYLNQNDVQEAISLCKDLD--PTTPYEYILKGVVFAALGQETGSREHLKIA  342 (557)
T ss_pred             CccHHHhchHHHh---hChHhh--hhheeeecccccHHHHHHHHhhcC--CCChHHHHHHHHHHHHhhhhcCcHHHHHHH
Confidence            3555555544433   223222  233444667788887776654432  122323333333322     2223346778


Q ss_pred             HHHHhccCC-----CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 039695          285 DKVFNRISN-----PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYR  359 (605)
Q Consensus       285 ~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  359 (605)
                      .+.|+-.-+     ..+.--.+|.+.+.-..++++.+-++.....- ..-|...-..+..|.+..|.+.+|+++|-.+. 
T Consensus       343 qqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~~is-  420 (557)
T KOG3785|consen  343 QQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELFIRIS-  420 (557)
T ss_pred             HHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHHhhhc-
Confidence            888876643     33445667777777788899999988888775 33344444457889999999999999998773 


Q ss_pred             hcCCCCcHHHH-HHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchH
Q 039695          360 KYGIIPDAKHY-TCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       360 ~~~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                      ...+ .|..+| ..|...|.++++++-|++++-++....+ .-.....+.+-|-+.+.+--|-++|..+-.++|.. ..|
T Consensus       421 ~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e-~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p-EnW  497 (557)
T KOG3785|consen  421 GPEI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSE-RFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP-ENW  497 (557)
T ss_pred             Chhh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchh-HHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc-ccc
Confidence            2222 344455 4566788999999999999988863322 22344455677889999999999999988888753 322


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCccCC
Q 039695          439 VTLSNTYALAGEWENVHSLRSEMKRTGIHKEP  470 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~  470 (605)
                      .         |+--...-+|..+......|.|
T Consensus       498 e---------GKRGACaG~f~~l~~~~~~~~p  520 (557)
T KOG3785|consen  498 E---------GKRGACAGLFRQLANHKTDPIP  520 (557)
T ss_pred             C---------CccchHHHHHHHHHcCCCCCCc
Confidence            2         3333344555555544443333

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.76  E-value=1.9e-05  Score=79.67  Aligned_cols=200  Identities=10%  Similarity=-0.036  Sum_probs=111.8

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCCH--HHHHHHHH
Q 039695          266 VVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGI-KPND--VTFVGVLH  339 (605)
Q Consensus       266 ~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~pd~--~t~~~ll~  339 (605)
                      .....+...+...|++++|.+.+++..+   .+...+..+...|...|++++|..++++...... .|+.  ..|..+..
T Consensus       115 ~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~  194 (355)
T cd05804         115 YLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLAL  194 (355)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHH
Confidence            3444455666777777777777776653   3344566666777777777777777777665321 1222  23445666


Q ss_pred             HHhccCcHHHHHHHHHHHHHhcCCCCcHHHH-H--HHHHHHhhcCCHHHHHHH---HHhCCCC-C-CchhhHHHHHHHHH
Q 039695          340 ACSHSGLVDEGIQHLDSMYRKYGIIPDAKHY-T--CVVDMLGRTGRLDEAYKL---AKSIQVD-P-DGGPLLWGTLLSAS  411 (605)
Q Consensus       340 a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-~--~li~~~~~~g~~~~A~~~---~~~m~~~-p-~~~~~~~~~ll~~~  411 (605)
                      .+...|++++|..+++.........+..... +  .++..+...|..+.+.++   ....... | ............++
T Consensus       195 ~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~  274 (355)
T cd05804         195 FYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALAL  274 (355)
T ss_pred             HHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence            6777777777777777763221111111111 1  222333333432222222   1111101 1 10012223455666


Q ss_pred             HHcCChHHHHHHHHHHHhcC-C--------CCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          412 RLHGRVDIAVEASNQLIESN-Q--------QVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~-p--------~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...|+.+.|..+++.+.... .        ...........++...|++++|.+.+.......
T Consensus       275 ~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         275 AGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             hcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            77888888888887776532 1        123345566777889999999999998887654

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.76  E-value=6.5e-05  Score=79.46  Aligned_cols=158  Identities=14%  Similarity=0.175  Sum_probs=119.0

Q ss_pred             CCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH
Q 039695          279 GSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMY  358 (605)
Q Consensus       279 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~  358 (605)
                      ++++.|.+.-++..+  +..|..+..+-.+.|...+|++-|-+.      -|+..|..++..+++.|.+++-.+++... 
T Consensus      1089 ~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~Ma- 1159 (1666)
T KOG0985|consen 1089 GSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMA- 1159 (1666)
T ss_pred             hhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHH-
Confidence            344444444444433  357999999999999999999887542      36778999999999999999999988866 


Q ss_pred             HhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchH
Q 039695          359 RKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       359 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                      ++..-+|.+.  +.|+-+|++.+++.|-.+++.    .|+  ..-.....+-|...|.++.|.-+|..        .+.|
T Consensus      1160 Rkk~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN--~A~i~~vGdrcf~~~~y~aAkl~y~~--------vSN~ 1223 (1666)
T KOG0985|consen 1160 RKKVREPYID--SELIFAYAKTNRLTELEEFIA----GPN--VANIQQVGDRCFEEKMYEAAKLLYSN--------VSNF 1223 (1666)
T ss_pred             HHhhcCccch--HHHHHHHHHhchHHHHHHHhc----CCC--chhHHHHhHHHhhhhhhHHHHHHHHH--------hhhH
Confidence            4445566654  468999999999999877764    456  66777888889999999888877754        4567


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHH
Q 039695          439 VTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      ..|+..+...|.++.|...-++.
T Consensus      1224 a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1224 AKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhc
Confidence            77888888888888777655443

>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=98.76  E-value=1.6e-07  Score=90.01  Aligned_cols=247  Identities=11%  Similarity=0.024  Sum_probs=161.6

Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHH
Q 039695          203 AHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVN  282 (605)
Q Consensus       203 ~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  282 (605)
                      -+.-.|++..++.-.. ..... -..+..+..-+.+++...|+.+.+   ...+.+.. .|.......+...+...++-+
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~-~~~~~e~~~~~~Rs~iAlg~~~~v---l~ei~~~~-~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFS-PENKLERDFYQYRSYIALGQYDSV---LSEIKKSS-SPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTST-CHHHHHHHHHHHHHHHHTT-HHHH---HHHS-TTS-SCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHhhhHHHHHHHhh-ccCCC-chhHHHHHHHHHHHHHHcCChhHH---HHHhccCC-ChhHHHHHHHHHHHhCccchH
Confidence            3445688888876555 22221 122344555667777777876543   33343333 566666555555444435556


Q ss_pred             HHHHHHhccC-CCC---cchHHHH-HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          283 YSDKVFNRIS-NPS---VVTYTSM-IVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       283 ~A~~~~~~~~-~~~---~~~~~~l-i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      .+..-+++.. ++.   ..++..+ ...+...|++++|++++++-      .+.......+..+.+.++++.|.+.++.|
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6665555443 321   1222222 23455679999999998652      34566667788899999999999999999


Q ss_pred             HHhcCCCCcHH---HHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 039695          358 YRKYGIIPDAK---HYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       358 ~~~~~~~p~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      .   .+..|..   ...+.+..+.-.+.+++|..+|+++..+...++.+.+.+..+....|++++|+.+++++++.+|.+
T Consensus       158 ~---~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~  234 (290)
T PF04733_consen  158 Q---QIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPND  234 (290)
T ss_dssp             H---CCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCH
T ss_pred             H---hcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCC
Confidence            4   3455522   233334444344579999999999865533338889999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHhcCCh-hHHHHHHHHHHhC
Q 039695          435 ANAYVTLSNTYALAGEW-ENVHSLRSEMKRT  464 (605)
Q Consensus       435 ~~~~~~l~~~y~~~g~~-~~a~~~~~~m~~~  464 (605)
                      +.+...++-+....|+. +.+.+.+.+++..
T Consensus       235 ~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  235 PDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            99999999999999998 6688888887764

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.75  E-value=3.9e-05  Score=81.01  Aligned_cols=366  Identities=13%  Similarity=0.140  Sum_probs=209.7

Q ss_pred             HHHHHHHHHhCCC--CchHHHHHHHHHHHcCCChhHHHHHHhcC-CCCChhh-----HHHHHHHHHhcCChhHHHHHHHH
Q 039695           47 ASVHSEILKSGFL--SNTFTLNHLINCYVRLKKTQVARQLFDEM-LEPNVVS-----YTSLMAGYINMGQPQIALLLFQK  118 (605)
Q Consensus        47 ~~~~~~~~~~g~~--~~~~~~~~li~~~~~~g~~~~A~~~f~~m-~~~~~~~-----~~~li~~~~~~g~~~~a~~~~~~  118 (605)
                      +++.++++..+++  .|+.-.+..+.++...+-+.+-.++++++ .++++++     -|.||-.-.+ .+..+..+..++
T Consensus       967 RqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~r 1045 (1666)
T KOG0985|consen  967 RQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINR 1045 (1666)
T ss_pred             HHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHH
Confidence            4555555555543  34445555566666666666666666665 3344433     2223222222 234455555555


Q ss_pred             HHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHH
Q 039695          119 MLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWT  198 (605)
Q Consensus       119 m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~  198 (605)
                      +-.-+. |      -+...+...+-+++|..+|...     ..+....+.|+.   .-+.++.|.+.-++..+|  ..|+
T Consensus      1046 LdnyDa-~------~ia~iai~~~LyEEAF~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWs 1108 (1666)
T KOG0985|consen 1046 LDNYDA-P------DIAEIAIENQLYEEAFAIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWS 1108 (1666)
T ss_pred             hccCCc-h------hHHHHHhhhhHHHHHHHHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHH
Confidence            433211 1      1223344455566666666542     334444444543   346677777777776555  4699


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhc
Q 039695          199 SIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC  278 (605)
Q Consensus       199 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  278 (605)
                      .+..+-.+.|...+|++-|-+       ..|+..|..++..+.+.|.+++-.+++....+..-+|  .+-+.|+-+|++.
T Consensus      1109 qlakAQL~~~~v~dAieSyik-------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~--~id~eLi~AyAkt 1179 (1666)
T KOG0985|consen 1109 QLAKAQLQGGLVKDAIESYIK-------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREP--YIDSELIFAYAKT 1179 (1666)
T ss_pred             HHHHHHHhcCchHHHHHHHHh-------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCc--cchHHHHHHHHHh
Confidence            999999999999999988754       2467789999999999999999999988888776554  4556789999999


Q ss_pred             CCHHHHHHHHhccCCCCcch--------------------------HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH
Q 039695          279 GSVNYSDKVFNRISNPSVVT--------------------------YTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDV  332 (605)
Q Consensus       279 g~~~~A~~~~~~~~~~~~~~--------------------------~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  332 (605)
                      +++.+-++++.   .||+..                          |..|...+...|++..|.+.-++.      .+..
T Consensus      1180 ~rl~elE~fi~---gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKA------ns~k 1250 (1666)
T KOG0985|consen 1180 NRLTELEEFIA---GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKA------NSTK 1250 (1666)
T ss_pred             chHHHHHHHhc---CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhc------cchh
Confidence            99888776654   244433                          444444444444444444433322      2345


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCchhhHHHHHHHH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ--VDPDGGPLLWGTLLSA  410 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~p~~~~~~~~~ll~~  410 (605)
                      ||-.+-.||...+.+..|.     |. ..++.....-..-|+.-|-..|.++|-+.+++...  .+..  ...|+-|.-.
T Consensus      1251 tWK~VcfaCvd~~EFrlAQ-----iC-GL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAH--MgmfTELaiL 1322 (1666)
T KOG0985|consen 1251 TWKEVCFACVDKEEFRLAQ-----IC-GLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAH--MGMFTELAIL 1322 (1666)
T ss_pred             HHHHHHHHHhchhhhhHHH-----hc-CceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHH--HHHHHHHHHH
Confidence            5655555665554443332     21 11222334445566777777777777777776532  1222  4456666655


Q ss_pred             HHHcCChHHHHHHHHHHHh-cCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          411 SRLHGRVDIAVEASNQLIE-SNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       411 ~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      |.+.. ++...+.++-... .+      .--++.+..++.-|.+..-++.+..+
T Consensus      1323 Yskyk-p~km~EHl~LFwsRvN------ipKviRA~eqahlW~ElvfLY~~y~e 1369 (1666)
T KOG0985|consen 1323 YSKYK-PEKMMEHLKLFWSRVN------IPKVIRAAEQAHLWSELVFLYDKYEE 1369 (1666)
T ss_pred             HHhcC-HHHHHHHHHHHHHhcc------hHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            55543 3333333332221 11      11356667777777777666665543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.74  E-value=7.6e-06  Score=80.91  Aligned_cols=374  Identities=13%  Similarity=0.084  Sum_probs=229.3

Q ss_pred             HHHcCCChhHHHHHHhcC---CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhccCChHH
Q 039695           71 CYVRLKKTQVARQLFDEM---LEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPN-EFTFATVIKACSMLADLIT  146 (605)
Q Consensus        71 ~~~~~g~~~~A~~~f~~m---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~  146 (605)
                      +....|++++|...|.+.   ..+|-+.|+.=..+|+..|++++|++=-.+-++  +.|+ ...|+..-.+....|++++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHH
Confidence            345679999999999875   335778899999999999999999887766665  4555 4478888888899999999


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHh------hcCC-C------ChhhHHHHHHHHHHc------
Q 039695          147 GKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFD------LMGC-R------NVVSWTSIIVAHAQN------  207 (605)
Q Consensus       147 a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~------~m~~-~------~~~~~~~li~~~~~~------  207 (605)
                      |...|.+-++.. +.|...++.|.+++...  . .+.+.|.      .... |      ....|..++..+-++      
T Consensus        89 A~~ay~~GL~~d-~~n~~L~~gl~~a~~~~--~-~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~  164 (539)
T KOG0548|consen   89 AILAYSEGLEKD-PSNKQLKTGLAQAYLED--Y-AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKL  164 (539)
T ss_pred             HHHHHHHHhhcC-CchHHHHHhHHHhhhHH--H-HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhc
Confidence            999999888765 56777888888887111  0 1111111      1100 0      111233333322211      


Q ss_pred             ----CChhHHHHHHHHH-----HHcC------CCCCC------------h----------hHHHhHHHhhcccCchhhHH
Q 039695          208 ----AQGHEALEMFREF-----NYQS------RDRPN------------Q----------HMLASVINACASLGRLVSGK  250 (605)
Q Consensus       208 ----g~~~~A~~~~~~m-----~~~~------~~~p~------------~----------~t~~~ll~a~~~~~~~~~a~  250 (605)
                          .+...|+..+...     ...+      +..|.            .          .-...+.++.-+..+++.+.
T Consensus       165 ~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~  244 (539)
T KOG0548|consen  165 YLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAI  244 (539)
T ss_pred             ccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHH
Confidence                1111221111110     0000      01110            0          01223334444445555566


Q ss_pred             HHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc----------chHHHHHHHHHHcCChhHHHHHHH
Q 039695          251 VAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV----------VTYTSMIVGAAKYGLGRFSLDLFN  320 (605)
Q Consensus       251 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~----------~~~~~li~~~~~~g~~~~A~~l~~  320 (605)
                      +-+.......  .+..-++.....|...|.+......-+...+..-          .....+..+|.+.++++.++..|.
T Consensus       245 q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~  322 (539)
T KOG0548|consen  245 QHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQ  322 (539)
T ss_pred             HHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHH
Confidence            6665555544  4555556666677777766655544443322111          112223445666677777888877


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcH-HHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC
Q 039695          321 EMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDA-KHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPD  398 (605)
Q Consensus       321 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~  398 (605)
                      +....-..||..+         +....+++....+..   .-+.|.. .-.-.-...+.+.|++.+|+..+.++. ..|+
T Consensus       323 kaLte~Rt~~~ls---------~lk~~Ek~~k~~e~~---a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~  390 (539)
T KOG0548|consen  323 KALTEHRTPDLLS---------KLKEAEKALKEAERK---AYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPE  390 (539)
T ss_pred             HHhhhhcCHHHHH---------HHHHHHHHHHHHHHH---HhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCc
Confidence            7665444443221         122333333333322   1334442 111222566778899999999998854 3444


Q ss_pred             chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          399 GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       399 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                       +...|.....+|.+.|++..|+.-.+..++++|+....|..-+.++....+|+.|.+.|.+-.+.+
T Consensus       391 -Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  391 -DARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             -hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence             488999999999999999999999999999999999999998999999999999999998877765

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.72  E-value=1.8e-05  Score=75.66  Aligned_cols=264  Identities=8%  Similarity=-0.070  Sum_probs=167.1

Q ss_pred             hCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHH---HHHHHhcCChhHHHHHHHHHHhCCCCCChhhHH
Q 039695           56 SGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSL---MAGYINMGQPQIALLLFQKMLGNLVWPNEFTFA  132 (605)
Q Consensus        56 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~  132 (605)
                      .-++-|+....++...|...|+.++|...|++...-|+.+-.+|   .-.+.+.|+.++...+-..+.... +-....|.
T Consensus       226 ~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wf  304 (564)
T KOG1174|consen  226 TTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWF  304 (564)
T ss_pred             ccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhh
Confidence            34566777888888888888888888888887644333322221   112346677777777766665431 11222233


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCC
Q 039695          133 TVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQ  209 (605)
Q Consensus       133 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~  209 (605)
                      .-+.......+++.|+.+-+..++.. +.+...+-.=.+.+...|+.++|.-.|+....   -+..+|.-|+.+|...|.
T Consensus       305 V~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  305 VHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhch
Confidence            33333345567777777777766543 22333333333666778888888888876543   367788889999998898


Q ss_pred             hhHHHHHHHHHHHcCCCCCChhHHHhHH-Hhhcc-cCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHH
Q 039695          210 GHEALEMFREFNYQSRDRPNQHMLASVI-NACAS-LGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKV  287 (605)
Q Consensus       210 ~~~A~~~~~~m~~~~~~~p~~~t~~~ll-~a~~~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  287 (605)
                      +.+|.-+-+.....  .+.+..+.+.+- ..|.- ...-++|+.+++..++.. |.-....+.+...+...|..+++..+
T Consensus       384 ~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~-P~Y~~AV~~~AEL~~~Eg~~~D~i~L  460 (564)
T KOG1174|consen  384 FKEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKIN-PIYTPAVNLIAELCQVEGPTKDIIKL  460 (564)
T ss_pred             HHHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccC-CccHHHHHHHHHHHHhhCccchHHHH
Confidence            88888777665543  344555555442 33332 233466777776665543 22244556667777777777777777


Q ss_pred             HhccC--CCCcchHHHHHHHHHHcCChhHHHHHHHHHHH
Q 039695          288 FNRIS--NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMIS  324 (605)
Q Consensus       288 ~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~  324 (605)
                      +++..  .+|....+.|...+...+.+.+|++.|.....
T Consensus       461 Le~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  461 LEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             HHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            77665  37777777777777777777777777777665

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.71  E-value=0.00018  Score=67.39  Aligned_cols=346  Identities=11%  Similarity=0.056  Sum_probs=195.8

Q ss_pred             HHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHH---HHHHhcCChhHHHHHHHHHHhCCCCCChhhHH-HHHHHHhccC
Q 039695           67 HLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLM---AGYINMGQPQIALLLFQKMLGNLVWPNEFTFA-TVIKACSMLA  142 (605)
Q Consensus        67 ~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li---~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~-~ll~a~~~~~  142 (605)
                      -|-..+...|++.+|+.-|....+-|+..|-++.   ..|...|+...|+.=|.+.++  .+||-..-. .--..+.+.|
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhchhhhhcc
Confidence            3445555677888888888877777777777665   366677777777777777766  456633211 1112345667


Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 039695          143 DLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNY  222 (605)
Q Consensus       143 ~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  222 (605)
                      .++.|..=|+.+++..  |+..   ....++.+.--.++-+.+.            ..+..+..+|+...|++....+.+
T Consensus       121 ele~A~~DF~~vl~~~--~s~~---~~~eaqskl~~~~e~~~l~------------~ql~s~~~~GD~~~ai~~i~~llE  183 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHE--PSNG---LVLEAQSKLALIQEHWVLV------------QQLKSASGSGDCQNAIEMITHLLE  183 (504)
T ss_pred             cHHHHHHHHHHHHhcC--CCcc---hhHHHHHHHHhHHHHHHHH------------HHHHHHhcCCchhhHHHHHHHHHh
Confidence            7777777777777653  2211   1112222222222222221            234445567888888888888877


Q ss_pred             cCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHH
Q 039695          223 QSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSM  302 (605)
Q Consensus       223 ~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~l  302 (605)
                      ..  +.|...+..-..+|...|.+..|..-+..+.+..- .+.....-+-..+...|+.+.+....++..+-|+..-.  
T Consensus       184 i~--~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~-DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~--  258 (504)
T KOG0624|consen  184 IQ--PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQ-DNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKL--  258 (504)
T ss_pred             cC--cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccc-cchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhh--
Confidence            53  56777777777777788877777766666655442 23444445566667777777777777766543322110  


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-----HHHHHHHHHHH
Q 039695          303 IVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-----AKHYTCVVDML  377 (605)
Q Consensus       303 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~~~  377 (605)
                        +|..-....+..+.++.|.+                ....+.+.++.+-.+..++   ..|.     ...+..+-..+
T Consensus       259 --Cf~~YKklkKv~K~les~e~----------------~ie~~~~t~cle~ge~vlk---~ep~~~~ir~~~~r~~c~C~  317 (504)
T KOG0624|consen  259 --CFPFYKKLKKVVKSLESAEQ----------------AIEEKHWTECLEAGEKVLK---NEPEETMIRYNGFRVLCTCY  317 (504)
T ss_pred             --HHHHHHHHHHHHHHHHHHHH----------------HHhhhhHHHHHHHHHHHHh---cCCcccceeeeeeheeeecc
Confidence              01111111222222222222                1223444444444444432   2333     22333444556


Q ss_pred             hhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHH
Q 039695          378 GRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHS  456 (605)
Q Consensus       378 ~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~  456 (605)
                      ...|++-+|+....+.. ..|+ +..++.--..+|.....++.|+.-|+++.+.++++..+-..          .+.|.+
T Consensus       318 ~~d~~~~eAiqqC~evL~~d~~-dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~reG----------le~Akr  386 (504)
T KOG0624|consen  318 REDEQFGEAIQQCKEVLDIDPD-DVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRAREG----------LERAKR  386 (504)
T ss_pred             cccCCHHHHHHHHHHHHhcCch-HHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHHH----------HHHHHH
Confidence            66777888877776643 3443 35566667777777778888888888888888877543222          345666


Q ss_pred             HHHHHHhCCCcc
Q 039695          457 LRSEMKRTGIHK  468 (605)
Q Consensus       457 ~~~~m~~~~~~~  468 (605)
                      +.++..+++.-+
T Consensus       387 lkkqs~kRDYYK  398 (504)
T KOG0624|consen  387 LKKQSGKRDYYK  398 (504)
T ss_pred             HHHHhccchHHH
Confidence            666555555433

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.70  E-value=0.00014  Score=83.23  Aligned_cols=326  Identities=9%  Similarity=-0.045  Sum_probs=185.6

Q ss_pred             hccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC----C----C--h--hhHHHHHHHHHH
Q 039695          139 SMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC----R----N--V--VSWTSIIVAHAQ  206 (605)
Q Consensus       139 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~----~----~--~--~~~~~li~~~~~  206 (605)
                      ...|+++.+...+..+.......+..........+...|++++|...++....    .    +  .  .....+...+..
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            34456666555555442111112222333444455566777777766654421    1    0  0  111112234456


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCCh----hHHHhHHHhhcccCchhhHHHHHHHHHHh----CC-CCcHhHHHHHHHHHHh
Q 039695          207 NAQGHEALEMFREFNYQSRDRPNQ----HMLASVINACASLGRLVSGKVAHGVVVRS----GC-EFNDVVASALVDMYAK  277 (605)
Q Consensus       207 ~g~~~~A~~~~~~m~~~~~~~p~~----~t~~~ll~a~~~~~~~~~a~~~~~~~~~~----g~-~~~~~~~~~li~~y~~  277 (605)
                      .|++++|...+++....- ...+.    .....+...+...|+++.|...+......    |. .........+...+..
T Consensus       465 ~g~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        465 DGDPEEAERLAELALAEL-PLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             CCCHHHHHHHHHHHHhcC-CCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            777888877777765421 11121    23344445556677887777777666542    21 1123345556667777


Q ss_pred             cCCHHHHHHHHhccCC-------CC----cchHHHHHHHHHHcCChhHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHh
Q 039695          278 CGSVNYSDKVFNRISN-------PS----VVTYTSMIVGAAKYGLGRFSLDLFNEMISR--GIKPN--DVTFVGVLHACS  342 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~~-------~~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~pd--~~t~~~ll~a~~  342 (605)
                      .|+++.|...+++...       ++    ...+..+...+...|++++|...+.+....  ...+.  ...+..+.....
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            8888888877765432       11    122334445566678898888888876542  11122  233444555667


Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCcHHHH-----HHHHHHHhhcCCHHHHHHHHHhCCCCCCchh----hHHHHHHHHHHH
Q 039695          343 HSGLVDEGIQHLDSMYRKYGIIPDAKHY-----TCVVDMLGRTGRLDEAYKLAKSIQVDPDGGP----LLWGTLLSASRL  413 (605)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~----~~~~~ll~~~~~  413 (605)
                      ..|+.++|.+.+.....-..-......+     ...+..+...|+.+.|..++...........    ..+..+..++..
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~  703 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL  703 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH
Confidence            7889999988887774321111111111     1122444567899999998876542111001    124566677888


Q ss_pred             cCChHHHHHHHHHHHhcC------CCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          414 HGRVDIAVEASNQLIESN------QQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       414 ~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .|+.++|...++++++..      +....++..++.+|.+.|+.++|...+.+..+..
T Consensus       704 ~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        704 LGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            899999999999888642      1122366778888999999999999998887654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.67  E-value=2.4e-06  Score=92.79  Aligned_cols=202  Identities=13%  Similarity=0.128  Sum_probs=170.2

Q ss_pred             CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--------CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 039695          262 EFNDVVASALVDMYAKCGSVNYSDKVFNRISN--------PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVT  333 (605)
Q Consensus       262 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  333 (605)
                      |.+...|-..|......+++++|++++++...        .-.-.|.++++.-...|.-+...++|++..+.  --.-..
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            55667888889999999999999999998763        22357999998888889888999999999873  212356


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCC-chhhHHHHHHHHH
Q 039695          334 FVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPD-GGPLLWGTLLSAS  411 (605)
Q Consensus       334 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~-~~~~~~~~ll~~~  411 (605)
                      |..|..-|.+.+.+++|.++++.|.++++  .....|..+++.+.+..+-+.|..++++ |..-|. .......-.+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            88899999999999999999999999887  5678899999999999999999999876 332232 1144555566667


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      .++|+.+++..+|+..+...|.....|..++++-.+.|..+.+..+|++....++.
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            89999999999999999999999999999999999999999999999999998774

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.67  E-value=5.6e-05  Score=70.61  Aligned_cols=291  Identities=8%  Similarity=0.033  Sum_probs=173.8

Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHH---HHHHHcCChhHHHHHHHHHHHcCCCCCChhHHH-hHHHhhcccC
Q 039695          169 LVDMYGKCNDVDGARRVFDLMGCRNVVSWTSII---VAHAQNAQGHEALEMFREFNYQSRDRPNQHMLA-SVINACASLG  244 (605)
Q Consensus       169 Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~-~ll~a~~~~~  244 (605)
                      |...+...|++.+|+.-|....+-|+..|-++.   ..|...|+...|+.-+.+..+   .+||-..-. .--..+.+.|
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle---lKpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE---LKPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh---cCccHHHHHHHhchhhhhcc
Confidence            334444455555555555555555554444432   345555555555555555544   344432111 1112334555


Q ss_pred             chhhHHHHHHHHHHhCCCCc----H----------hHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHH
Q 039695          245 RLVSGKVAHGVVVRSGCEFN----D----------VVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAA  307 (605)
Q Consensus       245 ~~~~a~~~~~~~~~~g~~~~----~----------~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  307 (605)
                      .++.|..-|..+++.....+    .          ......+..+.-.|+...|+.....+.+   -|+..|..-..+|.
T Consensus       121 ele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i  200 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYI  200 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHH
Confidence            66666665555555432110    0          0111223334556777777777776654   35556666677788


Q ss_pred             HcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHH----HH---------H
Q 039695          308 KYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYT----CV---------V  374 (605)
Q Consensus       308 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~----~l---------i  374 (605)
                      ..|.+..|+.=++...+. -.-|..++.-+-.-+...|+.+.++...++-.   .+.||.....    .|         +
T Consensus       201 ~~~e~k~AI~Dlk~askL-s~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL---KldpdHK~Cf~~YKklkKv~K~les~  276 (504)
T KOG0624|consen  201 AEGEPKKAIHDLKQASKL-SQDNTEGHYKISQLLYTVGDAENSLKEIRECL---KLDPDHKLCFPFYKKLKKVVKSLESA  276 (504)
T ss_pred             hcCcHHHHHHHHHHHHhc-cccchHHHHHHHHHHHhhhhHHHHHHHHHHHH---ccCcchhhHHHHHHHHHHHHHHHHHH
Confidence            888888777766655443 12234445455555566677777776666554   5667633221    11         1


Q ss_pred             HHHhhcCCHHHHHHHHHh-CCCCCCchhh---HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          375 DMLGRTGRLDEAYKLAKS-IQVDPDGGPL---LWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~-m~~~p~~~~~---~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      ....+.++|-++++-.+. |...|.....   .+..+-.++...+++.+|++...++++.+|++..++.--+.+|.-...
T Consensus       277 e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~  356 (504)
T KOG0624|consen  277 EQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEM  356 (504)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHH
Confidence            123345667777666655 4445542233   344566777888999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhCCC
Q 039695          451 WENVHSLRSEMKRTGI  466 (605)
Q Consensus       451 ~~~a~~~~~~m~~~~~  466 (605)
                      +|+|..-+++..+.+-
T Consensus       357 YD~AI~dye~A~e~n~  372 (504)
T KOG0624|consen  357 YDDAIHDYEKALELNE  372 (504)
T ss_pred             HHHHHHHHHHHHhcCc
Confidence            9999999998876543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.67  E-value=3.1e-05  Score=79.03  Aligned_cols=344  Identities=16%  Similarity=0.130  Sum_probs=199.9

Q ss_pred             HHHHHHHHcCCChhHHHHHHhcCCCCChh-hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCh
Q 039695           66 NHLINCYVRLKKTQVARQLFDEMLEPNVV-SYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADL  144 (605)
Q Consensus        66 ~~li~~~~~~g~~~~A~~~f~~m~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~  144 (605)
                      ..-|.+|....++++|+.+-+-.-.|... .-.+.++++...|+-++|-++-    .    .|..+. +.|+.|.+.|..
T Consensus       561 e~aigmy~~lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka~elk----~----sdgd~l-aaiqlyika~~p  631 (1636)
T KOG3616|consen  561 EEAIGMYQELHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKAAELK----E----SDGDGL-AAIQLYIKAGKP  631 (1636)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhhhhhc----c----ccCccH-HHHHHHHHcCCc
Confidence            35678888888999999887766555332 2344556666677776665442    1    122222 345566666666


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCCh--------------------------hh-H
Q 039695          145 ITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNV--------------------------VS-W  197 (605)
Q Consensus       145 ~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~--------------------------~~-~  197 (605)
                      ..|......  +..+..|......+..++.+..-+++|-.+|+.+..++-                          +. -
T Consensus       632 ~~a~~~a~n--~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~le  709 (1636)
T KOG3616|consen  632 AKAARAALN--DEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLE  709 (1636)
T ss_pred             hHHHHhhcC--HHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHH
Confidence            555443211  111222333333333333333333444444443332211                          10 0


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHh
Q 039695          198 TSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAK  277 (605)
Q Consensus       198 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  277 (605)
                      ......+.+.|+++.|+.-|-+..          .....+.+......|..|..+++.+......  ...|..+.+-|+.
T Consensus       710 e~wg~hl~~~~q~daainhfiea~----------~~~kaieaai~akew~kai~ildniqdqk~~--s~yy~~iadhyan  777 (1636)
T KOG3616|consen  710 EAWGDHLEQIGQLDAAINHFIEAN----------CLIKAIEAAIGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYAN  777 (1636)
T ss_pred             HHHhHHHHHHHhHHHHHHHHHHhh----------hHHHHHHHHhhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhcc
Confidence            111222334455555554443321          1123344555666778888888777665422  2345567788888


Q ss_pred             cCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          278 CGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      .|+++.|+++|-+..     .++--|..|.+.|++++|.++-.+..  |.......|.+-..-.-..|.+.+|.+++-.+
T Consensus       778 ~~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti  850 (1636)
T KOG3616|consen  778 KGDFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITI  850 (1636)
T ss_pred             chhHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEc
Confidence            888888888887543     45666788888888888887765442  33334455555555566778888887776544


Q ss_pred             HHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCch
Q 039695          358 YRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       358 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  437 (605)
                          | .|+.     .|.+|-+.|..++.+++.++-.  |+.-..+-..+..-+...|+...|+..|-++        .-
T Consensus       851 ----~-~p~~-----aiqmydk~~~~ddmirlv~k~h--~d~l~dt~~~f~~e~e~~g~lkaae~~flea--------~d  910 (1636)
T KOG3616|consen  851 ----G-EPDK-----AIQMYDKHGLDDDMIRLVEKHH--GDHLHDTHKHFAKELEAEGDLKAAEEHFLEA--------GD  910 (1636)
T ss_pred             ----c-CchH-----HHHHHHhhCcchHHHHHHHHhC--hhhhhHHHHHHHHHHHhccChhHHHHHHHhh--------hh
Confidence                2 3543     4678888888888888887753  3322456666777777888888887776543        23


Q ss_pred             HHHHHHHHHhcCChhHHHHHHH
Q 039695          438 YVTLSNTYALAGEWENVHSLRS  459 (605)
Q Consensus       438 ~~~l~~~y~~~g~~~~a~~~~~  459 (605)
                      |..-+++|-..+.|++|.++-+
T Consensus       911 ~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  911 FKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHh
Confidence            4556677777777777776654

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.66  E-value=8.8e-05  Score=74.82  Aligned_cols=195  Identities=12%  Similarity=-0.032  Sum_probs=89.4

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCC-CCChhhHH-HHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHH---HH
Q 039695           95 SYTSLMAGYINMGQPQIALLLFQKMLGNLV-WPNEFTFA-TVIKACSMLADLITGKQIHTHIETFGFQYNLVVCS---SL  169 (605)
Q Consensus        95 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~pd~~t~~-~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~---~L  169 (605)
                      .|..+...+...|+++.+...+.+..+... .++..... .....+...|+++.+.++++.+.+.. +.+...+.   .+
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHH
Confidence            344444455555555555444444433211 11211111 11122345566666666666666543 23333333   11


Q ss_pred             HHHHHhCCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCch
Q 039695          170 VDMYGKCNDVDGARRVFDLMGCRN---VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRL  246 (605)
Q Consensus       170 i~~y~~~g~~~~A~~~~~~m~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~  246 (605)
                      .......|..+.+.+.++.....+   ...+..+...+...|++++|...+++.....  +.+...+..+..++...|++
T Consensus        87 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN--PDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCH
Confidence            111222344455555554422211   1222334445666677777777776666543  22334444455555555666


Q ss_pred             hhHHHHHHHHHHhCC-CCcH--hHHHHHHHHHHhcCCHHHHHHHHhccC
Q 039695          247 VSGKVAHGVVVRSGC-EFND--VVASALVDMYAKCGSVNYSDKVFNRIS  292 (605)
Q Consensus       247 ~~a~~~~~~~~~~g~-~~~~--~~~~~li~~y~~~g~~~~A~~~~~~~~  292 (605)
                      ++|...+....+... .++.  ..+..+...+...|+.++|..+|++..
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            666655555544321 1111  223345555556666666666665543

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.64  E-value=2.4e-05  Score=71.56  Aligned_cols=189  Identities=10%  Similarity=0.041  Sum_probs=101.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCC-----CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 039695          268 ASALVDMYAKCGSVNYSDKVFNRISN-----PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACS  342 (605)
Q Consensus       268 ~~~li~~y~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~  342 (605)
                      +|.-...+.+.|+.+.|.+.+-.|+.     .|++|...+.-.= ..+++.+..+-+.-+..... -...||..++-.|+
T Consensus       244 fNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyC  321 (459)
T KOG4340|consen  244 FNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYC  321 (459)
T ss_pred             hhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHh
Confidence            34444456788999999999999984     5677766543222 23445554444454554433 34578999999999


Q ss_pred             ccCcHHHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHh-hcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCC---h
Q 039695          343 HSGLVDEGIQHLDSMYRKYGI-IPDAKHYTCVVDMLG-RTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGR---V  417 (605)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~-~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~---~  417 (605)
                      +..-++.|-.++.+-. ..-. -.+...|+ |++++. -.-..++|.+-++.+...-.+......+-+.--+..++   .
T Consensus       322 KNeyf~lAADvLAEn~-~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~  399 (459)
T KOG4340|consen  322 KNEYFDLAADVLAENA-HLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAI  399 (459)
T ss_pred             hhHHHhHHHHHHhhCc-chhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHH
Confidence            9988888888776431 1111 11233444 333333 33456666665554320000000011111111111111   1


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          418 DIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       418 ~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      ..+++-+++.+++--   .+...-...|.+..++..+.++|..-.+
T Consensus       400 R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  400 RKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHh
Confidence            223334444444331   2445566778888999999999876654

>PF12854 PPR_1: PPR repeat

Probab=98.63  E-value=5.3e-08  Score=59.52  Aligned_cols=33  Identities=36%  Similarity=0.530  Sum_probs=27.3

Q ss_pred             CCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcC
Q 039695          158 GFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMG  190 (605)
Q Consensus       158 g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~  190 (605)
                      |+.||..+||+||++|++.|++++|.++|++|+
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            678888888888888888888888888888874

>PF12854 PPR_1: PPR repeat

Probab=98.62  E-value=4.5e-08  Score=59.84  Aligned_cols=33  Identities=36%  Similarity=0.528  Sum_probs=26.3

Q ss_pred             CCCCchHHHHHHHHHHHcCCChhHHHHHHhcCC
Q 039695           57 GFLSNTFTLNHLINCYVRLKKTQVARQLFDEML   89 (605)
Q Consensus        57 g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~   89 (605)
                      |+.||..+||+||++|++.|++++|.++|++|+
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            677888888888888888888888888888773

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.60  E-value=6e-06  Score=77.85  Aligned_cols=181  Identities=11%  Similarity=0.020  Sum_probs=105.1

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCc----chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH--HHHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN--PSV----VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND--VTFVG  336 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~--~t~~~  336 (605)
                      ...+..+...|.+.|++++|...|+++..  |+.    .+|..+...|.+.|++++|+..++++.+.......  .++..
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~  112 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYL  112 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHH
Confidence            44555556666666666666666665543  221    24455556666666666666666666653211111  12333


Q ss_pred             HHHHHhcc--------CcHHHHHHHHHHHHHhcCCCCcH-HHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHH
Q 039695          337 VLHACSHS--------GLVDEGIQHLDSMYRKYGIIPDA-KHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTL  407 (605)
Q Consensus       337 ll~a~~~~--------g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~l  407 (605)
                      +..++...        |+.++|.+.++.+...   .|+. ..+..+...    +......             ......+
T Consensus       113 ~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~----~~~~~~~-------------~~~~~~~  172 (235)
T TIGR03302       113 RGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM----DYLRNRL-------------AGKELYV  172 (235)
T ss_pred             HHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH----HHHHHHH-------------HHHHHHH
Confidence            33333332        4555666666655432   3331 111111100    0000000             0111245


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          408 LSASRLHGRVDIAVEASNQLIESNQQVA---NAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...+...|+++.|...++++++..|+++   .++..++.+|.+.|++++|..+++.+..+.
T Consensus       173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            5678889999999999999999877654   688999999999999999999999887653

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).

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.60  E-value=0.00098  Score=67.11  Aligned_cols=393  Identities=12%  Similarity=0.043  Sum_probs=225.2

Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHH--HHHHHH--hcCChhHHHHHHHHHHhCCCC
Q 039695           50 HSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTS--LMAGYI--NMGQPQIALLLFQKMLGNLVW  125 (605)
Q Consensus        50 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~--li~~~~--~~g~~~~a~~~~~~m~~~g~~  125 (605)
                      ...++..+ +-+...+..=+-+..+.+.+++|+++.+.-..-  .+++.  +=.+|+  +.+..++|+..++     |..
T Consensus        35 ~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk~~~-----~~~  106 (652)
T KOG2376|consen   35 ANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALKTLK-----GLD  106 (652)
T ss_pred             HHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHHHHh-----ccc
Confidence            33444444 555666666667788899999999777654321  22222  244554  6788999999887     444


Q ss_pred             CChh-hHHHHHHHHhccCChHHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHH---H
Q 039695          126 PNEF-TFATVIKACSMLADLITGKQIHTHIETFGFQY-NLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTS---I  200 (605)
Q Consensus       126 pd~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~---l  200 (605)
                      ++.. +...-...|.+.|++++|..+|+.+.+++.+. +...-..++..-.    .-.+. +.+..+.....+|..   .
T Consensus       107 ~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a----~l~~~-~~q~v~~v~e~syel~yN~  181 (652)
T KOG2376|consen  107 RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA----ALQVQ-LLQSVPEVPEDSYELLYNT  181 (652)
T ss_pred             ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----hhhHH-HHHhccCCCcchHHHHHHH
Confidence            4333 55555566789999999999999998886321 2222222222111    11121 345555433334443   3


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCC------CCCChh-------HHHhHHHhhcccCchhhHHHHHHHHHHhCCCCc---
Q 039695          201 IVAHAQNAQGHEALEMFREFNYQSR------DRPNQH-------MLASVINACASLGRLVSGKVAHGVVVRSGCEFN---  264 (605)
Q Consensus       201 i~~~~~~g~~~~A~~~~~~m~~~~~------~~p~~~-------t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~---  264 (605)
                      ...+...|++.+|+++++.....+.      ..-+..       .-..+.-++-..|+-+++..++..+++......   
T Consensus       182 Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~~D~~~~  261 (652)
T KOG2376|consen  182 ACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNPADEPSL  261 (652)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCCCchHH
Confidence            4567789999999999998832110      111111       112333455678999999999999998764322   


Q ss_pred             HhHHHHHHHHHHhcCCHH-HHHHHHhccCCCCc--------------chHHH-HHHHHHHcCChhHHHHHHHHHHHcCCC
Q 039695          265 DVVASALVDMYAKCGSVN-YSDKVFNRISNPSV--------------VTYTS-MIVGAAKYGLGRFSLDLFNEMISRGIK  328 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~-~A~~~~~~~~~~~~--------------~~~~~-li~~~~~~g~~~~A~~l~~~m~~~g~~  328 (605)
                      ....|.|+.+-.-..-.+ .+...|+.......              +..|. ++..|.  +..+.+.++-...  .+..
T Consensus       262 Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~~~a~l--p~~~  337 (652)
T KOG2376|consen  262 AVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQVRELSASL--PGMS  337 (652)
T ss_pred             HHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhC--CccC
Confidence            223344443322111111 23333333322111              11222 222222  2222333332221  1233


Q ss_pred             CCHHHHHHHHHHHhc--cCcHHHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHhhcCCHHHHHHHHH--------hCC-C
Q 039695          329 PNDVTFVGVLHACSH--SGLVDEGIQHLDSMYRKYGIIPD--AKHYTCVVDMLGRTGRLDEAYKLAK--------SIQ-V  395 (605)
Q Consensus       329 pd~~t~~~ll~a~~~--~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~--------~m~-~  395 (605)
                      |. ..+..++..+..  ......+.+++......   .|.  ..+--.++......|+++.|.+++.        .++ .
T Consensus       338 p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~---~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~  413 (652)
T KOG2376|consen  338 PE-SLFPILLQEATKVREKKHKKAIELLLQFADG---HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEA  413 (652)
T ss_pred             ch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc---CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhh
Confidence            33 344555555433  22466777777766332   333  5566677888899999999999988        443 2


Q ss_pred             CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCC---CCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          396 DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIES----NQQ---VANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       396 ~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...  +.+-.++...+.+.++.+.|..++.+++.-    .+.   ....+..++..-.+.|+-++|..+++++.+..
T Consensus       414 ~~~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n  488 (652)
T KOG2376|consen  414 KHL--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN  488 (652)
T ss_pred             ccC--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC
Confidence            223  567777888888888888888888887752    122   22244455556667899999999999998743

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.59  E-value=0.00021  Score=73.19  Aligned_cols=259  Identities=15%  Similarity=0.176  Sum_probs=154.7

Q ss_pred             HhCCCHHHHHHHHhhcCCCChhh--HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHH
Q 039695          174 GKCNDVDGARRVFDLMGCRNVVS--WTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKV  251 (605)
Q Consensus       174 ~~~g~~~~A~~~~~~m~~~~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~  251 (605)
                      .....|.+|..+++.+..+++.+  |..+...|+..|+++.|.++|.+.-          .+.-.|..|.+.|+|+.|.+
T Consensus       743 i~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~kw~da~k  812 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGKWEDAFK  812 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhccccHHHHHH
Confidence            34455666666666665544332  5555666777777777777765421          23345556667777776666


Q ss_pred             HHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-
Q 039695          252 AHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN-  330 (605)
Q Consensus       252 ~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd-  330 (605)
                      +-...  .|.+.....|-+-..-.-+.|++.+|++++-.+..|+.     -|..|-++|..+..+.+..+-.     || 
T Consensus       813 la~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~h-----~d~  880 (1636)
T KOG3616|consen  813 LAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKHH-----GDH  880 (1636)
T ss_pred             HHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHhC-----hhh
Confidence            54433  23344455555555556667777777777776666653     3666777777777777665532     33 


Q ss_pred             -HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC--CchhhHHHH-
Q 039695          331 -DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDP--DGGPLLWGT-  406 (605)
Q Consensus       331 -~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p--~~~~~~~~~-  406 (605)
                       ..|...+..-+...|++..|..-|-+..          -|.+-+++|-..+.|++|.++-+.-.-..  ......|.- 
T Consensus       881 l~dt~~~f~~e~e~~g~lkaae~~flea~----------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaks  950 (1636)
T KOG3616|consen  881 LHDTHKHFAKELEAEGDLKAAEEHFLEAG----------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKS  950 (1636)
T ss_pred             hhHHHHHHHHHHHhccChhHHHHHHHhhh----------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHh
Confidence             2455556666777888888887766541          25567888999999999998876432100  000223322 


Q ss_pred             -----HHHHHHHcCChHHHHH-------------HHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          407 -----LLSASRLHGRVDIAVE-------------ASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       407 -----ll~~~~~~g~~~~a~~-------------~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                           -...+.++|-.+.|+.             +.+-..+  ...+.++.-+..-+...|++++|.+-+-+..+.+.
T Consensus       951 iggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k--~k~~~vhlk~a~~ledegk~edaskhyveaiklnt 1026 (1636)
T KOG3616|consen  951 IGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAK--DKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLNT 1026 (1636)
T ss_pred             hCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhh--ccCccchhHHhhhhhhccchhhhhHhhHHHhhccc
Confidence                 1223344554444443             3322222  22245677777788899999999888777766554

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.57  E-value=1.4e-05  Score=70.79  Aligned_cols=193  Identities=13%  Similarity=0.079  Sum_probs=134.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCCCC---cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhc
Q 039695          268 ASALVDMYAKCGSVNYSDKVFNRISNPS---VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN-DVTFVGVLHACSH  343 (605)
Q Consensus       268 ~~~li~~y~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~  343 (605)
                      ..-|.-.|...|+...|..-+++..+.|   ..+|..+...|.+.|..+.|.+-|++....  .|+ ....|..-.-+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHHh
Confidence            3445566778888888888888776533   346777777788888888888888877763  343 3344444444566


Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHH
Q 039695          344 SGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVE  422 (605)
Q Consensus       344 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~  422 (605)
                      .|.+++|.+.|+.....-...--..+|..+.-+..+.|+++.|.+.|++. ...|+ .+.+...+.......|++-.|..
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHHH
Confidence            77888888888877654333333667777777777888888888888763 33343 25566777777778888888888


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          423 ASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       423 ~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .++....-.+.........+.+--..|+-+.+.+.-..+..
T Consensus       195 ~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         195 YLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            88887777666666777777777788888877777666654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.55  E-value=9.7e-06  Score=74.05  Aligned_cols=303  Identities=14%  Similarity=0.089  Sum_probs=158.0

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CChhhHHH-HHHHHHHc
Q 039695          131 FATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--RNVVSWTS-IIVAHAQN  207 (605)
Q Consensus       131 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~-li~~~~~~  207 (605)
                      |.+++....+..++..+.+++..-.+.. +.+....+.|..+|-...++..|-..++++..  |...-|.. -.+.+.+.
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A   91 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKA   91 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHh
Confidence            3333433444444555555544443332 12333444444555555555555555555533  22222221 12334455


Q ss_pred             CChhHHHHHHHHHHHcCCCCCChhHHHhHHHhh--cccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHH
Q 039695          208 AQGHEALEMFREFNYQSRDRPNQHMLASVINAC--ASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSD  285 (605)
Q Consensus       208 g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~--~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~  285 (605)
                      +.+..|+.+...|...    |+...-..-+.+.  .+.+++..++.+.++....|   +..+.+...-...+.|+.+.|.
T Consensus        92 ~i~ADALrV~~~~~D~----~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAv  164 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN----PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAV  164 (459)
T ss_pred             cccHHHHHHHHHhcCC----HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHH
Confidence            5566666665555321    2211111111111  13344444444444433211   2233333334445667777777


Q ss_pred             HHHhccCC----CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHH---------
Q 039695          286 KVFNRISN----PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQ---------  352 (605)
Q Consensus       286 ~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~---------  352 (605)
                      +-|+...+    .....||.-+.. .+.|+.+.|+++..+.+++|++-.+. ++        .|..-++..         
T Consensus       165 qkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPE-lg--------IGm~tegiDvrsvgNt~~  234 (459)
T KOG4340|consen  165 QKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPE-LG--------IGMTTEGIDVRSVGNTLV  234 (459)
T ss_pred             HHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCc-cC--------ccceeccCchhcccchHH
Confidence            77776654    334556654443 45677888888888888887663221 10        011111100         


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC--CchhhHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 039695          353 HLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDP--DGGPLLWGTLLSASRLHGRVDIAVEASNQLIES  430 (605)
Q Consensus       353 ~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p--~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  430 (605)
                      +....        -++.+|.-...+.+.|+++.|.+.+..||.+.  +.+++|...+.-. -..+++..+.+-+.-++++
T Consensus       235 lh~Sa--------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~  305 (459)
T KOG4340|consen  235 LHQSA--------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQ  305 (459)
T ss_pred             HHHHH--------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhc
Confidence            00000        01223333444668899999999999987321  2226666554322 3456677777778888888


Q ss_pred             CCCCCchHHHHHHHHHhcCChhHHHHHHHH
Q 039695          431 NQQVANAYVTLSNTYALAGEWENVHSLRSE  460 (605)
Q Consensus       431 ~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~  460 (605)
                      +|-.+.++..++-.|++..-++-|..++-+
T Consensus       306 nPfP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  306 NPFPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             CCCChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            887778999999999999888888887754

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.49  E-value=7.7e-06  Score=74.09  Aligned_cols=119  Identities=11%  Similarity=0.148  Sum_probs=96.4

Q ss_pred             cCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHH-HHcCC--hH
Q 039695          344 SGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSAS-RLHGR--VD  418 (605)
Q Consensus       344 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~-~~~g~--~~  418 (605)
                      .++.+++...++...+   ..| +...|..+...|...|++++|...+++.. ..|+ +...+..+..++ ...|+  .+
T Consensus        52 ~~~~~~~i~~l~~~L~---~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~  127 (198)
T PRK10370         52 QQTPEAQLQALQDKIR---ANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTP  127 (198)
T ss_pred             chhHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcH
Confidence            5666777766766643   345 48889999999999999999999998743 4454 377888888764 67777  59


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          419 IAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +|.++++++++.+|+++.++..++..+.+.|++++|...++++.+...
T Consensus       128 ~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~  175 (198)
T PRK10370        128 QTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNS  175 (198)
T ss_pred             HHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            999999999999999999999999999999999999999999987654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.47  E-value=3.8e-06  Score=71.94  Aligned_cols=108  Identities=12%  Similarity=-0.038  Sum_probs=69.2

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHH
Q 039695          334 FVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSAS  411 (605)
Q Consensus       334 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~  411 (605)
                      +..+..++...|++++|...|+...   .+.|+ ...|..+..++.+.|++++|...|+... ..|+ ++..|..+..++
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al---~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~-~~~a~~~lg~~l  102 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLV---MAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS-HPEPVYQTGVCL  102 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH---HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHH
Confidence            3344555666777777777777664   34443 6666667777777777777777776643 2332 256677777777


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...|+.++|+..++++++..|+++..+.....+.
T Consensus       103 ~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359        103 KMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            7777777777777777777777766665554443

>PLN02789 farnesyltranstransferase

Probab=98.46  E-value=5.2e-05  Score=73.85  Aligned_cols=145  Identities=12%  Similarity=0.100  Sum_probs=89.9

Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhc---CC----HH
Q 039695          313 RFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRT---GR----LD  384 (605)
Q Consensus       313 ~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~---g~----~~  384 (605)
                      ++++.+++++.+...+ |..+|....-++.+.|+++++++.++++++.   .| +...|+.....+.+.   |.    .+
T Consensus       125 ~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~---d~~N~sAW~~R~~vl~~~~~l~~~~~~~e  200 (320)
T PLN02789        125 NKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEE---DVRNNSAWNQRYFVITRSPLLGGLEAMRD  200 (320)
T ss_pred             HHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---CCCchhHHHHHHHHHHhccccccccccHH
Confidence            4556666666553222 4455555555555666666666666666532   22 244444444333332   22    24


Q ss_pred             HHHHHH-HhCCCCCCchhhHHHHHHHHHHHc----CChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC----------
Q 039695          385 EAYKLA-KSIQVDPDGGPLLWGTLLSASRLH----GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAG----------  449 (605)
Q Consensus       385 ~A~~~~-~~m~~~p~~~~~~~~~ll~~~~~~----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g----------  449 (605)
                      ++++.. +.+...|+ +...|+-+...+...    ++..+|...+.++++.+|.++.+...|++.|+...          
T Consensus       201 ~el~y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~  279 (320)
T PLN02789        201 SELKYTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTV  279 (320)
T ss_pred             HHHHHHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhh
Confidence            556665 33445554 377898888888773    34567888888888888998889999999998643          


Q ss_pred             --------ChhHHHHHHHHHH
Q 039695          450 --------EWENVHSLRSEMK  462 (605)
Q Consensus       450 --------~~~~a~~~~~~m~  462 (605)
                              ..++|.++++.+.
T Consensus       280 ~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        280 DTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hccccccccHHHHHHHHHHHH
Confidence                    2366777777773

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.46  E-value=3.1e-06  Score=72.46  Aligned_cols=102  Identities=8%  Similarity=-0.070  Sum_probs=89.3

Q ss_pred             CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHH
Q 039695          362 GIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVT  440 (605)
Q Consensus       362 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  440 (605)
                      .+.|+.  +..+...+...|++++|...|+... ..|+ +...|..+..++...|++++|...|+++++++|+++.++..
T Consensus        21 ~~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~   97 (144)
T PRK15359         21 SVDPET--VYASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQ   97 (144)
T ss_pred             HcCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            445653  5567888899999999999999854 4443 37899999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          441 LSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       441 l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ++.++...|++++|...++...+...
T Consensus        98 lg~~l~~~g~~~eAi~~~~~Al~~~p  123 (144)
T PRK15359         98 TGVCLKMMGEPGLAREAFQTAIKMSY  123 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999887554

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.41  E-value=1.1e-05  Score=82.60  Aligned_cols=220  Identities=14%  Similarity=0.083  Sum_probs=120.7

Q ss_pred             CCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHH
Q 039695          159 FQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVIN  238 (605)
Q Consensus       159 ~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~  238 (605)
                      ++|-...--.+...+...|-...|..+|++.     ..|.-.|-+|...|+..+|..+..+-.+   -+||...|..+.+
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le---k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE---KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc---CCCcchhHHHhhh
Confidence            3455556667778888888888888888875     4677788888888888888877776654   2456655555544


Q ss_pred             hhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHH
Q 039695          239 ACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDL  318 (605)
Q Consensus       239 a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l  318 (605)
                      ......-++                                   +|.++++....+                        
T Consensus       466 v~~d~s~yE-----------------------------------kawElsn~~sar------------------------  486 (777)
T KOG1128|consen  466 VLHDPSLYE-----------------------------------KAWELSNYISAR------------------------  486 (777)
T ss_pred             hccChHHHH-----------------------------------HHHHHhhhhhHH------------------------
Confidence            433332233                                   333333221110                        


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHh-CCCC
Q 039695          319 FNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKS-IQVD  396 (605)
Q Consensus       319 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~  396 (605)
                                    .-..+..-..+.++++++.+.|+.-.   .+.|- ..+|..+.-+..+.++++.|.+.|.. ....
T Consensus       487 --------------A~r~~~~~~~~~~~fs~~~~hle~sl---~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~  549 (777)
T KOG1128|consen  487 --------------AQRSLALLILSNKDFSEADKHLERSL---EINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLE  549 (777)
T ss_pred             --------------HHHhhccccccchhHHHHHHHHHHHh---hcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcC
Confidence                          00000000111344444444444322   22332 34444444444555555555555544 2234


Q ss_pred             CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          397 PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       397 p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      |+ +...||.+-.+|.+.|+-.+|...++++++.+-.+...|...+-.-.+.|.|++|.+.+.++.+
T Consensus       550 Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  550 PD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             CC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            44 2456666666666666666666666666666655555555555555666666666666666554

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.41  E-value=1.7e-05  Score=81.20  Aligned_cols=191  Identities=13%  Similarity=0.106  Sum_probs=161.0

Q ss_pred             CCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 039695          260 GCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLH  339 (605)
Q Consensus       260 g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  339 (605)
                      +++|--..-..+.+.+.++|-...|..+|++..     .|...|.+|...|+..+|..+..+..+  -+||+..|..+.+
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence            345556677788999999999999999999764     788889999999999999999988877  5789999999999


Q ss_pred             HHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCchhhHHHHHHHHHHHcCChH
Q 039695          340 ACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       340 a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      ......-+++|.++++....+        .-..+.....+.++++++.+.++. +...|- ...+|-.+..+..+.++.+
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~npl-q~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPL-QLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCcc-chhHHHhccHHHHHHhhhH
Confidence            988888899999998876433        111222233457899999999986 444442 3679999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          419 IAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      .|.+.|...+.++|++..+|+.+.-+|.+.|+-.+|...+++..+-+.
T Consensus       537 ~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~  584 (777)
T KOG1128|consen  537 AAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNY  584 (777)
T ss_pred             HHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCC
Confidence            999999999999999999999999999999999999999999988774

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.40  E-value=9.1e-06  Score=68.44  Aligned_cols=97  Identities=11%  Similarity=-0.016  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ....-.+...+...|++++|..+|+-+. ..|. +..-|-.|..+|...|++++|+..|..+..++|+++.++..++.+|
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            5555566777889999999999999854 3443 3778999999999999999999999999999999999999999999


Q ss_pred             HhcCChhHHHHHHHHHHhC
Q 039695          446 ALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       446 ~~~g~~~~a~~~~~~m~~~  464 (605)
                      ...|+.+.|.+.|+.....
T Consensus       114 L~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            9999999999999987653

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.39  E-value=0.0016  Score=68.02  Aligned_cols=358  Identities=11%  Similarity=0.066  Sum_probs=176.9

Q ss_pred             chHHHHHHHH--HHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhC-C--------CCCChh
Q 039695           61 NTFTLNHLIN--CYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGN-L--------VWPNEF  129 (605)
Q Consensus        61 ~~~~~~~li~--~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g--------~~pd~~  129 (605)
                      |..+-.++++  .|..-|+++.|.+-.+-+...  ..|..|.+.+.+..+.+-|.-.+-.|... |        -.|+ .
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~IkS~--~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e  801 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIKSD--SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-E  801 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHhhh--HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-c
Confidence            4444444442  345556666666655555442  24555666665555555544444333221 0        0111 1


Q ss_pred             hHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCC-hhhHHHHHHHHHHcC
Q 039695          130 TFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRN-VVSWTSIIVAHAQNA  208 (605)
Q Consensus       130 t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~-~~~~~~li~~~~~~g  208 (605)
                      +=.-+.-.....|.+++|+.++++..+.+         .|=..|-..|.|++|.++-+.-..-. -.||..-..-+-..+
T Consensus       802 ~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~  872 (1416)
T KOG3617|consen  802 DEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARR  872 (1416)
T ss_pred             hhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhc
Confidence            11112222335566666666666655432         12234455566666665544322100 112333333333344


Q ss_pred             ChhHHHHHHHHH----------HHcCC--------CCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHH
Q 039695          209 QGHEALEMFREF----------NYQSR--------DRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASA  270 (605)
Q Consensus       209 ~~~~A~~~~~~m----------~~~~~--------~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  270 (605)
                      +.+.|++.|++.          ....+        ...|...|.-...-+...|..+.|..++.....         |-+
T Consensus       873 Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs  943 (1416)
T KOG3617|consen  873 DIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFS  943 (1416)
T ss_pred             cHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhh
Confidence            555555544432          11100        123444455555555566777777777765543         334


Q ss_pred             HHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH---------
Q 039695          271 LVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHAC---------  341 (605)
Q Consensus       271 li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~---------  341 (605)
                      ++...|-.|+.++|.++-++-  .|......+...|-..|++.+|..+|.+.+.         |...|+.|         
T Consensus       944 ~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L 1012 (1416)
T KOG3617|consen  944 MVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRL 1012 (1416)
T ss_pred             heeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHH
Confidence            555556667777776665543  3444455566666677777777777665432         12222211         


Q ss_pred             ------hccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHH-HhCC----------CCCCchhhHH
Q 039695          342 ------SHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLA-KSIQ----------VDPDGGPLLW  404 (605)
Q Consensus       342 ------~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~-~~m~----------~~p~~~~~~~  404 (605)
                            +...+.-.|-++|++.    |...     ...+..|-++|.+.+|+++. +.-.          ..|+.++...
T Consensus      1013 ~nlal~s~~~d~v~aArYyEe~----g~~~-----~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll 1083 (1416)
T KOG3617|consen 1013 ANLALMSGGSDLVSAARYYEEL----GGYA-----HKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLL 1083 (1416)
T ss_pred             HHHHhhcCchhHHHHHHHHHHc----chhh-----hHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHH
Confidence                  1222333444555543    2211     12345677778777777762 2110          2333335555


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHH---------------------hc-CCCC---------CchHHHHHHHHHhcCChhH
Q 039695          405 GTLLSASRLHGRVDIAVEASNQLI---------------------ES-NQQV---------ANAYVTLSNTYALAGEWEN  453 (605)
Q Consensus       405 ~~ll~~~~~~g~~~~a~~~~~~~~---------------------~~-~p~~---------~~~~~~l~~~y~~~g~~~~  453 (605)
                      +.-..-+..+.+++.|..++....                     ++ .|..         ......++..+.++|.+..
T Consensus      1084 ~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~ 1163 (1416)
T KOG3617|consen 1084 RRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHA 1163 (1416)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHH
Confidence            555555666667776665553322                     11 1211         1256678888999998887


Q ss_pred             HHHHHH
Q 039695          454 VHSLRS  459 (605)
Q Consensus       454 a~~~~~  459 (605)
                      |-+=|.
T Consensus      1164 AtKKfT 1169 (1416)
T KOG3617|consen 1164 ATKKFT 1169 (1416)
T ss_pred             HHHHHh
Confidence            766543

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.38  E-value=3.3e-05  Score=69.99  Aligned_cols=155  Identities=13%  Similarity=0.114  Sum_probs=117.6

Q ss_pred             HHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHH
Q 039695          272 VDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGI  351 (605)
Q Consensus       272 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~  351 (605)
                      +-+|.+.|+++.+....+.+..+.        ..|...++.++++..+++.... -+.|...|..+...+...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~-~P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRA-NPQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            556888888877765554433221        0122356677888888877765 3446788889999999999999999


Q ss_pred             HHHHHHHHhcCCCCc-HHHHHHHHHHH-hhcCC--HHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHH
Q 039695          352 QHLDSMYRKYGIIPD-AKHYTCVVDML-GRTGR--LDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQ  426 (605)
Q Consensus       352 ~~~~~m~~~~~~~p~-~~~~~~li~~~-~~~g~--~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  426 (605)
                      ..|+...   .+.|+ ...+..+..++ .+.|+  .++|.+++++.. ..|+ +...+..+...+...|++++|+..+++
T Consensus        94 ~a~~~Al---~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         94 LAYRQAL---QLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHH---HhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999885   45665 88888888864 67777  599999999854 4454 378899999999999999999999999


Q ss_pred             HHhcCCCCCchHH
Q 039695          427 LIESNQQVANAYV  439 (605)
Q Consensus       427 ~~~~~p~~~~~~~  439 (605)
                      +++..|++..-+.
T Consensus       170 aL~l~~~~~~r~~  182 (198)
T PRK10370        170 VLDLNSPRVNRTQ  182 (198)
T ss_pred             HHhhCCCCccHHH
Confidence            9999988765443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.38  E-value=4.2e-05  Score=82.10  Aligned_cols=140  Identities=9%  Similarity=0.036  Sum_probs=97.4

Q ss_pred             CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHH
Q 039695          295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND-VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTC  372 (605)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~  372 (605)
                      ++..+-.|.....+.|+.++|..+++...+  ..||. .....+..++.+.+.+++|....++..   ...|+ ......
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l---~~~p~~~~~~~~  159 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYF---SGGSSSAREILL  159 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHh---hcCCCCHHHHHH
Confidence            456666677777777888888888887777  45654 455566677777788888887777665   34565 666677


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCC-CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHH
Q 039695          373 VVDMLGRTGRLDEAYKLAKSIQV-DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVT  440 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m~~-~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  440 (605)
                      +..++.+.|++++|.++|+++.. .|+ ...+|.++..++...|+.++|...|+++++...+....|+.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~  227 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTR  227 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHH
Confidence            77777788888888888877542 222 35677777778888888888888888887766444444443

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.34  E-value=0.00022  Score=75.78  Aligned_cols=394  Identities=11%  Similarity=0.012  Sum_probs=216.0

Q ss_pred             HHHHHHHHHhCCCCc-hHHHHHHHHHHHcCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695           47 ASVHSEILKSGFLSN-TFTLNHLINCYVRLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGN  122 (605)
Q Consensus        47 ~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  122 (605)
                      ..++..+....+.++ ...|..|-..|...-+...|.+.|+...+   .+..+|......|+...+++.|..+.-.--+.
T Consensus       476 ~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qk  555 (1238)
T KOG1127|consen  476 LALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQK  555 (1238)
T ss_pred             HHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhh
Confidence            334444433333333 24677777888877788888888887744   46778899999999999999998883322221


Q ss_pred             CCCCChhhHHH--HHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHH-
Q 039695          123 LVWPNEFTFAT--VIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTS-  199 (605)
Q Consensus       123 g~~pd~~t~~~--ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~-  199 (605)
                      .. .-...++.  +--.+...++...+..-|+...+.. +.|...|..|..+|..+|++..|.++|++...-++.+|-. 
T Consensus       556 a~-a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~  633 (1238)
T KOG1127|consen  556 AP-AFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGR  633 (1238)
T ss_pred             ch-HHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHH
Confidence            10 01112222  2334566778888888888887765 5678889999999999999999999998887644444332 


Q ss_pred             --HHHHHHHcCChhHHHHHHHHHHHcCC-----CCCChhHHHhHHHhhcccCchhh-------HHHHHHHHHHhCCCCcH
Q 039695          200 --IIVAHAQNAQGHEALEMFREFNYQSR-----DRPNQHMLASVINACASLGRLVS-------GKVAHGVVVRSGCEFND  265 (605)
Q Consensus       200 --li~~~~~~g~~~~A~~~~~~m~~~~~-----~~p~~~t~~~ll~a~~~~~~~~~-------a~~~~~~~~~~g~~~~~  265 (605)
                        ....-+..|.+.+|+..+........     ..--..++..+...+...|-...       +.+.+..........+.
T Consensus       634 fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~  713 (1238)
T KOG1127|consen  634 FKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDR  713 (1238)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhH
Confidence              12334567889999888877654210     11112223333333333332222       23333333322222222


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCCCCcch--HHHHHHH-HHHcCCh---h---HHHHHHHHHHHcCCCCCHHHHHH
Q 039695          266 VVASALVDMYAKCGSVNYSDKVFNRISNPSVVT--YTSMIVG-AAKYGLG---R---FSLDLFNEMISRGIKPNDVTFVG  336 (605)
Q Consensus       266 ~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~-~~~~g~~---~---~A~~l~~~m~~~g~~pd~~t~~~  336 (605)
                      ..+-.+.          +|-..|-... ||.+.  +..++.. +-..+..   +   -+.+.+-.-..  ...+..+|..
T Consensus       714 ~~Wi~as----------dac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyN  780 (1238)
T KOG1127|consen  714 LQWIVAS----------DACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYN  780 (1238)
T ss_pred             HHHHHHh----------HHHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHH
Confidence            2332222          2233333333 33221  1111111 1111111   1   01111111111  1112333333


Q ss_pred             HHHHHhc----cC----cHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHH
Q 039695          337 VLHACSH----SG----LVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGT  406 (605)
Q Consensus       337 ll~a~~~----~g----~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~  406 (605)
                      |...|.+    .+    +...|...+...+   .+..+ ...|+.|.-+ +..|.+.-|..-|-+-. ..|. ...+|..
T Consensus       781 LGinylr~f~~l~et~~~~~~Ai~c~KkaV---~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~-~~~~W~N  855 (1238)
T KOG1127|consen  781 LGINYLRYFLLLGETMKDACTAIRCCKKAV---SLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPT-CHCQWLN  855 (1238)
T ss_pred             HhHHHHHHHHHcCCcchhHHHHHHHHHHHH---HHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcccc-chhheec
Confidence            3332222    11    2234555555443   23333 4555555443 55566666666554322 2232 2667888


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHH
Q 039695          407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSE  460 (605)
Q Consensus       407 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~  460 (605)
                      +...|.++.+++.|..+|..+..++|.+...|.....+-...|+.-++..+|..
T Consensus       856 lgvL~l~n~d~E~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  856 LGVLVLENQDFEHAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             cceeEEecccHHHhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            888888888888888888888888888888777777777777777777776655

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.32  E-value=0.0015  Score=74.80  Aligned_cols=370  Identities=9%  Similarity=-0.044  Sum_probs=231.9

Q ss_pred             HHHHHHHHHHcCCChhHHHHHHhcCCCCChhh--HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhcc
Q 039695           64 TLNHLINCYVRLKKTQVARQLFDEMLEPNVVS--YTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSML  141 (605)
Q Consensus        64 ~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~--~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~  141 (605)
                      ........|...|++.+|..........+...  ...........|++..+..++..+.......+..........+...
T Consensus       343 lh~raa~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~  422 (903)
T PRK04841        343 LHRAAAEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQ  422 (903)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHC
Confidence            44455666778899888888777765443222  1112233445678877777776653221111222233334445677


Q ss_pred             CChHHHHHHHHHHHHhCC------CCc--hhHHHHHHHHHHhCCCHHHHHHHHhhcCC----CCh----hhHHHHHHHHH
Q 039695          142 ADLITGKQIHTHIETFGF------QYN--LVVCSSLVDMYGKCNDVDGARRVFDLMGC----RNV----VSWTSIIVAHA  205 (605)
Q Consensus       142 ~~~~~a~~~~~~~~~~g~------~~~--~~~~~~Li~~y~~~g~~~~A~~~~~~m~~----~~~----~~~~~li~~~~  205 (605)
                      |+++++...+..+...--      .+.  ......+...+...|++++|...+++...    .+.    ..++.+...+.
T Consensus       423 g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~  502 (903)
T PRK04841        423 HRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHH  502 (903)
T ss_pred             CCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHH
Confidence            899999988887755311      111  12223344566789999999998877532    221    34455666778


Q ss_pred             HcCChhHHHHHHHHHHHc----CCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHH----hCCC---CcHhHHHHHHHH
Q 039695          206 QNAQGHEALEMFREFNYQ----SRDRPNQHMLASVINACASLGRLVSGKVAHGVVVR----SGCE---FNDVVASALVDM  274 (605)
Q Consensus       206 ~~g~~~~A~~~~~~m~~~----~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~----~g~~---~~~~~~~~li~~  274 (605)
                      ..|++++|...+.+....    |...+...++..+...+...|+++.|...+.....    .+..   .....+..+...
T Consensus       503 ~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~  582 (903)
T PRK04841        503 CKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQL  582 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHH
Confidence            899999999998887643    20111223555666677889999999998877655    2322   133455667777


Q ss_pred             HHhcCCHHHHHHHHhccCC------C--CcchHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCCCHHHH--HHHHHH
Q 039695          275 YAKCGSVNYSDKVFNRISN------P--SVVTYTSMIVGAAKYGLGRFSLDLFNEMISR----GIKPNDVTF--VGVLHA  340 (605)
Q Consensus       275 y~~~g~~~~A~~~~~~~~~------~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~pd~~t~--~~ll~a  340 (605)
                      +...|++++|...+.+...      +  ....+..+...+...|+.++|...+.+....    +..+.....  ...+..
T Consensus       583 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~  662 (903)
T PRK04841        583 LWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIY  662 (903)
T ss_pred             HHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHH
Confidence            8888999999988887642      1  1223444556778899999999999887542    111111111  112234


Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCc---HHHHHHHHHHHhhcCCHHHHHHHHHhCCC------CCCchhhHHHHHHHHH
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIPD---AKHYTCVVDMLGRTGRLDEAYKLAKSIQV------DPDGGPLLWGTLLSAS  411 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~------~p~~~~~~~~~ll~~~  411 (605)
                      +...|+.+.+.+.+...... .....   ...+..+..++...|+.++|...+++...      .+.....+...+..++
T Consensus       663 ~~~~g~~~~A~~~l~~~~~~-~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~  741 (903)
T PRK04841        663 WQMTGDKEAAANWLRQAPKP-EFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLY  741 (903)
T ss_pred             HHHCCCHHHHHHHHHhcCCC-CCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHH
Confidence            45588999999988766321 11111   11245677888899999999998876420      1111134677788889


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCC
Q 039695          412 RLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      ...|+.++|...+.+++++....
T Consensus       742 ~~~G~~~~A~~~L~~Al~la~~~  764 (903)
T PRK04841        742 WQQGRKSEAQRVLLEALKLANRT  764 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHhCcc
Confidence            99999999999999999876443

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.32  E-value=0.0006  Score=67.31  Aligned_cols=138  Identities=19%  Similarity=0.196  Sum_probs=80.2

Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCC
Q 039695          305 GAAKYGLGRFSLDLFNEMISRGIKPND-VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGR  382 (605)
Q Consensus       305 ~~~~~g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~  382 (605)
                      .+...|..++|+..++.+...  .||. .........+...++..+|.+.++.++   ...|+ ....-.+.++|.+.|+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal---~l~P~~~~l~~~~a~all~~g~  389 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKAL---ALDPNSPLLQLNLAQALLKGGK  389 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH---hcCCCccHHHHHHHHHHHhcCC
Confidence            344556666677776666653  3333 333334445566666666666666664   34555 4445556666666677


Q ss_pred             HHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          383 LDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       383 ~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      +.+|+.+++........++..|..|..+|...|+..++...                 ....|...|+|++|........
T Consensus       390 ~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~~l~~A~  452 (484)
T COG4783         390 PQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAIIFLMRAS  452 (484)
T ss_pred             hHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHHHHHHHH
Confidence            66666666654322222366666666666666666555433                 3345566667777777666665


Q ss_pred             hC
Q 039695          463 RT  464 (605)
Q Consensus       463 ~~  464 (605)
                      ++
T Consensus       453 ~~  454 (484)
T COG4783         453 QQ  454 (484)
T ss_pred             Hh
Confidence            54

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.28  E-value=0.00015  Score=79.53  Aligned_cols=225  Identities=11%  Similarity=0.120  Sum_probs=165.3

Q ss_pred             ChhHHHhHHHhhcccCchhhHHHHHHHHHHhC-C---CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-CC-cchHHHH
Q 039695          229 NQHMLASVINACASLGRLVSGKVAHGVVVRSG-C---EFNDVVASALVDMYAKCGSVNYSDKVFNRISN-PS-VVTYTSM  302 (605)
Q Consensus       229 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g-~---~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-~~-~~~~~~l  302 (605)
                      ....|..-|.-..+.++++.|+++.+++++.= +   +--..+|.+++++-..-|.-+...++|++..+ -| -..|..|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L 1536 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKL 1536 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHH
Confidence            34456666666677788888888887777631 1   11245788888888778888888999998876 23 3568889


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc---HHHHHHHHHHHhh
Q 039695          303 IVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD---AKHYTCVVDMLGR  379 (605)
Q Consensus       303 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~  379 (605)
                      ...|.+.+..++|.++|+.|.+. ..-....|...+..+.+...-+.|..++.+.++.   -|.   .....-.+++-.+
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~---lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS---LPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh---cchhhhHHHHHHHHHHHhh
Confidence            99999999999999999999885 3445677888888888988889999999888643   343   5556666777889


Q ss_pred             cCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCCCc-hHHHHHHHHHhcCChhHHH
Q 039695          380 TGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN--QQVAN-AYVTLSNTYALAGEWENVH  455 (605)
Q Consensus       380 ~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~~~~-~~~~l~~~y~~~g~~~~a~  455 (605)
                      .|+.+.+..+|+... ..|. ....|+..+..-.++|+.+.++.+|++++.+.  |.... .|.-.+..--+.|+-+.+.
T Consensus      1613 ~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE 1691 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVE 1691 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHH
Confidence            999999999998754 2232 26699999999999999999999999999876  33322 3444444444445555444


Q ss_pred             HHH
Q 039695          456 SLR  458 (605)
Q Consensus       456 ~~~  458 (605)
                      .+-
T Consensus      1692 ~VK 1694 (1710)
T KOG1070|consen 1692 YVK 1694 (1710)
T ss_pred             HHH
Confidence            443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.27  E-value=1.4e-06  Score=54.06  Aligned_cols=35  Identities=34%  Similarity=0.564  Sum_probs=32.3

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh
Q 039695           94 VSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNE  128 (605)
Q Consensus        94 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~  128 (605)
                      ++||++|.+|++.|++++|.++|++|.+.|++||.
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=98.26  E-value=1.3e-05  Score=68.12  Aligned_cols=103  Identities=18%  Similarity=0.200  Sum_probs=84.6

Q ss_pred             CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          362 GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       362 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                      ...|+ ......+...+...|++++|.+.++... ..|+ ++..|..+...+...|+++.|...++++++.+|+++..+.
T Consensus        11 ~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~   89 (135)
T TIGR02552        11 GLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYF   89 (135)
T ss_pred             cCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHH
Confidence            44554 4556677788888899999999888753 2343 3778888889999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          440 TLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       440 ~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .++.+|...|++++|.+.++...+..
T Consensus        90 ~la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        90 HAAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            99999999999999999998887754

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.26  E-value=0.0022  Score=68.50  Aligned_cols=391  Identities=11%  Similarity=0.010  Sum_probs=212.1

Q ss_pred             CchHHHHHHHHHHHcCCChhHHHHHHhcCCCCCh-----hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHH
Q 039695           60 SNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNV-----VSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATV  134 (605)
Q Consensus        60 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~-----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~l  134 (605)
                      .+...+....+.|++..+++.|..+.-...+.+.     ..|--.--.|...++..+|+.-|+...+..++ |...|..+
T Consensus       524 tdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gL  602 (1238)
T KOG1127|consen  524 TDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGL  602 (1238)
T ss_pred             hhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHH
Confidence            3556777888999999999999888444322211     12333333455566777777777776664332 55567777


Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---------C-ChhhHHHHHHHH
Q 039695          135 IKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---------R-NVVSWTSIIVAH  204 (605)
Q Consensus       135 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---------~-~~~~~~~li~~~  204 (605)
                      ..+|...|.+..|.++|..+.... +.+....-....+-+..|.+.+|...+..+..         . -..++-.+...+
T Consensus       603 GeAY~~sGry~~AlKvF~kAs~Lr-P~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~  681 (1238)
T KOG1127|consen  603 GEAYPESGRYSHALKVFTKASLLR-PLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDS  681 (1238)
T ss_pred             HHHHHhcCceehHHHhhhhhHhcC-cHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            777777777777777776665432 11222222233344555666666666554421         0 011111122222


Q ss_pred             HHcCChhHHHHHHHHH-------HHcC-------------------CC---CCChhHHHhHHHhhcccCch---h---hH
Q 039695          205 AQNAQGHEALEMFREF-------NYQS-------------------RD---RPNQHMLASVINACASLGRL---V---SG  249 (605)
Q Consensus       205 ~~~g~~~~A~~~~~~m-------~~~~-------------------~~---~p~~~t~~~ll~a~~~~~~~---~---~a  249 (605)
                      .-.|-..+|...+++-       ....                   .+   .|+......+..-.-..+..   +   .|
T Consensus       682 ~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg  761 (1238)
T KOG1127|consen  682 AITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLG  761 (1238)
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHH
Confidence            2222222222222221       1111                   01   22222222221112222221   1   01


Q ss_pred             HHHHHHHHHhCCCCcHhHHHHHHHHHHh----cC----CHHHHHHHHhccC---CCCcchHHHHHHHHHHcCChhHHHHH
Q 039695          250 KVAHGVVVRSGCEFNDVVASALVDMYAK----CG----SVNYSDKVFNRIS---NPSVVTYTSMIVGAAKYGLGRFSLDL  318 (605)
Q Consensus       250 ~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g----~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l  318 (605)
                      -+.+.  ....+..+...|..|+.-|.+    +|    +...|...+....   ..+..+||.|... ...|++.-|...
T Consensus       762 ~~c~~--~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHC  838 (1238)
T KOG1127|consen  762 YECGI--AHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHC  838 (1238)
T ss_pred             HHHhh--HHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhh
Confidence            11111  111112223344444333332    22    2235666665544   3566788877655 556777777777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHh-----
Q 039695          319 FNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKS-----  392 (605)
Q Consensus       319 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~-----  392 (605)
                      |-+-... .+-+..+|..+--.|....+++.|...|....   .+.|+ ...|--........|+.-++..+|..     
T Consensus       839 fIks~~s-ep~~~~~W~NlgvL~l~n~d~E~A~~af~~~q---SLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~  914 (1238)
T KOG1127|consen  839 FIKSRFS-EPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQ---SLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELC  914 (1238)
T ss_pred             hhhhhhc-cccchhheeccceeEEecccHHHhhHHHHhhh---hcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhh
Confidence            7665554 33466778888777888899999999999774   66775 56665555555667888888888764     


Q ss_pred             CC--CCCCchhhHHHHHHHHHHHcCChHHHH----------HHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHH
Q 039695          393 IQ--VDPDGGPLLWGTLLSASRLHGRVDIAV----------EASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSE  460 (605)
Q Consensus       393 m~--~~p~~~~~~~~~ll~~~~~~g~~~~a~----------~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~  460 (605)
                      +.  .-|+  ..-|-.-..-...+|+.++-+          -+.++.+...|+...+|...+......+.+.+|.++..+
T Consensus       915 ~~~gka~~--f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~R  992 (1238)
T KOG1127|consen  915 SKEGKAKK--FQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATR  992 (1238)
T ss_pred             ccccccch--hhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            21  1233  444544444455666655443          334555566799888999988888888888888776665


Q ss_pred             H
Q 039695          461 M  461 (605)
Q Consensus       461 m  461 (605)
                      .
T Consensus       993 l  993 (1238)
T KOG1127|consen  993 L  993 (1238)
T ss_pred             H
Confidence            4

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.25  E-value=0.0003  Score=69.96  Aligned_cols=347  Identities=12%  Similarity=0.038  Sum_probs=199.0

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCc-hhHHHHHHHHHHhCCCH
Q 039695          101 AGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYN-LVVCSSLVDMYGKCNDV  179 (605)
Q Consensus       101 ~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~Li~~y~~~g~~  179 (605)
                      .+....|+++.|+.+|.+....... |.+.|+.-..++++.|++++|.+=-...++.  .|+ ..-|+.+..+..-.|++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~-nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~   86 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPT-NHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDY   86 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCC-ccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccH
Confidence            3456789999999999998876443 8888999999999999999988776666654  455 35788888888889999


Q ss_pred             HHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHH-HcCCCCCC--------hhHHHhHHHhhcccC---
Q 039695          180 DGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFN-YQSRDRPN--------QHMLASVINACASLG---  244 (605)
Q Consensus       180 ~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~~~~~p~--------~~t~~~ll~a~~~~~---  244 (605)
                      ++|+..|.+=.+   .+...++-+..++.-..   ++.+.|..-. -.+ +.-+        ...|..++...-+..   
T Consensus        87 ~eA~~ay~~GL~~d~~n~~L~~gl~~a~~~~~---~~~~~~~~p~~~~~-l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l  162 (539)
T KOG0548|consen   87 EEAILAYSEGLEKDPSNKQLKTGLAQAYLEDY---AADQLFTKPYFHEK-LANLPLTNYSLSDPAYVKILEIIQKNPTSL  162 (539)
T ss_pred             HHHHHHHHHHhhcCCchHHHHHhHHHhhhHHH---HhhhhccCcHHHHH-hhcChhhhhhhccHHHHHHHHHhhcCcHhh
Confidence            999999987654   34566666666662110   0111111000 000 0111        112222222221110   


Q ss_pred             ----chhhHHHHHHHHHH--------h-------CCCC------------c----------HhHHHHHHHHHHhcCCHHH
Q 039695          245 ----RLVSGKVAHGVVVR--------S-------GCEF------------N----------DVVASALVDMYAKCGSVNY  283 (605)
Q Consensus       245 ----~~~~a~~~~~~~~~--------~-------g~~~------------~----------~~~~~~li~~y~~~g~~~~  283 (605)
                          +.....+.+..+..        .       +..|            |          ..-...|.++..+..+++.
T Consensus       163 ~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~  242 (539)
T KOG0548|consen  163 KLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFET  242 (539)
T ss_pred             hcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHH
Confidence                00111111111100        0       0000            0          0112344555555556666


Q ss_pred             HHHHHhccCC--CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC--C----HHHHHHHHHHHhccCcHHHHHHHHH
Q 039695          284 SDKVFNRISN--PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP--N----DVTFVGVLHACSHSGLVDEGIQHLD  355 (605)
Q Consensus       284 A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p--d----~~t~~~ll~a~~~~g~~~~a~~~~~  355 (605)
                      |.+-++...+  .++.-++....+|...|.+.+....-....+.|-..  |    ...+..+-.++.+.++++.+..+|.
T Consensus       243 a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~  322 (539)
T KOG0548|consen  243 AIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYYQ  322 (539)
T ss_pred             HHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHH
Confidence            6666655443  233334445556666666655555555444433211  1    1112223335555666777777777


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 039695          356 SMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       356 ~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      +....+ -.|+         .+.+....+++....+... ..|.. ..--..-.+.+.+.|++..|+..|.++++.+|+|
T Consensus       323 kaLte~-Rt~~---------~ls~lk~~Ek~~k~~e~~a~~~pe~-A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~P~D  391 (539)
T KOG0548|consen  323 KALTEH-RTPD---------LLSKLKEAEKALKEAERKAYINPEK-AEEEREKGNEAFKKGDYPEAVKHYTEAIKRDPED  391 (539)
T ss_pred             HHhhhh-cCHH---------HHHHHHHHHHHHHHHHHHHhhChhH-HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCch
Confidence            654432 2222         2233344455555444322 33431 2223333677889999999999999999999999


Q ss_pred             CchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          435 ANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       435 ~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +..|...+-+|.+.|.+..|.+--+...+..
T Consensus       392 a~lYsNRAac~~kL~~~~~aL~Da~~~ieL~  422 (539)
T KOG0548|consen  392 ARLYSNRAACYLKLGEYPEALKDAKKCIELD  422 (539)
T ss_pred             hHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            9999999999999999999998777666653

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.24  E-value=2e-06  Score=53.42  Aligned_cols=35  Identities=46%  Similarity=0.743  Sum_probs=32.3

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND  331 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~  331 (605)
                      .+||+||.+|++.|++++|.++|++|.+.|++||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999983

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.23  E-value=8.7e-05  Score=74.32  Aligned_cols=244  Identities=15%  Similarity=0.039  Sum_probs=165.8

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHH
Q 039695          204 HAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNY  283 (605)
Q Consensus       204 ~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~  283 (605)
                      +.+.|+..+|.-.|+......  +-+...|..+-..-+..++-..|...+...++.. +.+..+.-+|.-.|...|.-..
T Consensus       295 lm~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            456777777777777766553  3355566666666666666667777777666654 4466667777777777777777


Q ss_pred             HHHHHhccCC------------CCcchHHHHHHHHHHcCChhHHHHHHHHHHH-cCCCCCHHHHHHHHHHHhccCcHHHH
Q 039695          284 SDKVFNRISN------------PSVVTYTSMIVGAAKYGLGRFSLDLFNEMIS-RGIKPNDVTFVGVLHACSHSGLVDEG  350 (605)
Q Consensus       284 A~~~~~~~~~------------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-~g~~pd~~t~~~ll~a~~~~g~~~~a  350 (605)
                      |.+.++.-..            ++...=+.  ..+..........++|-++.. .+..+|......|---|--.|.+++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            7777665421            01000000  111222223455667766654 45446666666666667788999999


Q ss_pred             HHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHH
Q 039695          351 IQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLI  428 (605)
Q Consensus       351 ~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  428 (605)
                      ...|+.++   .++|+ ...||-|...++...+.+||+..|++. ..+|. -+.++..|..+|...|.+++|...|-.++
T Consensus       450 iDcf~~AL---~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~-yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  450 VDCFEAAL---QVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPG-YVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHH---hcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCC-eeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            99999886   56786 889999999999999999999999884 46676 25588889999999999999999999988


Q ss_pred             hcCCCC-----C-----chHHHHHHHHHhcCChhHHHH
Q 039695          429 ESNQQV-----A-----NAYVTLSNTYALAGEWENVHS  456 (605)
Q Consensus       429 ~~~p~~-----~-----~~~~~l~~~y~~~g~~~~a~~  456 (605)
                      .+.+.+     .     .+|..|=.++.-.++.|-+.+
T Consensus       526 ~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  526 SMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             HhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            765431     1     255555555555666554433

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.22  E-value=0.00052  Score=67.72  Aligned_cols=177  Identities=19%  Similarity=0.178  Sum_probs=130.1

Q ss_pred             CHHHHHHHHhccCC------CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 039695          280 SVNYSDKVFNRISN------PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQH  353 (605)
Q Consensus       280 ~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~  353 (605)
                      ++.+++..-+.++.      ++...+...+.+.........+..++.+-.+.  .-...-|..-+ .....|.+++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A~-~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRAL-QTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHHH-HHHHhcccchHHHH
Confidence            45666666666663      44455556665544433333333333322221  11223343333 44567999999999


Q ss_pred             HHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 039695          354 LDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN  431 (605)
Q Consensus       354 ~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  431 (605)
                      ++.+.+.   .|+ +.......+.+.+.++.++|.+.++++. ..|+. ...+-.+..++.+.|++.+|+..++.....+
T Consensus       329 l~~L~~~---~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~-~~l~~~~a~all~~g~~~eai~~L~~~~~~~  404 (484)
T COG4783         329 LQPLIAA---QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNS-PLLQLNLAQALLKGGKPQEAIRILNRYLFND  404 (484)
T ss_pred             HHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCc-cHHHHHHHHHHHhcCChHHHHHHHHHHhhcC
Confidence            9998743   555 7777788899999999999999999864 45653 7788899999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          432 QQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       432 p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      |+++..|..|+.+|...|+..++...+.+.-.
T Consensus       405 p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         405 PEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             CCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            99999999999999999999999998877644

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.18  E-value=0.00014  Score=68.58  Aligned_cols=184  Identities=16%  Similarity=0.069  Sum_probs=126.7

Q ss_pred             CChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCC-C-cHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCcc----hH
Q 039695          228 PNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE-F-NDVVASALVDMYAKCGSVNYSDKVFNRISN--PSVV----TY  299 (605)
Q Consensus       228 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~-~-~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~----~~  299 (605)
                      .....+......+...|+++.|...+..+.+.... + ....+..+...|.+.|++++|...|+++.+  |+..    ++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            34556777778888999999999999998876421 1 124677889999999999999999999864  3222    35


Q ss_pred             HHHHHHHHHc--------CChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHH
Q 039695          300 TSMIVGAAKY--------GLGRFSLDLFNEMISRGIKPNDV-TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHY  370 (605)
Q Consensus       300 ~~li~~~~~~--------g~~~~A~~l~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~  370 (605)
                      ..+..++.+.        |+.++|.+.|++....  .|+.. ....+....    ..      ....         ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~----~~------~~~~---------~~~~  169 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD----YL------RNRL---------AGKE  169 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH----HH------HHHH---------HHHH
Confidence            5555566554        7789999999999874  44432 221111110    00      0000         0112


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCC-CCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 039695          371 TCVVDMLGRTGRLDEAYKLAKSIQ-VDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQ  432 (605)
Q Consensus       371 ~~li~~~~~~g~~~~A~~~~~~m~-~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  432 (605)
                      ..+...|.+.|++++|...++... ..|+  .....|..+..++...|+.++|...++.+....|
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            346677889999999999988753 2222  1246888999999999999999998888776555

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).

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.16  E-value=0.0011  Score=72.37  Aligned_cols=167  Identities=11%  Similarity=-0.010  Sum_probs=93.9

Q ss_pred             hhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcC
Q 039695          129 FTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNA  208 (605)
Q Consensus       129 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g  208 (605)
                      ..+..|+..+...+++++|.++.+...+.. +.....|-.+...|.+.++.+++..+  .           ++.......
T Consensus        32 ~a~~~Li~~~~~~~~~deai~i~~~~l~~~-P~~i~~yy~~G~l~~q~~~~~~~~lv--~-----------~l~~~~~~~   97 (906)
T PRK14720         32 KELDDLIDAYKSENLTDEAKDICEEHLKEH-KKSISALYISGILSLSRRPLNDSNLL--N-----------LIDSFSQNL   97 (906)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CcceehHHHHHHHHHhhcchhhhhhh--h-----------hhhhccccc
Confidence            355556666666666666666666544432 22222333333355555554444433  1           222222333


Q ss_pred             ChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHH
Q 039695          209 QGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVF  288 (605)
Q Consensus       209 ~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  288 (605)
                      ++.-+..+...|...   .-+...+..+..+|.++|+.+++..+++.+++.. +.|+.+.|.+...|+.. ++++|.+++
T Consensus        98 ~~~~ve~~~~~i~~~---~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~  172 (906)
T PRK14720         98 KWAIVEHICDKILLY---GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYL  172 (906)
T ss_pred             chhHHHHHHHHHHhh---hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHH
Confidence            332222233333332   2344456666667777777777777777777766 56777777777777777 777777776


Q ss_pred             hccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 039695          289 NRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISR  325 (605)
Q Consensus       289 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  325 (605)
                      .+.           +.-|...+++.++.++|.++...
T Consensus       173 ~KA-----------V~~~i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        173 KKA-----------IYRFIKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             HHH-----------HHHHHhhhcchHHHHHHHHHHhc
Confidence            643           33366666777777777777763

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.14  E-value=0.0026  Score=66.49  Aligned_cols=157  Identities=8%  Similarity=0.003  Sum_probs=103.1

Q ss_pred             HHHhcCCCCChhhHHHHHH--HHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHh---
Q 039695           83 QLFDEMLEPNVVSYTSLMA--GYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETF---  157 (605)
Q Consensus        83 ~~f~~m~~~~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~---  157 (605)
                      +-|-.+..-|..+-.+++.  .|..-|+.+.|.+-.+..+.      ...|..+.+.|.+..+++-|+-.+..|...   
T Consensus       716 rdFvgle~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRga  789 (1416)
T KOG3617|consen  716 RDFVGLENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGA  789 (1416)
T ss_pred             HHhcCccccCHHHHHhhhceeEEEEeccHHHHHHHHHHHhh------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhH
Confidence            3344445567777777764  56778999999988877654      356888999999988888887776655321   


Q ss_pred             -----C-CCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChh
Q 039695          158 -----G-FQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQH  231 (605)
Q Consensus       158 -----g-~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~  231 (605)
                           . -.++ ..-....-.-...|.+++|+.+|.+.+.     |..|=..|...|.+++|+++-+.-.... .   ..
T Consensus       790 RAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiH-L---r~  859 (1416)
T KOG3617|consen  790 RALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIH-L---RN  859 (1416)
T ss_pred             HHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhcccee-h---hh
Confidence                 1 1221 2222333344577999999999999765     3445567778999999999876432222 2   23


Q ss_pred             HHHhHHHhhcccCchhhHHHHHHH
Q 039695          232 MLASVINACASLGRLVSGKVAHGV  255 (605)
Q Consensus       232 t~~~ll~a~~~~~~~~~a~~~~~~  255 (605)
                      ||-.-..-+...++.+.|.+.++.
T Consensus       860 Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  860 TYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             hHHHHHHHHHhhccHHHHHHHHHh
Confidence            444444445556677777776653

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.14  E-value=3.8e-06  Score=51.69  Aligned_cols=34  Identities=35%  Similarity=0.551  Sum_probs=29.8

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 039695           93 VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWP  126 (605)
Q Consensus        93 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  126 (605)
                      +.+||++|.+|++.|+++.|.++|++|.+.|++|
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            3688999999999999999999999999888887

>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=98.10  E-value=9.9e-05  Score=73.40  Aligned_cols=125  Identities=16%  Similarity=0.163  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHH
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSA  410 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~  410 (605)
                      ....+|+..+...++++.|..+|+++.+.   .|+  ....++..+...++-.+|.+++++.. ..|. +...+......
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~-d~~LL~~Qa~f  243 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEF  243 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            34456677777889999999999999643   365  44457888888899999999988754 3343 26677777788


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          411 SRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       411 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      |...++++.|+.+++++.+..|.+..+|..|+.+|.+.|++++|...++.+.
T Consensus       244 Ll~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  244 LLSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999999999999998775

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PLN02789 farnesyltranstransferase

Probab=98.09  E-value=0.0012  Score=64.41  Aligned_cols=203  Identities=11%  Similarity=0.031  Sum_probs=116.3

Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCCChh-HHHhHHHhhcccC-chhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcC
Q 039695          202 VAHAQNAQGHEALEMFREFNYQSRDRPNQH-MLASVINACASLG-RLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCG  279 (605)
Q Consensus       202 ~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~-t~~~ll~a~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g  279 (605)
                      ..+...++.++|+.++.++...   .|+.. .+..--.++...+ .++++...+..+.+.. +.+..+++...-.+.+.|
T Consensus        45 a~l~~~e~serAL~lt~~aI~l---nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~  120 (320)
T PLN02789         45 AVYASDERSPRALDLTADVIRL---NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLG  120 (320)
T ss_pred             HHHHcCCCCHHHHHHHHHHHHH---CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcC
Confidence            3345556667777777766653   24332 2332223333444 4566666666666654 334445554444444455


Q ss_pred             CH--HHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc---Cc----H
Q 039695          280 SV--NYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHS---GL----V  347 (605)
Q Consensus       280 ~~--~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~---g~----~  347 (605)
                      ..  +++...++++.+   .|..+|+-..-.+...|+++++++.++++++.+.. |...|+.....+.+.   |.    .
T Consensus       121 ~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~  199 (320)
T PLN02789        121 PDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMR  199 (320)
T ss_pred             chhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccH
Confidence            42  556666666653   45567777777777888888888888888886544 444454444444333   22    2


Q ss_pred             HHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhc----CCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHH
Q 039695          348 DEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRT----GRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRL  413 (605)
Q Consensus       348 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~----g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~  413 (605)
                      ++..++...++   .+.|+ ...|+.+..+|...    ++..+|.+++.+.. ..|+ +......|+..+..
T Consensus       200 e~el~y~~~aI---~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~-s~~al~~l~d~~~~  267 (320)
T PLN02789        200 DSELKYTIDAI---LANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN-HVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHHHHH---HhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC-cHHHHHHHHHHHHh
Confidence            45566665554   33554 66777777777663    34466777776643 2332 25566777777764

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.08  E-value=0.016  Score=58.05  Aligned_cols=119  Identities=10%  Similarity=0.038  Sum_probs=74.6

Q ss_pred             HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC--chhhHHHHHHHHHHHcCChHHHHHHH
Q 039695          347 VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPD--GGPLLWGTLLSASRLHGRVDIAVEAS  424 (605)
Q Consensus       347 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~  424 (605)
                      .+....+++++.....+.|+. +|.++++.-.|..-++.|..+|.+....+-  ....+.++++.-++ .++.+-|.++|
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tL-v~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIF  424 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTL-VYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIF  424 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCce-ehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHH
Confidence            344455555555444555553 456667777777777777777776542211  01455666666544 46667777777


Q ss_pred             HHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          425 NQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       425 ~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      +--++..++++..-...++-+...++-..+..+|++....++.
T Consensus       425 eLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~  467 (656)
T KOG1914|consen  425 ELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLS  467 (656)
T ss_pred             HHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCC
Confidence            7777777776665556666677777777777777777766443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.07  E-value=0.00018  Score=65.18  Aligned_cols=151  Identities=13%  Similarity=0.050  Sum_probs=79.0

Q ss_pred             HHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHH
Q 039695          272 VDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVD  348 (605)
Q Consensus       272 i~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~  348 (605)
                      -..|...|+-+.+..+......   .|....+..+....++|++.+|+..|++.... -++|..+|+.+.-+|.+.|+++
T Consensus        73 a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~  151 (257)
T COG5010          73 ATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFD  151 (257)
T ss_pred             HHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChh
Confidence            3334444444444444443321   22233334555555666666666666665543 3445556666666666666666


Q ss_pred             HHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHH
Q 039695          349 EGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQ  426 (605)
Q Consensus       349 ~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  426 (605)
                      +|..-|.+..   .+.|+ ...++.|.-.|.-.|+++.|..++......|..+..+-..|.-+....|++++|+.+..+
T Consensus       152 ~Ar~ay~qAl---~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         152 EARRAYRQAL---ELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             HHHHHHHHHH---HhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhccc
Confidence            6666665553   23333 444555555555566666666666554333332355555555555666666666555443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.07  E-value=7.3e-06  Score=50.41  Aligned_cols=33  Identities=39%  Similarity=0.642  Sum_probs=28.2

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP  329 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  329 (605)
                      .+||++|.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888877

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.05  E-value=0.00079  Score=72.52  Aligned_cols=142  Identities=11%  Similarity=0.085  Sum_probs=112.1

Q ss_pred             CCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CC-cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHH
Q 039695          261 CEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PS-VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND-VTFVG  336 (605)
Q Consensus       261 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~-~t~~~  336 (605)
                      .+.++..+..|.......|..++|+.+++...+  || ...+..+...+.+.+++++|+..+++....  .|+. .....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            456688888899999999999999999998875  44 456777888999999999999999999884  4554 45566


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCchhhHHHHHHH
Q 039695          337 VLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ--VDPDGGPLLWGTLLS  409 (605)
Q Consensus       337 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~p~~~~~~~~~ll~  409 (605)
                      +..++...|.+++|..+|+++..   -.|+ ...+..+..++...|+.++|...|++..  ..|.  ...|+.++.
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~---~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~--~~~~~~~~~  230 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR---QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDG--ARKLTRRLV  230 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcc--hHHHHHHHH
Confidence            66778889999999999999964   2444 7888889999999999999999998853  2333  455555443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.04  E-value=0.0054  Score=55.87  Aligned_cols=176  Identities=14%  Similarity=0.052  Sum_probs=108.6

Q ss_pred             HHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH
Q 039695          253 HGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDV  332 (605)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  332 (605)
                      .+.+.......+......-...|.+.|++++|.+.......  ......=...+.+..+.+-|.+.+++|.+-   -+..
T Consensus        96 ~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~--lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~  170 (299)
T KOG3081|consen   96 YELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGEN--LEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDA  170 (299)
T ss_pred             HHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccch--HHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHH
Confidence            33444433344444444445667788888888888776332  222222234455666777888888888762   2556


Q ss_pred             HHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHH
Q 039695          333 TFVGVLHACSH----SGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLL  408 (605)
Q Consensus       333 t~~~ll~a~~~----~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll  408 (605)
                      |.+.|..++.+    .+.+..|.-+|++|..  ...|+..+.+-...+....|++++|..+++....+...++.+...++
T Consensus       171 tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nli  248 (299)
T KOG3081|consen  171 TLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLI  248 (299)
T ss_pred             HHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHH
Confidence            66666666643    3457778888888853  25677777777777777788888888887775423222356666666


Q ss_pred             HHHHHcCCh-HHHHHHHHHHHhcCCCCC
Q 039695          409 SASRLHGRV-DIAVEASNQLIESNQQVA  435 (605)
Q Consensus       409 ~~~~~~g~~-~~a~~~~~~~~~~~p~~~  435 (605)
                      .+....|.. +--.+...++....|..+
T Consensus       249 v~a~~~Gkd~~~~~r~l~QLk~~~p~h~  276 (299)
T KOG3081|consen  249 VLALHLGKDAEVTERNLSQLKLSHPEHP  276 (299)
T ss_pred             HHHHHhCCChHHHHHHHHHHHhcCCcch
Confidence            665555554 444566666666677654

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.00  E-value=0.00084  Score=60.98  Aligned_cols=151  Identities=16%  Similarity=0.137  Sum_probs=73.9

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCC
Q 039695          303 IVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGR  382 (605)
Q Consensus       303 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  382 (605)
                      -..+...|+.+....+..+.... ..-|............+.|++.+|...+.+...  .-++|...|+.+.-+|.+.|+
T Consensus        73 a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~Gr  149 (257)
T COG5010          73 ATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQLGR  149 (257)
T ss_pred             HHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHccC
Confidence            34444455555555554443321 111222333344455555555555555555531  223345555555555555555


Q ss_pred             HHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHH
Q 039695          383 LDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSL  457 (605)
Q Consensus       383 ~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~  457 (605)
                      +++|..-|.+. ...|+ .+...+.|.-.+.-.|+.+.|+.++.......+.++.+-..|.-.-...|++++|..+
T Consensus       150 ~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i  224 (257)
T COG5010         150 FDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDI  224 (257)
T ss_pred             hhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhh
Confidence            55555555442 22222 1445555555555555555555555555555555555555555555555555555544

>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=97.99  E-value=0.00023  Score=70.83  Aligned_cols=129  Identities=6%  Similarity=-0.003  Sum_probs=102.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC
Q 039695          266 VVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSG  345 (605)
Q Consensus       266 ~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g  345 (605)
                      ....+|+..+...++++.|..+|+++.+.++..+-.++..+...++..+|++++++.... .+-|......-...|.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcC
Confidence            344566677777889999999999998877777777888888888888999999988864 2235555555566678889


Q ss_pred             cHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC
Q 039695          346 LVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPD  398 (605)
Q Consensus       346 ~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~  398 (605)
                      +.+.|..+.+++.   ...|+ ..+|..|...|.+.|++++|+-.++.+|..+.
T Consensus       249 ~~~lAL~iAk~av---~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~~  299 (395)
T PF09295_consen  249 KYELALEIAKKAV---ELSPSEFETWYQLAECYIQLGDFENALLALNSCPMLTY  299 (395)
T ss_pred             CHHHHHHHHHHHH---HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCCC
Confidence            9999999999886   56776 67899999999999999999999999885543

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.90  E-value=0.001  Score=59.99  Aligned_cols=181  Identities=14%  Similarity=0.130  Sum_probs=113.1

Q ss_pred             cCCHHHHHHHHhccCC--------CCcc-hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHH-HHHhccCcH
Q 039695          278 CGSVNYSDKVFNRISN--------PSVV-TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVL-HACSHSGLV  347 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~~--------~~~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll-~a~~~~g~~  347 (605)
                      ..+.++..+++..+..        ++.. .|..++-+....|+.+-|...++++... + |.+.-...+= .-+-..|++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhch
Confidence            3466777777776652        2221 2334455556677778888888877765 2 4332221111 112345777


Q ss_pred             HHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCchhhHHHHHHHHHHHcCChHHHHHHH
Q 039695          348 DEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ--VDPDGGPLLWGTLLSASRLHGRVDIAVEAS  424 (605)
Q Consensus       348 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~  424 (605)
                      ++|.++++.+..+   .|+ ..+|--=+.+.-..|+.-+|++-+....  +-.|  ...|.-|...|...|+++.|.-.+
T Consensus       103 ~~A~e~y~~lL~d---dpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D--~EAW~eLaeiY~~~~~f~kA~fCl  177 (289)
T KOG3060|consen  103 KEAIEYYESLLED---DPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMND--QEAWHELAEIYLSEGDFEKAAFCL  177 (289)
T ss_pred             hhHHHHHHHHhcc---CcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCc--HHHHHHHHHHHHhHhHHHHHHHHH
Confidence            8888888877644   343 5556555555666666667766655432  2345  778888888888888888888888


Q ss_pred             HHHHhcCCCCCchHHHHHHHHHhcC---ChhHHHHHHHHHHhCC
Q 039695          425 NQLIESNQQVANAYVTLSNTYALAG---EWENVHSLRSEMKRTG  465 (605)
Q Consensus       425 ~~~~~~~p~~~~~~~~l~~~y~~~g---~~~~a~~~~~~m~~~~  465 (605)
                      ++++=..|.++..+..+++.+.-.|   +.+-|.+.+.+..+..
T Consensus       178 EE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  178 EELLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            8888888888777777777766555   4455666666665543

>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=97.87  E-value=0.00015  Score=56.59  Aligned_cols=94  Identities=21%  Similarity=0.260  Sum_probs=76.4

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALA  448 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  448 (605)
                      +..+...+...|++++|.+.++... ..|+ +...|..+...+...|+++.|.+.+++.++..|.+...+..++.++...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            4456677788899999999888753 3343 2467788888888899999999999999999988888888999999999


Q ss_pred             CChhHHHHHHHHHHhC
Q 039695          449 GEWENVHSLRSEMKRT  464 (605)
Q Consensus       449 g~~~~a~~~~~~m~~~  464 (605)
                      |++++|...++...+.
T Consensus        82 ~~~~~a~~~~~~~~~~   97 (100)
T cd00189          82 GKYEEALEAYEKALEL   97 (100)
T ss_pred             HhHHHHHHHHHHHHcc
Confidence            9999999988877653

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.86  E-value=0.00039  Score=58.92  Aligned_cols=113  Identities=13%  Similarity=0.152  Sum_probs=86.7

Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-
Q 039695          318 LFNEMISRGIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-  394 (605)
Q Consensus       318 l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-  394 (605)
                      .|++...  ..|+ ......+...+...|++++|.+.++.+..   ..| +...+..+...|.+.|++++|...+++.. 
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~---~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~   79 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAA---YDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAA   79 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4455544  3443 34455666777888999999999988853   234 57888888999999999999999888753 


Q ss_pred             CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          395 VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       395 ~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                      ..|+ +...|..+...+...|+.+.|...++++++..|++..
T Consensus        80 ~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  120 (135)
T TIGR02552        80 LDPD-DPRPYFHAAECLLALGEPESALKALDLAIEICGENPE  120 (135)
T ss_pred             cCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccch
Confidence            3343 2678888889999999999999999999999998764

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.86  E-value=1.8e-05  Score=47.39  Aligned_cols=31  Identities=42%  Similarity=0.653  Sum_probs=25.3

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695           94 VSYTSLMAGYINMGQPQIALLLFQKMLGNLV  124 (605)
Q Consensus        94 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  124 (605)
                      ++||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888888888888887764

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.85  E-value=2e-05  Score=47.20  Aligned_cols=31  Identities=48%  Similarity=0.712  Sum_probs=26.3

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGI  327 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  327 (605)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788888888888888899999988888764

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.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.85  E-value=0.0035  Score=68.46  Aligned_cols=219  Identities=14%  Similarity=0.053  Sum_probs=139.3

Q ss_pred             hCCCC-chHHHHHHHHHHHcCCChhHHHHHHhcCCC--CChh-hHHHHHHHHHhcCChhHHHHH----------------
Q 039695           56 SGFLS-NTFTLNHLINCYVRLKKTQVARQLFDEMLE--PNVV-SYTSLMAGYINMGQPQIALLL----------------  115 (605)
Q Consensus        56 ~g~~~-~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~-~~~~li~~~~~~g~~~~a~~~----------------  115 (605)
                      ..+.| +...+..|++.|...+++++|.++.+...+  |+.. .|-.+...+.+.++..++..+                
T Consensus        24 ~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve  103 (906)
T PRK14720         24 NNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVE  103 (906)
T ss_pred             ccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHH
Confidence            34433 456777888888888888888888775522  3322 222222245555555554444                


Q ss_pred             --HHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCC
Q 039695          116 --FQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRN  193 (605)
Q Consensus       116 --~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~  193 (605)
                        ...|...  .-+...+-.+..+|-+.|+.+++..+++++++.. +.|+.+.|.+...|+.. ++++|++++.+.    
T Consensus       104 ~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA----  175 (906)
T PRK14720        104 HICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA----  175 (906)
T ss_pred             HHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH----
Confidence              1122221  1122566677777888889999999999988887 66788888888888888 888888888775    


Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHh-CCCCcHhHHHHHH
Q 039695          194 VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRS-GCEFNDVVASALV  272 (605)
Q Consensus       194 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li  272 (605)
                             +..|...+++.++.+++.++....   |+...               .-.++...+..+ |..--+.++-.|-
T Consensus       176 -------V~~~i~~kq~~~~~e~W~k~~~~~---~~d~d---------------~f~~i~~ki~~~~~~~~~~~~~~~l~  230 (906)
T PRK14720        176 -------IYRFIKKKQYVGIEEIWSKLVHYN---SDDFD---------------FFLRIERKVLGHREFTRLVGLLEDLY  230 (906)
T ss_pred             -------HHHHHhhhcchHHHHHHHHHHhcC---cccch---------------HHHHHHHHHHhhhccchhHHHHHHHH
Confidence                   344777778888888888887643   33221               112222223222 3333445566677


Q ss_pred             HHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHH
Q 039695          273 DMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAA  307 (605)
Q Consensus       273 ~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  307 (605)
                      +.|-+..+++++..+|+.+.+   .|.....-++..|.
T Consensus       231 ~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        231 EPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            778888888888888888775   34445555666665

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.84  E-value=0.0005  Score=59.06  Aligned_cols=116  Identities=19%  Similarity=0.200  Sum_probs=57.3

Q ss_pred             cCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCCCC-CCch--hhHHHHHHHHHHHcCChHH
Q 039695          344 SGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQVD-PDGG--PLLWGTLLSASRLHGRVDI  419 (605)
Q Consensus       344 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-p~~~--~~~~~~ll~~~~~~g~~~~  419 (605)
                      .++...+...++.+..+++-.| .....-.+...+...|++++|...|+..... |++.  ......|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4555555555555544322221 1222333445555556666666665554311 2211  1233345555556666666


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHH
Q 039695          420 AVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSE  460 (605)
Q Consensus       420 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~  460 (605)
                      |+..++.. ...+-.+..+..++++|.+.|++++|...|++
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            66665442 22222334555666677777777777666654

>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=97.79  E-value=6e-05  Score=55.27  Aligned_cols=64  Identities=22%  Similarity=0.234  Sum_probs=59.7

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC-ChhHHHHHHHHHHhC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAG-EWENVHSLRSEMKRT  464 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g-~~~~a~~~~~~m~~~  464 (605)
                      +.+|..+...+...|++++|+..|+++++.+|+++.+|..++.+|.+.| ++++|.+.+++..+.
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            7789999999999999999999999999999999999999999999999 799999999887653

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.79  E-value=0.022  Score=55.50  Aligned_cols=105  Identities=15%  Similarity=0.091  Sum_probs=74.9

Q ss_pred             HHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHH
Q 039695          272 VDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGI  351 (605)
Q Consensus       272 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~  351 (605)
                      +.-+...|+...|.++-.+..-|+-.-|-..+.+|+..++|++-..+...      +-+++-|...+.+|...|...+|.
T Consensus       184 i~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~eA~  257 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKEAS  257 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHHHH
Confidence            44455678888888888888778888888888888888888766665332      113466777788888888888887


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 039695          352 QHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI  393 (605)
Q Consensus       352 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  393 (605)
                      .+...+      +     +..-+.+|.++|.+.+|.+..-+.
T Consensus       258 ~yI~k~------~-----~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  258 KYIPKI------P-----DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHHhC------C-----hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            776653      1     134567788888888887775554

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

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.76  E-value=0.0021  Score=55.16  Aligned_cols=126  Identities=16%  Similarity=0.086  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc--HHHHHHHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIKP--NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD--AKHYTCVV  374 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p--d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li  374 (605)
                      |..++..+ ..++...+...++.+......-  .......+...+...|++++|...|+.+... ...|+  ......|.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHH
Confidence            33444444 3777778878888887752211  1233344556677788888888888888643 22232  22344567


Q ss_pred             HHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHH
Q 039695          375 DMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQL  427 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  427 (605)
                      ..+...|++++|+..++..+.. ...+..+..+...+...|+.++|...|+++
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~-~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDE-AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCc-chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            7788888999998888776522 223557777888888899999998888775

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.76  E-value=0.0073  Score=55.09  Aligned_cols=110  Identities=15%  Similarity=0.160  Sum_probs=66.7

Q ss_pred             HHHHhcCCHHHHHHHHhccCCC-CcchHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcH
Q 039695          273 DMYAKCGSVNYSDKVFNRISNP-SVVTYTSMIVGAAK----YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLV  347 (605)
Q Consensus       273 ~~y~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~  347 (605)
                      ..+.|..+++-|++.+++|.+- +..+.+.|..++.+    .+...+|.-+|++|-++ ..|+..+.+....++...|++
T Consensus       145 qI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~  223 (299)
T KOG3081|consen  145 QILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRY  223 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCH
Confidence            3344555666666666666653 33455555555543    34466777777777664 667777777777777777888


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHH
Q 039695          348 DEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDE  385 (605)
Q Consensus       348 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~  385 (605)
                      ++|..+++....+..  -++.+...++-.--..|...+
T Consensus       224 eeAe~lL~eaL~kd~--~dpetL~Nliv~a~~~Gkd~~  259 (299)
T KOG3081|consen  224 EEAESLLEEALDKDA--KDPETLANLIVLALHLGKDAE  259 (299)
T ss_pred             HHHHHHHHHHHhccC--CCHHHHHHHHHHHHHhCCChH
Confidence            888887777764432  234444444444444555443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.75  E-value=0.09  Score=56.18  Aligned_cols=68  Identities=12%  Similarity=0.154  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHcCChH---HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCccCC
Q 039695          403 LWGTLLSASRLHGRVD---IAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEP  470 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~---~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~  470 (605)
                      +-+.|+..+++.++..   +|+-+++..+...|.|...-..|+.+|+-.|-...|.++++.+.-+.+..+.
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DT  508 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDT  508 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhcc
Confidence            4567788899888765   6777788888889999888889999999999999999999998777776543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.70  E-value=0.00049  Score=56.72  Aligned_cols=97  Identities=14%  Similarity=0.119  Sum_probs=56.8

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCc--hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---CchHHHHH
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDG--GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV---ANAYVTLS  442 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~  442 (605)
                      .+..++..+.+.|++++|.+.++.+. ..|+.  ....+..+..++...|+++.|...+++++...|++   +.++..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            34445555666666666666665542 12220  02344556666666666777777777666665554   33566666


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCC
Q 039695          443 NTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       443 ~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .+|.+.|++++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            66667777777777776666553

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.66  E-value=0.012  Score=53.36  Aligned_cols=165  Identities=13%  Similarity=0.173  Sum_probs=111.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhccCCCCcchHHHHH---HHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcH
Q 039695          271 LVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMI---VGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLV  347 (605)
Q Consensus       271 li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~  347 (605)
                      +.-+..-+|+.+.|...++.+...=+.++....   .-+-..|++++|+++++.+.+.. +-|.+++-.=+...-..|.-
T Consensus        58 V~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~  136 (289)
T KOG3060|consen   58 VFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKN  136 (289)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCc
Confidence            333444556666666666665431122222111   12345688899999999988864 44666776656566666777


Q ss_pred             HHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcC---ChHHHHHH
Q 039695          348 DEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHG---RVDIAVEA  423 (605)
Q Consensus       348 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g---~~~~a~~~  423 (605)
                      -+|++-+....+.  +.-|.+.|.-+.+.|...|+++.|.--++++. ..|- ++..+..+...+...|   +.+.+.+.
T Consensus       137 l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~-n~l~f~rlae~~Yt~gg~eN~~~arky  213 (289)
T KOG3060|consen  137 LEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPF-NPLYFQRLAEVLYTQGGAENLELARKY  213 (289)
T ss_pred             HHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            7888777777554  46678899999999999999999999998864 3443 3666666666654444   57789999


Q ss_pred             HHHHHhcCCCCCchHH
Q 039695          424 SNQLIESNQQVANAYV  439 (605)
Q Consensus       424 ~~~~~~~~p~~~~~~~  439 (605)
                      |++.+++.|.+...+.
T Consensus       214 y~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  214 YERALKLNPKNLRALF  229 (289)
T ss_pred             HHHHHHhChHhHHHHH
Confidence            9999999996654433

>PRK15331 chaperone protein SicA; Provisional

Probab=97.65  E-value=0.00049  Score=58.45  Aligned_cols=102  Identities=14%  Similarity=0.015  Sum_probs=82.9

Q ss_pred             CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHH
Q 039695          362 GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVT  440 (605)
Q Consensus       362 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  440 (605)
                      |+.++ ....-...--+-..|++++|..+|+-+..-...+..-|..|..++...++++.|+..|..+..++++||.++..
T Consensus        31 gis~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~  110 (165)
T PRK15331         31 GIPQDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFF  110 (165)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccch
Confidence            55554 23333344445678999999999987542211237789999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHh
Q 039695          441 LSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       441 l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .+.+|...|+.+.|...|+...+
T Consensus       111 agqC~l~l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        111 TGQCQLLMRKAAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            99999999999999999998876

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.63  E-value=0.00014  Score=52.46  Aligned_cols=59  Identities=17%  Similarity=0.199  Sum_probs=44.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       407 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +...+...|++++|+..|+++++..|+++.++..++.++...|++++|...++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34566777788888888888888888877788888888888888888888887776543

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.61  E-value=6.8e-05  Score=57.49  Aligned_cols=80  Identities=15%  Similarity=0.209  Sum_probs=50.3

Q ss_pred             cCCHHHHHHHHHhCC-CCCC-chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHH
Q 039695          380 TGRLDEAYKLAKSIQ-VDPD-GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSL  457 (605)
Q Consensus       380 ~g~~~~A~~~~~~m~-~~p~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~  457 (605)
                      .|++++|+.+++++. ..|+ .+...|-.+..++.+.|++++|..++++ .+.+|.++.....++.+|.+.|++++|.++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            356666666666543 2221 1244555577777777777777777777 556666656666677788888888888877


Q ss_pred             HHH
Q 039695          458 RSE  460 (605)
Q Consensus       458 ~~~  460 (605)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            764

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.56  E-value=0.00046  Score=68.90  Aligned_cols=107  Identities=11%  Similarity=-0.033  Sum_probs=86.4

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcC
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHG  415 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g  415 (605)
                      .......|++++|.+.|.++++   +.|+ ...|..+..+|.+.|++++|+..+++.. ..|+ +...|..+..+|...|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~---~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAID---LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            4556678999999999998863   4565 7788888999999999999999998753 4453 3678888999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039695          416 RVDIAVEASNQLIESNQQVANAYVTLSNTYALA  448 (605)
Q Consensus       416 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  448 (605)
                      ++++|+..|+++++++|+++.....+..+..+.
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l~~~~~kl  117 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLIKECDEKI  117 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            999999999999999999987776665554443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.52  E-value=0.002  Score=52.97  Aligned_cols=106  Identities=15%  Similarity=0.113  Sum_probs=69.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCc--hhhHHHHHH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDG--GPLLWGTLL  408 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~--~~~~~~~ll  408 (605)
                      ++..+...+...|++++|...|..+.....-.| ....+..+..++.+.|++++|.+.++.+. ..|+.  ...++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455556666777777777776654321111 13455567777777788888877777643 22331  134677777


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCCchH
Q 039695          409 SASRLHGRVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       409 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                      .++...|+.+.|...++++++..|+++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  113 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAK  113 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHH
Confidence            888888888888888888888888775443

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.49  E-value=0.00097  Score=61.83  Aligned_cols=98  Identities=19%  Similarity=0.212  Sum_probs=73.5

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChH
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      ..+.+++.+|...|.+.+   .+.|+ ..-|..-..+|.+.|.++.|++-.+.. ...|. ...+|..|..+|...|+++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHH
Confidence            345678888888888775   56765 666666678888888888888777663 34444 3568899999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHH
Q 039695          419 IAVEASNQLIESNQQVANAYVTLS  442 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~~~~~~~l~  442 (605)
                      +|++.|+++++++|++......|-
T Consensus       167 ~A~~aykKaLeldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  167 EAIEAYKKALELDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHHhhhccCCCcHHHHHHHH
Confidence            999999999999998875444443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.47  E-value=0.0015  Score=57.79  Aligned_cols=95  Identities=16%  Similarity=0.045  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSN  443 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  443 (605)
                      ...|..+...+...|++++|+..|++.. ..|+  ....+|..+...+...|++++|+..++++++..|.....+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            5566777777888899999999988742 2222  124588999999999999999999999999999998888888888


Q ss_pred             HHH-------hcCChhHHHHHHHHH
Q 039695          444 TYA-------LAGEWENVHSLRSEM  461 (605)
Q Consensus       444 ~y~-------~~g~~~~a~~~~~~m  461 (605)
                      +|.       ..|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       778888666666544

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.47  E-value=0.0016  Score=65.06  Aligned_cols=92  Identities=15%  Similarity=0.088  Sum_probs=76.0

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcC
Q 039695          303 IVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTG  381 (605)
Q Consensus       303 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g  381 (605)
                      ...+...|++++|+.+|++.++... -+...|..+..++...|++++|...++.++   .+.|+ ...|..+..+|...|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al---~l~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAI---ELDPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HhCcCCHHHHHHHHHHHHHhC
Confidence            4556778999999999999998532 356778888889999999999999999886   45665 778889999999999


Q ss_pred             CHHHHHHHHHhC-CCCCC
Q 039695          382 RLDEAYKLAKSI-QVDPD  398 (605)
Q Consensus       382 ~~~~A~~~~~~m-~~~p~  398 (605)
                      ++++|+..|++. ...|+
T Consensus        85 ~~~eA~~~~~~al~l~P~  102 (356)
T PLN03088         85 EYQTAKAALEKGASLAPG  102 (356)
T ss_pred             CHHHHHHHHHHHHHhCCC
Confidence            999999999884 34555

>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=0.00041  Score=50.07  Aligned_cols=62  Identities=26%  Similarity=0.299  Sum_probs=50.5

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          373 VVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      +...+.+.|++++|.+.|+++. ..|+ +...|..+..++...|++++|...++++++..|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            4567788999999999998864 3443 578999999999999999999999999999999864

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.42  E-value=0.0023  Score=56.83  Aligned_cols=84  Identities=20%  Similarity=0.136  Sum_probs=65.3

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSN  443 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  443 (605)
                      ...+..+...+.+.|++++|...|++.. ..|+  .....|..+...+...|+++.|...++++++..|.++..+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            4456677777778888888888887643 2222  124578888888999999999999999999999988888888888


Q ss_pred             HHHhcCC
Q 039695          444 TYALAGE  450 (605)
Q Consensus       444 ~y~~~g~  450 (605)
                      +|...|+
T Consensus       115 ~~~~~g~  121 (172)
T PRK02603        115 IYHKRGE  121 (172)
T ss_pred             HHHHcCC
Confidence            8888776

>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=97.36  E-value=0.00026  Score=51.63  Aligned_cols=54  Identities=19%  Similarity=0.324  Sum_probs=44.3

Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...|++++|++.++++++..|++..++..++.+|.+.|++++|.++++++....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            457888889999999888888888888888999999999999988887766543

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.36  E-value=0.0051  Score=54.53  Aligned_cols=129  Identities=16%  Similarity=0.145  Sum_probs=77.3

Q ss_pred             cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHH
Q 039695          296 VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN--DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTC  372 (605)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd--~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~  372 (605)
                      ...+..+...+...|++++|...|++.......++  ...+..+...+.+.|++++|...+.+...   +.|+ ...+..
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~  111 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE---LNPKQPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcccHHHHHH
Confidence            34556666667777777777777777765433222  24566666666777777777777776642   3343 445555


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          373 VVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      +..+|...|+...+..-++..                    ...++.|.+.++++++.+|++   |..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A--------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEA--------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHH--------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            566666666555544322211                    012577888888888888876   5555555555544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.33  E-value=0.00081  Score=49.82  Aligned_cols=59  Identities=8%  Similarity=0.025  Sum_probs=51.4

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          408 LSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ...+...++++.|.++++++++.+|+++..+...+.+|.+.|++++|.+.++...+.+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            35678889999999999999999999999999999999999999999999998886554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.32  E-value=0.025  Score=57.88  Aligned_cols=199  Identities=17%  Similarity=0.127  Sum_probs=107.6

Q ss_pred             hHHHHHHHHhccCChHHHH--HHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHc
Q 039695          130 TFATVIKACSMLADLITGK--QIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQN  207 (605)
Q Consensus       130 t~~~ll~a~~~~~~~~~a~--~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~  207 (605)
                      .|+..=+||.+..+..--+  .-++++.++|-.|+...   +.+.++-.|.+.+|-++|.+                  +
T Consensus       600 ~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~------------------~  658 (1081)
T KOG1538|consen  600 DFETARKAYIRVRDLRYLELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR------------------S  658 (1081)
T ss_pred             hhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH------------------c
Confidence            3444555665555544322  22345566675566543   44566777888888888876                  4


Q ss_pred             CChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHH
Q 039695          208 AQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKV  287 (605)
Q Consensus       208 g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~  287 (605)
                      |.-..|+++|.+|+--.           ...-+...|..++-+.+...-.+  ..-++.--.+-..++...|+.++|..+
T Consensus       659 G~enRAlEmyTDlRMFD-----------~aQE~~~~g~~~eKKmL~RKRA~--WAr~~kePkaAAEmLiSaGe~~KAi~i  725 (1081)
T KOG1538|consen  659 GHENRALEMYTDLRMFD-----------YAQEFLGSGDPKEKKMLIRKRAD--WARNIKEPKAAAEMLISAGEHVKAIEI  725 (1081)
T ss_pred             CchhhHHHHHHHHHHHH-----------HHHHHhhcCChHHHHHHHHHHHH--HhhhcCCcHHHHHHhhcccchhhhhhh
Confidence            55556666665554211           11122223333332222221111  011111112334455556666666544


Q ss_pred             HhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcH
Q 039695          288 FNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDA  367 (605)
Q Consensus       288 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~  367 (605)
                                        ...+|-.+-+.++-+++-.    .+..+...+...+-+...+..|-++|..|- +       
T Consensus       726 ------------------~~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~g-D-------  775 (1081)
T KOG1538|consen  726 ------------------CGDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMG-D-------  775 (1081)
T ss_pred             ------------------hhcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchHHHHHHHhc-c-------
Confidence                              2344545555555444432    234455555555556677778888888773 1       


Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 039695          368 KHYTCVVDMLGRTGRLDEAYKLAKSIQ  394 (605)
Q Consensus       368 ~~~~~li~~~~~~g~~~~A~~~~~~m~  394 (605)
                        ..+++++....++|.+|..+.++.|
T Consensus       776 --~ksiVqlHve~~~W~eAFalAe~hP  800 (1081)
T KOG1538|consen  776 --LKSLVQLHVETQRWDEAFALAEKHP  800 (1081)
T ss_pred             --HHHHhhheeecccchHhHhhhhhCc
Confidence              2457888889999999999998877

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.32  E-value=0.004  Score=48.89  Aligned_cols=81  Identities=14%  Similarity=0.070  Sum_probs=66.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCC-CCChhhHHHHHHHHhccC--------ChHHHHHHHHHHHHhCCCCchhH
Q 039695           95 SYTSLMAGYINMGQPQIALLLFQKMLGNLV-WPNEFTFATVIKACSMLA--------DLITGKQIHTHIETFGFQYNLVV  165 (605)
Q Consensus        95 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~pd~~t~~~ll~a~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~  165 (605)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.+|.+.++..        .+-..+.+++.++..++.|+..+
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            334556666777999999999999999999 899999999999887653        23456788899999999999999


Q ss_pred             HHHHHHHHHh
Q 039695          166 CSSLVDMYGK  175 (605)
Q Consensus       166 ~~~Li~~y~~  175 (605)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9999887764

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 [, , ].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.28  E-value=0.0071  Score=58.51  Aligned_cols=267  Identities=12%  Similarity=0.069  Sum_probs=157.5

Q ss_pred             HHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-ChhHHHhHHHhhcccCch
Q 039695          171 DMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRP-NQHMLASVINACASLGRL  246 (605)
Q Consensus       171 ~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~  246 (605)
                      +.+.+..++..|+..+....+   .++.-|..-...+..-|++++|+--.+.-.+   ++| ...+....-.++...+..
T Consensus        57 n~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r---~kd~~~k~~~r~~~c~~a~~~~  133 (486)
T KOG0550|consen   57 NAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVR---LKDGFSKGQLREGQCHLALSDL  133 (486)
T ss_pred             chHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhhee---cCCCccccccchhhhhhhhHHH
Confidence            445555666666666655433   2344455566666666777766655544332   222 122333333344444444


Q ss_pred             hhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-----CCcchHHHH-HHHHHHcCChhHHHHHHH
Q 039695          247 VSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN-----PSVVTYTSM-IVGAAKYGLGRFSLDLFN  320 (605)
Q Consensus       247 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~~~~~~~l-i~~~~~~g~~~~A~~l~~  320 (605)
                      .+|.+.+..         ...+           ....|...++....     |...+|..+ ...+...|+.++|...-.
T Consensus       134 i~A~~~~~~---------~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~  193 (486)
T KOG0550|consen  134 IEAEEKLKS---------KQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAI  193 (486)
T ss_pred             HHHHHHhhh---------hhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHH
Confidence            444433330         0000           11122222222221     222334333 245666788888887766


Q ss_pred             HHHHcCCCCCHHHHHHHHH--HHhccCcHHHHHHHHHHHHHhcCCCCcHHHH-------------HHHHHHHhhcCCHHH
Q 039695          321 EMISRGIKPNDVTFVGVLH--ACSHSGLVDEGIQHLDSMYRKYGIIPDAKHY-------------TCVVDMLGRTGRLDE  385 (605)
Q Consensus       321 ~m~~~g~~pd~~t~~~ll~--a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-------------~~li~~~~~~g~~~~  385 (605)
                      ...+.  .+. ..+...++  ++-..++.+.|...|++.+   .+.|+...-             .-=.+...+.|++.+
T Consensus       194 ~ilkl--d~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~  267 (486)
T KOG0550|consen  194 DILKL--DAT-NAEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRK  267 (486)
T ss_pred             HHHhc--ccc-hhHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhH
Confidence            65543  111 11222222  2334567788888887664   556653221             112344567899999


Q ss_pred             HHHHHHhC-CCCCC---chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          386 AYKLAKSI-QVDPD---GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       386 A~~~~~~m-~~~p~---~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      |.+.+.+. ...|+   .+...|.....+..+.|+.++|+.--+.+++++|.-..+|..-++++...++|++|.+-+++.
T Consensus       268 A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~~e~AV~d~~~a  347 (486)
T KOG0550|consen  268 AYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEKWEEAVEDYEKA  347 (486)
T ss_pred             HHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999874 34443   125577778888899999999999999999999998889999999999999999999999988


Q ss_pred             HhCCC
Q 039695          462 KRTGI  466 (605)
Q Consensus       462 ~~~~~  466 (605)
                      .+...
T Consensus       348 ~q~~~  352 (486)
T KOG0550|consen  348 MQLEK  352 (486)
T ss_pred             Hhhcc
Confidence            76544

>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=0.0029  Score=48.98  Aligned_cols=88  Identities=23%  Similarity=0.274  Sum_probs=42.1

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChH
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      +...|++++|...++...+   ..|+ ...+..+...+...|++++|.+.++... ..|. +..+|..+...+...|+.+
T Consensus        10 ~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   85 (100)
T cd00189          10 YYKLGDYDEALEYYEKALE---LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKLGKYE   85 (100)
T ss_pred             HHHHhcHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHHHhHH
Confidence            3334444444444444421   1221 2334444445555555555555554422 1222 1345555555666666666


Q ss_pred             HHHHHHHHHHhcCC
Q 039695          419 IAVEASNQLIESNQ  432 (605)
Q Consensus       419 ~a~~~~~~~~~~~p  432 (605)
                      .|...+.++++..|
T Consensus        86 ~a~~~~~~~~~~~~   99 (100)
T cd00189          86 EALEAYEKALELDP   99 (100)
T ss_pred             HHHHHHHHHHccCC
Confidence            66666666655544

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.27  E-value=0.0078  Score=57.98  Aligned_cols=142  Identities=12%  Similarity=0.071  Sum_probs=105.0

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH-HhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 039695           94 VSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKA-CSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDM  172 (605)
Q Consensus        94 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a-~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~  172 (605)
                      .+|..+|+..-+.+..+.|..+|.+.++.+. .+...|...... +...++.+.|..+|+...+. +..+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~-~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            4788899999888889999999999986532 123333332222 33357778899999999987 57788999999999


Q ss_pred             HHhCCCHHHHHHHHhhcCC--C----ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhh
Q 039695          173 YGKCNDVDGARRVFDLMGC--R----NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINAC  240 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~--~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~  240 (605)
                      +.+.|+.+.|+.+|++...  +    ....|...+.-=.+.|+.+.+.++..++.+.   .|+...+..+++-|
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~---~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL---FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH---TTTS-HHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---hhhhhHHHHHHHHh
Confidence            9999999999999999865  2    3358999999999999999999999998874   45555555555544

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.21  E-value=0.082  Score=49.62  Aligned_cols=173  Identities=9%  Similarity=0.028  Sum_probs=101.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhccCC--CCcc-hH---HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-
Q 039695          271 LVDMYAKCGSVNYSDKVFNRISN--PSVV-TY---TSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH-  343 (605)
Q Consensus       271 li~~y~~~g~~~~A~~~~~~~~~--~~~~-~~---~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~-  343 (605)
                      ....+.+.|++++|.+.|+.+..  |+.. .-   -.+..+|.+.+++++|...|++..+.-..-...-+...+.+.+. 
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            34445567888888888887764  3221 11   23456677788888888888888774222222233333333221 


Q ss_pred             -c---------------Cc---HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHH
Q 039695          344 -S---------------GL---VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLW  404 (605)
Q Consensus       344 -~---------------g~---~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~  404 (605)
                       .               .+   ...|...|+.                +++.|-...-..+|...+..+...-   ..--
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~----------------li~~yP~S~ya~~A~~rl~~l~~~l---a~~e  178 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSK----------------LVRGYPNSQYTTDATKRLVFLKDRL---AKYE  178 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHH----------------HHHHCcCChhHHHHHHHHHHHHHHH---HHHH
Confidence             0               01   1122233333                3333333444455554443332110   1111


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          405 GTLLSASRLHGRVDIAVEASNQLIESNQQVA---NAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       405 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      -.+..-|.+.|.+..|..-++.+++.-|+.+   .+...++.+|...|..++|..+...+.
T Consensus       179 ~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        179 LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            1345568889999999999999999877654   467788999999999999999877654

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.21  E-value=0.0012  Score=61.21  Aligned_cols=91  Identities=18%  Similarity=0.223  Sum_probs=80.2

Q ss_pred             HHHhhcCCHHHHHHHHHh-CCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhH
Q 039695          375 DMLGRTGRLDEAYKLAKS-IQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWEN  453 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~-m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  453 (605)
                      +-+.+.+++++|+..|.+ +...|. +++.|..-..+|.+.|.++.|++-.+.++.++|....+|..|+.+|...|++++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            446788999999999987 445554 378888899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCC
Q 039695          454 VHSLRSEMKRTGI  466 (605)
Q Consensus       454 a~~~~~~m~~~~~  466 (605)
                      |.+.|++..+...
T Consensus       168 A~~aykKaLeldP  180 (304)
T KOG0553|consen  168 AIEAYKKALELDP  180 (304)
T ss_pred             HHHHHHhhhccCC
Confidence            9999988766443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.20  E-value=0.0037  Score=62.66  Aligned_cols=120  Identities=13%  Similarity=0.133  Sum_probs=80.8

Q ss_pred             CCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCC-CC-----hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhh
Q 039695           57 GFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLE-PN-----VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFT  130 (605)
Q Consensus        57 g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~-~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t  130 (605)
                      +.+.+......+++......+++.+..++-+... |+     ..+..++|+.|...|..++++.+++.=...|+-||.+|
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            3445555666666666666677777777666522 11     23445778888888888888888777777788888888


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhC
Q 039695          131 FATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKC  176 (605)
Q Consensus       131 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~  176 (605)
                      |+.||..+.+.|++..|.++...|...+...+..|+.--+..+.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888887777777666555555555444444444

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 [].

>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=97.19  E-value=0.0035  Score=55.62  Aligned_cols=89  Identities=16%  Similarity=0.283  Sum_probs=68.5

Q ss_pred             CCCcchHHHHHHHHHH-----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc----------------CcHHHHH
Q 039695          293 NPSVVTYTSMIVGAAK-----YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHS----------------GLVDEGI  351 (605)
Q Consensus       293 ~~~~~~~~~li~~~~~-----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~----------------g~~~~a~  351 (605)
                      .+|-.+|..++..|.+     .|..+=....+..|.+-|+.-|..+|+.||+.+=+.                .+-+-|+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            4556666666666654     366666777778888888888888888888876542                2345689


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHhhcCC
Q 039695          352 QHLDSMYRKYGIIPDAKHYTCVVDMLGRTGR  382 (605)
Q Consensus       352 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  382 (605)
                      +++++| +.+|+.||.+++..+++.+++.+.
T Consensus       124 ~lL~qM-E~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQM-ENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHH-HHcCCCCcHHHHHHHHHHhccccH
Confidence            999999 888999999999999999988765

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.19  E-value=0.0035  Score=58.58  Aligned_cols=106  Identities=15%  Similarity=0.095  Sum_probs=88.7

Q ss_pred             CC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCCCCCchH
Q 039695          364 IP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHG---RVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       364 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                      .| |.+.|-.|...|.+.|++..|..-|.+.. ..|+ ++..+..+..++....   ...++..+++++++.+|.++.+.
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            45 59999999999999999999999998743 3444 3777777777765443   35689999999999999999999


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCccCC
Q 039695          439 VTLSNTYALAGEWENVHSLRSEMKRTGIHKEP  470 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~  470 (605)
                      ..|...+...|++.+|...|+.|.+.....+|
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            99999999999999999999999987664443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.17  E-value=0.025  Score=54.53  Aligned_cols=135  Identities=8%  Similarity=0.058  Sum_probs=95.4

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 039695          298 TYTSMIVGAAKYGLGRFSLDLFNEMISRG-IKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDM  376 (605)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  376 (605)
                      +|-.++...-+.+..+.|..+|.+..+.+ ...+.....+++. +...++.+.|..+|+..++.+  ..+...+...++.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            56667777777777888888888887532 2233333333333 333577778999999998765  3456778888999


Q ss_pred             HhhcCCHHHHHHHHHhCC-CCCC-c-hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          377 LGRTGRLDEAYKLAKSIQ-VDPD-G-GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       377 ~~~~g~~~~A~~~~~~m~-~~p~-~-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      +.+.|+.+.|..+|++.. .-|. . ....|...+.--.+.|+.+....+.+++.+.-|.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            999999999999999853 2233 1 145999999999999999999999999999888753

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.16  E-value=0.0018  Score=49.48  Aligned_cols=80  Identities=16%  Similarity=0.262  Sum_probs=40.9

Q ss_pred             cCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHH
Q 039695          309 YGLGRFSLDLFNEMISRGI-KPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       309 ~g~~~~A~~l~~~m~~~g~-~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  386 (605)
                      +|+++.|+.+|+++.+... .|+...+..+..++.+.|++++|..+++..    ...|+ ......+..+|.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~----~~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKL----KLDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCH----THHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHh----CCCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            4566666666666665422 123334444566666666666666666541    22222 23333345556666666666


Q ss_pred             HHHHHh
Q 039695          387 YKLAKS  392 (605)
Q Consensus       387 ~~~~~~  392 (605)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            666543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.15  E-value=0.016  Score=60.74  Aligned_cols=65  Identities=23%  Similarity=0.255  Sum_probs=56.5

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +..|.++.-.....|++++|...++++++++| +..+|..++.+|...|+.++|...+++....+.
T Consensus       420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        420 PRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            56788887777788999999999999999998 467899999999999999999999998877655

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.13  E-value=0.022  Score=59.68  Aligned_cols=140  Identities=15%  Similarity=0.060  Sum_probs=97.4

Q ss_pred             CCCcchHHHHHHHHHHc--C---ChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcc--------CcHHHHHHHHHHHH
Q 039695          293 NPSVVTYTSMIVGAAKY--G---LGRFSLDLFNEMISRGIKPND-VTFVGVLHACSHS--------GLVDEGIQHLDSMY  358 (605)
Q Consensus       293 ~~~~~~~~~li~~~~~~--g---~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~--------g~~~~a~~~~~~m~  358 (605)
                      ..|...|...+.|....  +   ...+|..+|++..+  ..||- ..+..+..++...        ..+..+.+......
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            46778888888875442  2   36689999999988  45653 3444333322211        12233344333322


Q ss_pred             HhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          359 RKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       359 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                      .......+...|..+.-.....|++++|...+++.. ..|+  ...|..+...+...|+.++|...+++++.++|.++.
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps--~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMS--WLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            111123346778888777777899999999999854 5676  889999999999999999999999999999999874

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.12  E-value=0.29  Score=47.34  Aligned_cols=96  Identities=11%  Similarity=0.089  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCC-----CCHH-HHHHHHHHHhccCcHHHHHHHHHHHHHhc-CCCCc--HHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIK-----PNDV-TFVGVLHACSHSGLVDEGIQHLDSMYRKY-GIIPD--AKH  369 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-----pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~-~~~p~--~~~  369 (605)
                      +..+...+.+.|++++|.++|++....-..     ++.. .|...+-++...|++..|...++...... ++..+  ...
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~  237 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKF  237 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHH
Confidence            334566778888888888888887764222     2222 23333445666788999998888874221 22223  445


Q ss_pred             HHHHHHHHhh--cCCHHHHHHHHHhCC
Q 039695          370 YTCVVDMLGR--TGRLDEAYKLAKSIQ  394 (605)
Q Consensus       370 ~~~li~~~~~--~g~~~~A~~~~~~m~  394 (605)
                      ...|++++-.  ...+++|+.-|+.+.
T Consensus       238 ~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  238 LEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            5666777743  456888888888876

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.10  E-value=0.011  Score=52.12  Aligned_cols=99  Identities=13%  Similarity=-0.040  Sum_probs=45.7

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHH
Q 039695          335 VGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASR  412 (605)
Q Consensus       335 ~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~  412 (605)
                      ..+...+...|++++|...|+.......-.+ ...++..+..+|...|++++|++.+++.. ..|+ ....+..+...+.
T Consensus        39 ~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~-~~~~~~~la~i~~  117 (168)
T CHL00033         39 YRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF-LPQALNNMAVICH  117 (168)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHH
Confidence            3333344444555555555554432110000 12344455555555555555555554432 1222 1333444444444


Q ss_pred             -------HcCChH-------HHHHHHHHHHhcCCCC
Q 039695          413 -------LHGRVD-------IAVEASNQLIESNQQV  434 (605)
Q Consensus       413 -------~~g~~~-------~a~~~~~~~~~~~p~~  434 (605)
                             ..|+++       +|...+++.++.+|++
T Consensus       118 ~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~  153 (168)
T CHL00033        118 YRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGN  153 (168)
T ss_pred             HhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCccc
Confidence                   555554       5556666677777754

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.05  E-value=0.00042  Score=42.18  Aligned_cols=32  Identities=34%  Similarity=0.474  Sum_probs=30.3

Q ss_pred             HHHHHhcCCCCCchHHHHHHHHHhcCChhHHH
Q 039695          424 SNQLIESNQQVANAYVTLSNTYALAGEWENVH  455 (605)
Q Consensus       424 ~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~  455 (605)
                      ++++++++|+++.+|..|+.+|...|++++|.
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            67899999999999999999999999999986

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.03  E-value=0.01  Score=59.55  Aligned_cols=117  Identities=10%  Similarity=0.024  Sum_probs=65.1

Q ss_pred             CChhhHHHHHHHHhccCChHHHHHHHHHHHHh--CCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC----CChhhHHH
Q 039695          126 PNEFTFATVIKACSMLADLITGKQIHTHIETF--GFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC----RNVVSWTS  199 (605)
Q Consensus       126 pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~----~~~~~~~~  199 (605)
                      .+...+..+++.+....+++.++.++-.....  ....-..|..++|..|.+.|..+.+..+++.=..    ||..++|.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            34555555666666666666666655555443  1112233445666666666666666666554333    56666666


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhccc
Q 039695          200 IIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASL  243 (605)
Q Consensus       200 li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~  243 (605)
                      |+..+.+.|++..|.++...|...+ ...+..|+...+.+|.+.
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe-~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQE-EFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhh-ccCCchHHHHHHHHHHHh
Confidence            6666666666666666666655555 455555555555555443

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 [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.02  E-value=0.061  Score=52.98  Aligned_cols=163  Identities=17%  Similarity=0.126  Sum_probs=106.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHhccCCC-C--cc----hHHHHHHHHHH---cCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 039695          270 ALVDMYAKCGSVNYSDKVFNRISNP-S--VV----TYTSMIVGAAK---YGLGRFSLDLFNEMISRGIKPNDVTFVGVLH  339 (605)
Q Consensus       270 ~li~~y~~~g~~~~A~~~~~~~~~~-~--~~----~~~~li~~~~~---~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  339 (605)
                      .|+-.|....+++...++++.+... +  +.    .--...-++.+   .|+.++|+.++..+......+++.||..+..
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            4444588888889999998888753 1  11    11123445556   7899999999999777667778888877766


Q ss_pred             HHhc---------cCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHH----HHHHHH---HhC-----CCCCC
Q 039695          340 ACSH---------SGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLD----EAYKLA---KSI-----QVDPD  398 (605)
Q Consensus       340 a~~~---------~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~----~A~~~~---~~m-----~~~p~  398 (605)
                      .|-.         ....++|...|.+.   +.+.|+..+--.++..+...|...    +..++-   ..+     ...+.
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kg---Fe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKG---FEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHH---HcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            5422         23477788887744   467777544433444444444322    222222   111     12233


Q ss_pred             chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          399 GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       399 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      .+...+.+++.++.-.|+.+.|.++++++.++.|+.-
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            2256778899999999999999999999999987653

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.02  E-value=0.01  Score=46.64  Aligned_cols=79  Identities=14%  Similarity=0.171  Sum_probs=62.7

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhccC--------cHHHHHHHHHHHHHhcCCCCcHHHH
Q 039695          300 TSMIVGAAKYGLGRFSLDLFNEMISRGI-KPNDVTFVGVLHACSHSG--------LVDEGIQHLDSMYRKYGIIPDAKHY  370 (605)
Q Consensus       300 ~~li~~~~~~g~~~~A~~l~~~m~~~g~-~pd~~t~~~ll~a~~~~g--------~~~~a~~~~~~m~~~~~~~p~~~~~  370 (605)
                      ...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+..+..        .+-+.+.+|+.|. ..+++|+.++|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL-~~~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDIL-SNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHH-HhccCCcHHHH
Confidence            3456666677999999999999999999 899999999998876643        2445677888885 44899999999


Q ss_pred             HHHHHHHhh
Q 039695          371 TCVVDMLGR  379 (605)
Q Consensus       371 ~~li~~~~~  379 (605)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            998887754

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 [, , ].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.01  E-value=0.39  Score=46.90  Aligned_cols=111  Identities=14%  Similarity=0.187  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHH
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSAS  411 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~  411 (605)
                      .+.+..+.-|...|....|.++-.    ++++ |+..-|-..+.+|+..++|++-.++...   +.+  |.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k----~Fkv-~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKs--PIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKK----EFKV-PDKRFWWLKIKALAENKDWDELEKFAKS---KKS--PIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHH----HcCC-cHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCC--CCChHHHHHHH
Confidence            345555666777888888777644    4455 8888899999999999999998887654   334  78899999999


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      ...|+..+|.....+         ..+..-+.+|.++|+|.+|.+.--+.
T Consensus       248 ~~~~~~~eA~~yI~k---------~~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  248 LKYGNKKEASKYIPK---------IPDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHCCCHHHHHHHHHh---------CChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            999999999888776         12256788999999999998765443

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

>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=97.00  E-value=0.015  Score=51.84  Aligned_cols=105  Identities=16%  Similarity=0.175  Sum_probs=73.5

Q ss_pred             CCChhHHHhHHHhhcc-----cCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHH
Q 039695          227 RPNQHMLASVINACAS-----LGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTS  301 (605)
Q Consensus       227 ~p~~~t~~~ll~a~~~-----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~  301 (605)
                      ..|..+|..++..+.+     .|..+-....+..|.+.|+..|..+|+.|++.+=| |.+- -.           ..+.+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~-----------n~fQ~  110 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PR-----------NFFQA  110 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cc-----------cHHHH
Confidence            3455666666665543     35666667777888889999999999999988765 3221 11           11222


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc
Q 039695          302 MIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGL  346 (605)
Q Consensus       302 li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~  346 (605)
                      +..-|  ..+.+-|++++++|...|+.||..|+..|++.+.+.+.
T Consensus       111 ~F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  111 EFMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HhccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            22222  23456789999999999999999999999999977664

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.97  E-value=0.031  Score=47.43  Aligned_cols=87  Identities=8%  Similarity=-0.106  Sum_probs=46.3

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChH
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      +...|++++|..+|+.+.   -+.|. ..-|..|.-++-..|++++|++.|.... ..|+ ++..+-.+..++...|+.+
T Consensus        45 ly~~G~l~~A~~~f~~L~---~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~lG~~~  120 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLT---IYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLACDNVC  120 (157)
T ss_pred             HHHCCCHHHHHHHHHHHH---HhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHcCCHH
Confidence            344555555555555553   23443 4444455555555566666666655421 2232 2555555666666666666


Q ss_pred             HHHHHHHHHHhcC
Q 039695          419 IAVEASNQLIESN  431 (605)
Q Consensus       419 ~a~~~~~~~~~~~  431 (605)
                      .|++.|+.++..-
T Consensus       121 ~A~~aF~~Ai~~~  133 (157)
T PRK15363        121 YAIKALKAVVRIC  133 (157)
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666666543

>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=96.96  E-value=0.002  Score=46.99  Aligned_cols=66  Identities=17%  Similarity=0.210  Sum_probs=53.7

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcC-ChHHHHHHHHHHHhcCC
Q 039695          366 DAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHG-RVDIAVEASNQLIESNQ  432 (605)
Q Consensus       366 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p  432 (605)
                      +...|..+...+.+.|++++|+..|++. ...|+ ++..|..+..++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3567777888888889999998888773 34554 4778889999999999 79999999999999887

...

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.96  E-value=0.058  Score=52.16  Aligned_cols=56  Identities=16%  Similarity=0.191  Sum_probs=27.5

Q ss_pred             HHHHHHHhC-CCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 039695          168 SLVDMYGKC-NDVDGARRVFDLMGC-----RN----VVSWTSIIVAHAQNAQGHEALEMFREFNYQ  223 (605)
Q Consensus       168 ~Li~~y~~~-g~~~~A~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  223 (605)
                      .+...|-.. |+++.|.+.|++..+     .+    ...+..+...+.+.|++++|+++|++....
T Consensus       119 ~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~  184 (282)
T PF14938_consen  119 ELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKK  184 (282)
T ss_dssp             HHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            344445555 556555555554421     11    123344555666667777777777666543

>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=96.92  E-value=0.00084  Score=48.91  Aligned_cols=56  Identities=25%  Similarity=0.305  Sum_probs=28.4

Q ss_pred             hcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          379 RTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       379 ~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      ..|++++|+++|+++. ..|+ +...+..+..++...|++++|...++++....|+++
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~   59 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNP   59 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHH
T ss_pred             hccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHH
Confidence            3455555555555432 2232 244455555555555555555555555555555543

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.90  E-value=0.063  Score=48.97  Aligned_cols=126  Identities=11%  Similarity=0.070  Sum_probs=65.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhH-----HHHHHH
Q 039695           97 TSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVV-----CSSLVD  171 (605)
Q Consensus        97 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~-----~~~Li~  171 (605)
                      ++++..+.-.|.+.-.+.++.+.++...+.+......+.+.....||.+.|...|+.+.+..-..|..+     .-....
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            444555555555656666666666655444555555566666666666666666665554422222222     222233


Q ss_pred             HHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 039695          172 MYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNY  222 (605)
Q Consensus       172 ~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  222 (605)
                      .|.-.+++..|...|++++.   .|++.-|.-.-+..-.|+..+|++.+..|..
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~  314 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQ  314 (366)
T ss_pred             heecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34445556666666665554   3334444333333344566666666666654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.85  E-value=0.014  Score=47.59  Aligned_cols=88  Identities=20%  Similarity=0.055  Sum_probs=55.9

Q ss_pred             HHHHhhcCCHHHHHHHHHhCCC---CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC---CCchHHHHHHHHHh
Q 039695          374 VDMLGRTGRLDEAYKLAKSIQV---DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ---VANAYVTLSNTYAL  447 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~m~~---~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~y~~  447 (605)
                      ..++-..|+.++|+.+|++...   ..+.....+-.+.+.+...|++++|..++++.++..|+   +......+..++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            4455566777777777665321   11111335556777777777777777777777776666   44555566667777


Q ss_pred             cCChhHHHHHHHHH
Q 039695          448 AGEWENVHSLRSEM  461 (605)
Q Consensus       448 ~g~~~~a~~~~~~m  461 (605)
                      .|++++|.+.+-..
T Consensus        88 ~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   88 LGRPKEALEWLLEA  101 (120)
T ss_pred             CCCHHHHHHHHHHH
Confidence            78888877766543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.79  E-value=0.0095  Score=57.54  Aligned_cols=132  Identities=13%  Similarity=0.044  Sum_probs=91.9

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHH---HHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-----C-CCCchh
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSM---YRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-----V-DPDGGP  401 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m---~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-----~-~p~~~~  401 (605)
                      ..|..|-..|.-.|+++.|+..++.=   .+++|-... ...+..+.+++.-.|.++.|.+.++..-     . ......
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            34566666666778899988776532   234443332 5567788888888999999988876521     1 111114


Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhc----C--CCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          402 LLWGTLLSASRLHGRVDIAVEASNQLIES----N--QQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       402 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~--p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .+.-+|.+.|....+++.|+..+.+-+.+    +  .....++.+|+++|...|..+.|..+.+.-.+
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            56778889998888999999888776542    2  23345888999999999999999887665543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.78  E-value=0.017  Score=54.74  Aligned_cols=98  Identities=14%  Similarity=0.134  Sum_probs=66.4

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCch--hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---CchHHHH
Q 039695          368 KHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGG--PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV---ANAYVTL  441 (605)
Q Consensus       368 ~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l  441 (605)
                      ..|...+..+.+.|++++|...|+.+. ..|+..  +..+--+..++...|+++.|...|+++++..|++   +.++..+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            345555555556677777777777643 334421  2356667777788888888888888888776664   3455566


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCC
Q 039695          442 SNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       442 ~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +.+|...|++++|.++++++.+..
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC
Confidence            777888888888888888776643

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.77  E-value=0.0027  Score=41.48  Aligned_cols=42  Identities=21%  Similarity=0.248  Sum_probs=37.3

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHH
Q 039695          402 LLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSN  443 (605)
Q Consensus       402 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  443 (605)
                      .+|..+..++...|++++|+++++++++..|+++.++..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            468889999999999999999999999999999988877653

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.76  E-value=0.37  Score=47.19  Aligned_cols=85  Identities=16%  Similarity=0.075  Sum_probs=54.7

Q ss_pred             HHHHcCChhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhc
Q 039695          305 GAAKYGLGRFSLDLFNEMISR---GIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRT  380 (605)
Q Consensus       305 ~~~~~g~~~~A~~l~~~m~~~---g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~  380 (605)
                      -..++|++.+|.+.|.+.+..   .+.|+...|.....+..+.|+.++|+.--+...   .+.|. +..|-.-..++.-.
T Consensus       258 ~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al---~iD~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  258 DAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL---KIDSSYIKALLRRANCHLAL  334 (486)
T ss_pred             hHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh---hcCHHHHHHHHHHHHHHHHH
Confidence            345678888888888877652   345555666666667777888888877666553   44544 33443334445556


Q ss_pred             CCHHHHHHHHHh
Q 039695          381 GRLDEAYKLAKS  392 (605)
Q Consensus       381 g~~~~A~~~~~~  392 (605)
                      +.|++|.+-+++
T Consensus       335 e~~e~AV~d~~~  346 (486)
T KOG0550|consen  335 EKWEEAVEDYEK  346 (486)
T ss_pred             HHHHHHHHHHHH
Confidence            778888777766

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.75  E-value=0.02  Score=55.47  Aligned_cols=255  Identities=12%  Similarity=-0.002  Sum_probs=150.9

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChhh----HHHHHHHHhccCChHHHHHHHHHHHH--h--CC-CCchhHHHHHHHH
Q 039695          102 GYINMGQPQIALLLFQKMLGNLVWPNEFT----FATVIKACSMLADLITGKQIHTHIET--F--GF-QYNLVVCSSLVDM  172 (605)
Q Consensus       102 ~~~~~g~~~~a~~~~~~m~~~g~~pd~~t----~~~ll~a~~~~~~~~~a~~~~~~~~~--~--g~-~~~~~~~~~Li~~  172 (605)
                      -+++.|+....+.+|+..++.|.. |..|    |..|-++|.-.+++++|.++|..=+.  .  |- .-.......|-+.
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            457788888888888888887754 4433    55556677777888888887753221  1  10 0111222234444


Q ss_pred             HHhCCCHHHHHHHHhh-c------CC--CChhhHHHHHHHHHHcCC--------------------hhHHHHHHHHH---
Q 039695          173 YGKCNDVDGARRVFDL-M------GC--RNVVSWTSIIVAHAQNAQ--------------------GHEALEMFREF---  220 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~-m------~~--~~~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m---  220 (605)
                      +--.|.+++|.-.-.+ +      ..  ....++..+...|...|+                    ++.|.++|.+=   
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            4445666665543221 1      11  111233335555554443                    22344444331   


Q ss_pred             -HHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHH----hCCC-CcHhHHHHHHHHHHhcCCHHHHHHHHhccC--
Q 039695          221 -NYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVR----SGCE-FNDVVASALVDMYAKCGSVNYSDKVFNRIS--  292 (605)
Q Consensus       221 -~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~----~g~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~~~--  292 (605)
                       ...|.--.-...|..+-+.|.-+|+++.+...|+.-+.    .|-. .....+..|.+.|.-.|+++.|.+.|....  
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence             12220111223566666667778899999888865443    3322 234567778889999999999998887543  


Q ss_pred             -----CCC--cchHHHHHHHHHHcCChhHHHHHHHHHHHc-----CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          293 -----NPS--VVTYTSMIVGAAKYGLGRFSLDLFNEMISR-----GIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       293 -----~~~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-----g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                           .+.  ..+..+|...|.-...+++|+.++.+-...     ...-....+.+|..++...|..++|+.+.+.-
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~h  341 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELH  341 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence                 232  235566778888888889999888764321     11223467888999999999999988776654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.72  E-value=0.14  Score=46.92  Aligned_cols=232  Identities=10%  Similarity=0.026  Sum_probs=112.5

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhh-cccCc-hh-hHHHHHHHHHH-hCCCCcHhHHH
Q 039695          194 VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINAC-ASLGR-LV-SGKVAHGVVVR-SGCEFNDVVAS  269 (605)
Q Consensus       194 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~-~~~~~-~~-~a~~~~~~~~~-~g~~~~~~~~~  269 (605)
                      ...|+.-+..+++...+++|..-+....+-.  .||-. |...-..+ .+.|. .. ..+.+|..+.+ .|.     -++
T Consensus        69 lq~wT~r~~~l~kLR~~~~a~~EL~~f~~lD--~pdl~-Yey~p~iyp~rrGSmVPFsmR~lhAe~~~~lgn-----pqe  140 (366)
T KOG2796|consen   69 LQLWTVRLALLVKLRLFQNAEMELEPFGNLD--QPDLY-YEYYPHVYPGRRGSMVPFSMRILHAELQQYLGN-----PQE  140 (366)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHhhhhhhccCC--Cccee-eeeccccCCCCcCccccHHHHHHHHHHHHhcCC-----cHH
Confidence            3456666777777777777765554443322  22211 10000000 01111 11 12234444443 222     244


Q ss_pred             HHHHHHHhcCCHHHHHHHHhccCC--CCcc--------hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 039695          270 ALVDMYAKCGSVNYSDKVFNRISN--PSVV--------TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLH  339 (605)
Q Consensus       270 ~li~~y~~~g~~~~A~~~~~~~~~--~~~~--------~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  339 (605)
                      +|...|.-..-+++-...|+.-..  ..+.        ..+.++..+.-.|.+.-.+.++++.++...+-++.....|.+
T Consensus       141 sLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr  220 (366)
T KOG2796|consen  141 SLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGR  220 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHH
Confidence            555555544444444444443221  1222        234455555556666667777777777655556666667777


Q ss_pred             HHhccCcHHHHHHHHHHHHHhcC----CCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcC
Q 039695          340 ACSHSGLVDEGIQHLDSMYRKYG----IIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHG  415 (605)
Q Consensus       340 a~~~~g~~~~a~~~~~~m~~~~~----~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g  415 (605)
                      .-.+.|+.+.|..+|+...+..+    +.-..-+.......|.-++++.+|...+.+++...+.++..-|.-.-+..-.|
T Consensus       221 ~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg  300 (366)
T KOG2796|consen  221 ISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLG  300 (366)
T ss_pred             HHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHH
Confidence            77777777777777776533322    11112222222233444555566666665555333323444444444444455


Q ss_pred             ChHHHHHHHHHHHhcCCC
Q 039695          416 RVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       416 ~~~~a~~~~~~~~~~~p~  433 (605)
                      +...|++..+.+++..|.
T Consensus       301 ~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  301 KLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             HHHHHHHHHHHHhccCCc
Confidence            566666666666655554

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.71  E-value=0.0073  Score=60.09  Aligned_cols=64  Identities=11%  Similarity=0.115  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCchh--hHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGGP--LLWGTLLSASRLHGRVDIAVEASNQLIES  430 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  430 (605)
                      ...++.+..+|.+.|++++|+..|++ +...|+...  .+|..+..+|...|+.++|+..++++++.
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            55666666666666666666666665 344454211  24666666666666666666666666665

>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=96.67  E-value=0.03  Score=48.06  Aligned_cols=63  Identities=16%  Similarity=0.099  Sum_probs=54.8

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      ......++..+...|+++.|...+++++..+|-+...|..++.+|...|+..+|.++++++.+
T Consensus        62 ~~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   62 LDALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            456677888889999999999999999999999999999999999999999999999998853

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.63  E-value=0.061  Score=43.92  Aligned_cols=100  Identities=8%  Similarity=-0.073  Sum_probs=57.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCC--hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCC--CchhHHHHHHHHHHh
Q 039695          100 MAGYINMGQPQIALLLFQKMLGNLVWPN--EFTFATVIKACSMLADLITGKQIHTHIETFGFQ--YNLVVCSSLVDMYGK  175 (605)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~pd--~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~--~~~~~~~~Li~~y~~  175 (605)
                      -.++-..|+.++|+.+|++....|+...  ...+..+-+.+...|++++|..+++........  -+..+...+.-++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            3445567788888888888877776543  234555666677777778777777777654211  022222333345556


Q ss_pred             CCCHHHHHHHHhhcCCCChhhHHH
Q 039695          176 CNDVDGARRVFDLMGCRNVVSWTS  199 (605)
Q Consensus       176 ~g~~~~A~~~~~~m~~~~~~~~~~  199 (605)
                      .|+.++|.+.+-....++...|.-
T Consensus        88 ~gr~~eAl~~~l~~la~~~~~y~r  111 (120)
T PF12688_consen   88 LGRPKEALEWLLEALAETLPRYRR  111 (120)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            677777666665443333333333

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.63  E-value=1.1  Score=46.79  Aligned_cols=30  Identities=10%  Similarity=-0.072  Sum_probs=19.9

Q ss_pred             CCchHHHHHHHHHHHcCCChhHHHHHHhcC
Q 039695           59 LSNTFTLNHLINCYVRLKKTQVARQLFDEM   88 (605)
Q Consensus        59 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m   88 (605)
                      .|.+..|..|...-.+.-.++.|...|-+.
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc  718 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRC  718 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhh
Confidence            466777777666665666677777766555

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=96.59  E-value=1  Score=45.78  Aligned_cols=161  Identities=10%  Similarity=0.102  Sum_probs=117.6

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVD  375 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  375 (605)
                      .+|-..+..-.+..-.+.|..+|.+..+.+..+ +.....+++.-++ +++.+-|.++|+.=.+++|-.|  .--...++
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~d~p--~yv~~Yld  443 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFGDSP--EYVLKYLD  443 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcCCCh--HHHHHHHH
Confidence            456677777777778889999999999988888 5566667776554 5888999999997776655433  34456778


Q ss_pred             HHhhcCCHHHHHHHHHhCCC---CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC----CchHHHHHHHHHhc
Q 039695          376 MLGRTGRLDEAYKLAKSIQV---DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV----ANAYVTLSNTYALA  448 (605)
Q Consensus       376 ~~~~~g~~~~A~~~~~~m~~---~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~----~~~~~~l~~~y~~~  448 (605)
                      -+...++-..|..+|++...   .|+....+|..++.--..-|+...+.++-++....-|.+    ...-..+++.|.-.
T Consensus       444 fL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~  523 (656)
T KOG1914|consen  444 FLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGIL  523 (656)
T ss_pred             HHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhc
Confidence            88889999999999988642   345456799999999999999999999888887655522    12334566777766


Q ss_pred             CChhHHHHHHHH
Q 039695          449 GEWENVHSLRSE  460 (605)
Q Consensus       449 g~~~~a~~~~~~  460 (605)
                      +.+..-..=++.
T Consensus       524 d~~~c~~~elk~  535 (656)
T KOG1914|consen  524 DLYPCSLDELKF  535 (656)
T ss_pred             ccccccHHHHHh
Confidence            665544443333

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.55  E-value=1.4  Score=46.72  Aligned_cols=114  Identities=18%  Similarity=0.177  Sum_probs=83.9

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHH
Q 039695          328 KPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTL  407 (605)
Q Consensus       328 ~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~l  407 (605)
                      .-...|.+-.+.-+...|+..+|.++-.+.    . -||-..|-.-+.+++..+++++-+++-++.+   .  +.-|.-+
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~F----k-ipdKr~~wLk~~aLa~~~kweeLekfAkskk---s--PIGy~PF  750 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDF----K-IPDKRLWWLKLTALADIKKWEELEKFAKSKK---S--PIGYLPF  750 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhc----C-CcchhhHHHHHHHHHhhhhHHHHHHHHhccC---C--CCCchhH
Confidence            334445555666677778888888876555    2 5777777777888999999999888877764   3  5678888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHH
Q 039695          408 LSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRS  459 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~  459 (605)
                      ..+|.+.|+.++|.+.+-+.-.        +.-...+|.+.|++.+|.++--
T Consensus       751 Ve~c~~~~n~~EA~KYiprv~~--------l~ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  751 VEACLKQGNKDEAKKYIPRVGG--------LQEKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHHHHhcccHHHHhhhhhccCC--------hHHHHHHHHHhccHHHHHHHHH
Confidence            8999999999998877654322        1257788999999988887643

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.53  E-value=1.4  Score=46.63  Aligned_cols=106  Identities=17%  Similarity=0.147  Sum_probs=84.3

Q ss_pred             HHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHH
Q 039695          272 VDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGI  351 (605)
Q Consensus       272 i~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~  351 (605)
                      +.-+...|+..+|.++-.+.+-||-..|-.-+.+++..+++++-.++-+.+..      +.-|.-...+|.+.|+.++|.
T Consensus       691 v~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~  764 (829)
T KOG2280|consen  691 VTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAK  764 (829)
T ss_pred             HHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHh
Confidence            44455678999999999999989999999999999999999877776655442      345666788999999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 039695          352 QHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI  393 (605)
Q Consensus       352 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  393 (605)
                      +++....   |..       -.+.+|.+.|++.+|.++.-+-
T Consensus       765 KYiprv~---~l~-------ekv~ay~~~~~~~eAad~A~~~  796 (829)
T KOG2280|consen  765 KYIPRVG---GLQ-------EKVKAYLRVGDVKEAADLAAEH  796 (829)
T ss_pred             hhhhccC---ChH-------HHHHHHHHhccHHHHHHHHHHh
Confidence            9998762   222       4678899999999998886543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.46  E-value=0.97  Score=44.03  Aligned_cols=302  Identities=14%  Similarity=0.080  Sum_probs=167.2

Q ss_pred             hhHHHHHHhcCCCCChhhHHHHHHHHHh--cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHh--ccCChHHHHHHHHH
Q 039695           78 TQVARQLFDEMLEPNVVSYTSLMAGYIN--MGQPQIALLLFQKMLGNLVWPNEFTFATVIKACS--MLADLITGKQIHTH  153 (605)
Q Consensus        78 ~~~A~~~f~~m~~~~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~--~~~~~~~a~~~~~~  153 (605)
                      +..+.+.|..-.  --.-|.+|-.++..  .|+-..|.++-.+-.+. +.-|...+..+|.+-.  -.|+.+.|++-|+.
T Consensus        69 P~t~~Ryfr~rK--RdrgyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeA  145 (531)
T COG3898          69 PYTARRYFRERK--RDRGYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEA  145 (531)
T ss_pred             cHHHHHHHHHHH--hhhHHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHH
Confidence            344444444321  12345556555554  45666666655544322 4446666777776554  45888888888888


Q ss_pred             HHHhCCCCchhH--HHHHHHHHHhCCCHHHHHHHHhhcCC--CC-hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC
Q 039695          154 IETFGFQYNLVV--CSSLVDMYGKCNDVDGARRVFDLMGC--RN-VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRP  228 (605)
Q Consensus       154 ~~~~g~~~~~~~--~~~Li~~y~~~g~~~~A~~~~~~m~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p  228 (605)
                      |...   |....  ...|.-.--+.|+.+.|...-+..-.  |. .-.|.+.+...+..|+++.|+++++.-+....+.+
T Consensus       146 Ml~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~  222 (531)
T COG3898         146 MLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEK  222 (531)
T ss_pred             HhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhch
Confidence            8752   22211  11222222356777777776665533  22 24567788888888888888888877665443455


Q ss_pred             ChhH--HHhHHHhhcc---cCchhhHHHHHHHHHHhCCCCcHhHHH-HHHHHHHhcCCHHHHHHHHhccCC--CCcchHH
Q 039695          229 NQHM--LASVINACAS---LGRLVSGKVAHGVVVRSGCEFNDVVAS-ALVDMYAKCGSVNYSDKVFNRISN--PSVVTYT  300 (605)
Q Consensus       229 ~~~t--~~~ll~a~~~---~~~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~  300 (605)
                      |..-  -..++.+-+.   ..+...++..-.+..+  +.||..-.. .-...+.+.|++.++-.+++.+-+  |.+..|.
T Consensus       223 ~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~  300 (531)
T COG3898         223 DVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIAL  300 (531)
T ss_pred             hhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHH
Confidence            5432  1222222111   1233344444333333  344433221 224567788888888888877754  4433332


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHH-cCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHh
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMIS-RGIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLG  378 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~-~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  378 (605)
                          .|....-.+.++.-+++... ..++|| ..+...+..+-...|++..|..--+...   ...|....|..|.+.-.
T Consensus       301 ----lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~---r~~pres~~lLlAdIee  373 (531)
T COG3898         301 ----LYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA---REAPRESAYLLLADIEE  373 (531)
T ss_pred             ----HHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh---hhCchhhHHHHHHHHHh
Confidence                33333334445555544433 235554 3455566667777788777776655553   45777777777776654


Q ss_pred             h-cCCHHHHHHHHHhCC
Q 039695          379 R-TGRLDEAYKLAKSIQ  394 (605)
Q Consensus       379 ~-~g~~~~A~~~~~~m~  394 (605)
                      - .|+-.++...+.+..
T Consensus       374 AetGDqg~vR~wlAqav  390 (531)
T COG3898         374 AETGDQGKVRQWLAQAV  390 (531)
T ss_pred             hccCchHHHHHHHHHHh
Confidence            3 477777777776643

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.44  E-value=0.51  Score=40.99  Aligned_cols=80  Identities=13%  Similarity=0.140  Sum_probs=37.2

Q ss_pred             HHHHHcCChhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhc
Q 039695          304 VGAAKYGLGRFSLDLFNEMISR---GIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRT  380 (605)
Q Consensus       304 ~~~~~~g~~~~A~~l~~~m~~~---g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~  380 (605)
                      ++....+++.+|...++++.+.   +-.||.  ...+..++...|....|+.-|+...   ...|+...-.....++.+.
T Consensus       132 ~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~--~Ll~aR~laa~g~~a~Aesafe~a~---~~ypg~~ar~~Y~e~La~q  206 (251)
T COG4700         132 QAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG--HLLFARTLAAQGKYADAESAFEVAI---SYYPGPQARIYYAEMLAKQ  206 (251)
T ss_pred             HHHHhhccHHHHHHHHHHHhhcCCccCCCCc--hHHHHHHHHhcCCchhHHHHHHHHH---HhCCCHHHHHHHHHHHHHh
Confidence            3333344444444444444432   122332  2234445555566666666665553   2344444433444555566


Q ss_pred             CCHHHHHH
Q 039695          381 GRLDEAYK  388 (605)
Q Consensus       381 g~~~~A~~  388 (605)
                      |+.++|..
T Consensus       207 gr~~ea~a  214 (251)
T COG4700         207 GRLREANA  214 (251)
T ss_pred             cchhHHHH
Confidence            65555433

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.41  E-value=0.56  Score=40.74  Aligned_cols=134  Identities=15%  Similarity=0.099  Sum_probs=94.0

Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCc-hhhH
Q 039695          327 IKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGII-PDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDG-GPLL  403 (605)
Q Consensus       327 ~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~-~~~~  403 (605)
                      ..|....-..|..+....|+..+|...|++...  |+- -|....-.+.++....+++.+|...++++- ..|.. .+..
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qals--G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALS--GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDG  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc--cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCc
Confidence            456666666777788888888888888887742  443 456677777777777888888888877642 22210 1334


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          404 WGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       404 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      --.+...+...|.+..|+..|+.++..-|+ +..-......+.++|+.+++..-+..+.+
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            455677888889999999999999887775 44556667788889988887766555544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.34  E-value=0.013  Score=43.25  Aligned_cols=63  Identities=22%  Similarity=0.303  Sum_probs=51.5

Q ss_pred             HHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchH
Q 039695          375 DMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                      ..|.+.+++++|.+.++.+. ..|+ ++..|......+...|+++.|.+.++++++..|+++...
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~   66 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDAR   66 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHH
Confidence            56788899999999988854 3444 377888899999999999999999999999999876543

>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=96.10  E-value=0.0099  Score=44.56  Aligned_cols=62  Identities=19%  Similarity=0.266  Sum_probs=41.2

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCC---CCchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIES----NQQ---VANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      ..+++.+...+...|++++|+..+++++++    +++   ...++..++.+|...|++++|.+.+++..
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            346667777777777777777777777643    221   13466777888888888888888777654

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.05  E-value=1.8  Score=43.06  Aligned_cols=410  Identities=12%  Similarity=0.100  Sum_probs=222.1

Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCCCCh---hhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695           47 ASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNV---VSYTSLMAGYINMGQPQIALLLFQKMLGNL  123 (605)
Q Consensus        47 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  123 (605)
                      .++.+.+...  +.|+.+|-.||.-|...|..++-++++++|..|-+   .+|..-|++=....++.....+|.+.+...
T Consensus        29 lrLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~  106 (660)
T COG5107          29 LRLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKS  106 (660)
T ss_pred             HHHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhh
Confidence            4444444332  66889999999999999999999999999988754   579999998888889999999999988865


Q ss_pred             CCCChhhHHHHHHHHhccCCh------HHHHHHHHHHHH-hCCCCc-hhHHHHHHHHHH---hCC------CHHHHHHHH
Q 039695          124 VWPNEFTFATVIKACSMLADL------ITGKQIHTHIET-FGFQYN-LVVCSSLVDMYG---KCN------DVDGARRVF  186 (605)
Q Consensus       124 ~~pd~~t~~~ll~a~~~~~~~------~~a~~~~~~~~~-~g~~~~-~~~~~~Li~~y~---~~g------~~~~A~~~~  186 (605)
                      +..|  .|..-|.-..+....      ....+.++..+. .+++|- ...|+..++..-   ..|      ++|..++.+
T Consensus       107 l~ld--LW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y  184 (660)
T COG5107         107 LNLD--LWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGY  184 (660)
T ss_pred             ccHh--HHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence            5534  344334332222211      122334444443 234432 334555544332   223      345556666


Q ss_pred             hhcCC-C---------ChhhHHHHHHHHHH-------cCChhHHHHHHHHHHH--cCC---CCCChhHHHhHHHh-----
Q 039695          187 DLMGC-R---------NVVSWTSIIVAHAQ-------NAQGHEALEMFREFNY--QSR---DRPNQHMLASVINA-----  239 (605)
Q Consensus       187 ~~m~~-~---------~~~~~~~li~~~~~-------~g~~~~A~~~~~~m~~--~~~---~~p~~~t~~~ll~a-----  239 (605)
                      .++.. |         |-..|..=+.....       ..-+-.|...+++...  .|.   .+.+..|++.+-+.     
T Consensus       185 ~ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~W  264 (660)
T COG5107         185 MRALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNW  264 (660)
T ss_pred             HHHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchh
Confidence            66643 1         11122211111111       1123445555555532  220   11233344332220     


Q ss_pred             ------hccc-----Cc-hh-hHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCc--------
Q 039695          240 ------CASL-----GR-LV-SGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PSV--------  296 (605)
Q Consensus       240 ------~~~~-----~~-~~-~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~--------  296 (605)
                            -...     ++ .+ ...-+|.+.... +.....+|----..+...++-+.|.+......+  |+.        
T Consensus       265 lNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~spsL~~~lse~y  343 (660)
T COG5107         265 LNWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSPSLTMFLSEYY  343 (660)
T ss_pred             hhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCCchheeHHHHH
Confidence                  0000     00 00 001111221111 122223333333334456677777777665543  221        


Q ss_pred             ----------chHHHHHHHHHH---cCChhHHHHH------HHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          297 ----------VTYTSMIVGAAK---YGLGRFSLDL------FNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       297 ----------~~~~~li~~~~~---~g~~~~A~~l------~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                                .+|..++..+.+   .|+.+.+...      ..+..-....-=...|...+++-.+..-++.|..+|-+.
T Consensus       344 el~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~  423 (660)
T COG5107         344 ELVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKL  423 (660)
T ss_pred             hhcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence                      112222222221   1111111111      111100001111245666777777778889999999998


Q ss_pred             HHhcC-CCCcHHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-
Q 039695          358 YRKYG-IIPDAKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV-  434 (605)
Q Consensus       358 ~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-  434 (605)
                       ++.+ +.+++..+++++.-++ .|+..-|.++|+. |..-||. +..-+-.+.-+...++-+.|..+|+..++.-..+ 
T Consensus       424 -rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~-~~y~~kyl~fLi~inde~naraLFetsv~r~~~~q  500 (660)
T COG5107         424 -RKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDS-TLYKEKYLLFLIRINDEENARALFETSVERLEKTQ  500 (660)
T ss_pred             -hccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCc-hHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhh
Confidence             4556 5678889999888665 5788889999886 4444551 3333445566677788889999999776532222 


Q ss_pred             -CchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          435 -ANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       435 -~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                       ...|..++.--+.-|+...|..+-++|.+.
T Consensus       501 ~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         501 LKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             hhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence             457888888888889988888877777664

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.01  E-value=1.4  Score=41.41  Aligned_cols=52  Identities=15%  Similarity=-0.065  Sum_probs=23.7

Q ss_pred             HHHhCCCHHHHHHHHhhcCC--CCh-hh---HHHHHHHHHHcCChhHHHHHHHHHHHc
Q 039695          172 MYGKCNDVDGARRVFDLMGC--RNV-VS---WTSIIVAHAQNAQGHEALEMFREFNYQ  223 (605)
Q Consensus       172 ~y~~~g~~~~A~~~~~~m~~--~~~-~~---~~~li~~~~~~g~~~~A~~~~~~m~~~  223 (605)
                      .+.+.|++++|.+.|+++..  |+. ..   .-.+..+|.+.+++++|+..|++..+.
T Consensus        41 ~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         41 QKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            33445555555555555533  211 11   112334445555555555555555443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.92  E-value=0.11  Score=49.23  Aligned_cols=92  Identities=14%  Similarity=0.067  Sum_probs=48.8

Q ss_pred             cCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC--chhhHHHHHHHHHHHcCChHH
Q 039695          344 SGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPD--GGPLLWGTLLSASRLHGRVDI  419 (605)
Q Consensus       344 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~--~~~~~~~~ll~~~~~~g~~~~  419 (605)
                      .|++++|...|+.+++.+.-.+ ....+..+...|...|++++|...|+.+. ..|+  ..+..+-.+...+...|+.+.
T Consensus       156 ~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~  235 (263)
T PRK10803        156 KSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAK  235 (263)
T ss_pred             cCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHH
Confidence            3455555555555543321111 02334445555566666666666655542 1121  013344455566667777777


Q ss_pred             HHHHHHHHHhcCCCCC
Q 039695          420 AVEASNQLIESNQQVA  435 (605)
Q Consensus       420 a~~~~~~~~~~~p~~~  435 (605)
                      |...++++++..|+..
T Consensus       236 A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        236 AKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHHHHHCcCCH
Confidence            7777777777777654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.88  E-value=0.072  Score=49.11  Aligned_cols=111  Identities=14%  Similarity=0.210  Sum_probs=85.1

Q ss_pred             HHHHHHhccC--CCCcchHHHHHHHHHHc-----CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc---------
Q 039695          283 YSDKVFNRIS--NPSVVTYTSMIVGAAKY-----GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGL---------  346 (605)
Q Consensus       283 ~A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~---------  346 (605)
                      ..++.|....  ++|-.+|-+++..|..+     +..+=....++.|.+-|+.-|..+|..||+.+-+..-         
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            4456677666  67888888888888754     5566667778899999999999999999988755422         


Q ss_pred             -------HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHH-HHHHHHHhCC
Q 039695          347 -------VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLD-EAYKLAKSIQ  394 (605)
Q Consensus       347 -------~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~-~A~~~~~~m~  394 (605)
                             -+=++.++++| +.+|+.||.++-..|++++++.+..- +..++.--|+
T Consensus       132 F~HYP~QQ~C~I~vLeqM-E~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQM-EWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HhhCchhhhHHHHHHHHH-HHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence                   23378899999 88999999999999999999988643 3444443343

>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=95.84  E-value=0.11  Score=42.89  Aligned_cols=51  Identities=16%  Similarity=0.314  Sum_probs=36.3

Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 039695          326 GIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDM  376 (605)
Q Consensus       326 g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  376 (605)
                      ...|+..+..+++.+|+..+++..|.++.+...+.++++-+...|..|+.-
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            356777777777777777777777777777777777766666666666553

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.84  E-value=0.076  Score=42.93  Aligned_cols=91  Identities=22%  Similarity=0.257  Sum_probs=72.7

Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc----hHHHHHHHHHhcC
Q 039695          375 DMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN----AYVTLSNTYALAG  449 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~y~~~g  449 (605)
                      -+++..|++++|++.|.+. ..-|. ++..||.-..+++-.|+.++|..-+++++++..+...    +|+.-+..|-..|
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            4577889999999999773 23332 2778999999999999999999999999987533322    6777788899999


Q ss_pred             ChhHHHHHHHHHHhCCC
Q 039695          450 EWENVHSLRSEMKRTGI  466 (605)
Q Consensus       450 ~~~~a~~~~~~m~~~~~  466 (605)
                      +-+.|..-|+...+.|-
T Consensus       130 ~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGS  146 (175)
T ss_pred             chHHHHHhHHHHHHhCC
Confidence            99999999998887775

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.84  E-value=0.45  Score=49.12  Aligned_cols=43  Identities=21%  Similarity=0.237  Sum_probs=20.5

Q ss_pred             HHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          173 YGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREF  220 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  220 (605)
                      +.+...+..|-++|..|.+.     ..+++.....+++++|..+-++.
T Consensus       757 lk~l~~~gLAaeIF~k~gD~-----ksiVqlHve~~~W~eAFalAe~h  799 (1081)
T KOG1538|consen  757 LKKLDSPGLAAEIFLKMGDL-----KSLVQLHVETQRWDEAFALAEKH  799 (1081)
T ss_pred             HhhccccchHHHHHHHhccH-----HHHhhheeecccchHhHhhhhhC
Confidence            33444455555555555331     12344444555555555554443

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.79  E-value=0.09  Score=51.34  Aligned_cols=66  Identities=12%  Similarity=0.039  Sum_probs=60.0

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..++..|..++.+.+++..|++...+.++++|+|..+...-+.+|...|.++.|...|+++.+...
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P  322 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEP  322 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCC
Confidence            456778888899999999999999999999999999999999999999999999999999987543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.65  E-value=0.57  Score=42.70  Aligned_cols=50  Identities=16%  Similarity=0.167  Sum_probs=38.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCc---hHHHHHHHHHhcCChhHHHH
Q 039695          407 LLSASRLHGRVDIAVEASNQLIESNQQVAN---AYVTLSNTYALAGEWENVHS  456 (605)
Q Consensus       407 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~y~~~g~~~~a~~  456 (605)
                      +..-|.+.|.+..|..-++.+++.-|+.+.   +...++.+|.+.|..+.+..
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            445678899999999999999999887654   56688899999999885543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.64  E-value=1.2  Score=45.11  Aligned_cols=99  Identities=16%  Similarity=0.204  Sum_probs=52.4

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCC--CCCchhhHHHHHHHHHHHc
Q 039695          337 VLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQV--DPDGGPLLWGTLLSASRLH  414 (605)
Q Consensus       337 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~p~~~~~~~~~ll~~~~~~  414 (605)
                      +..++.+.|+.++|.+.+.+|.+.+...-...+...|+..|...+++.++..++.+-..  -|......|++.+--.+..
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaRav  344 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKARAV  344 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHHhh
Confidence            44444555666666666666654432222234445566666666666666666555431  1222234555544333333


Q ss_pred             CC---------------hHHHHHHHHHHHhcCCCCC
Q 039695          415 GR---------------VDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       415 g~---------------~~~a~~~~~~~~~~~p~~~  435 (605)
                      ++               ...|.+++.++.+.+|..+
T Consensus       345 ~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp  380 (539)
T PF04184_consen  345 GDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVP  380 (539)
T ss_pred             ccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCc
Confidence            32               1246678888888888765

The molecular function of this protein is uncertain.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=95.59  E-value=4.4  Score=44.05  Aligned_cols=214  Identities=12%  Similarity=0.046  Sum_probs=128.7

Q ss_pred             hhhccchHHHHHHHHHhhh-CCCCCChhhHHHHHHHhh-----ChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCCh
Q 039695            5 LTRNLIFTLAASSLTRQNK-RSSCHTKAHFIQQLQECK-----HLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKT   78 (605)
Q Consensus         5 l~~~~~~~~a~~~l~~m~~-~g~~~~~~~~~~~l~~~~-----~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~   78 (605)
                      ....++++.|++......+ .|..+    +..++++..     +....-.+.+.....+ ..|..+...+..+|-..|..
T Consensus        19 ~ld~~qfkkal~~~~kllkk~Pn~~----~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~-~~D~~tLq~l~~~y~d~~~~   93 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHPNAL----YAKVLKALSLFRLGKGDEALKLLEALYGLK-GTDDLTLQFLQNVYRDLGKL   93 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCCCcH----HHHHHHHHHHHHhcCchhHHHHHhhhccCC-CCchHHHHHHHHHHHHHhhh
Confidence            3567889999999988654 34433    334444433     2222233333333223 23778889999999999999


Q ss_pred             hHHHHHHhcCCC--CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC-C---------hHH
Q 039695           79 QVARQLFDEMLE--PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLA-D---------LIT  146 (605)
Q Consensus        79 ~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~-~---------~~~  146 (605)
                      ++|..++++..+  |+..--..+.-+|++.+.+.+-.+.--+|-+ ..+-+.+.|=++++.....- .         +..
T Consensus        94 d~~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   94 DEAVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             hHHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            999999999855  5655555666777887776543333323322 23335666666666554321 1         234


Q ss_pred             HHHHHHHHHHhC-CCCchhHHHHHHHHHHhCCCHHHHHHHHhh-----cCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          147 GKQIHTHIETFG-FQYNLVVCSSLVDMYGKCNDVDGARRVFDL-----MGCRNVVSWTSIIVAHAQNAQGHEALEMFREF  220 (605)
Q Consensus       147 a~~~~~~~~~~g-~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~-----m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  220 (605)
                      |....+.+++.+ -..+..=...-...+...|++++|.+++..     ...-+...-+--+..+...+++.+..++-.+.
T Consensus       173 A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  173 AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            555666666544 111111111222345567889999998843     22234444455667777888999998888888


Q ss_pred             HHcC
Q 039695          221 NYQS  224 (605)
Q Consensus       221 ~~~~  224 (605)
                      ...|
T Consensus       253 l~k~  256 (932)
T KOG2053|consen  253 LEKG  256 (932)
T ss_pred             HHhC
Confidence            8776

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.59  E-value=2.5  Score=41.29  Aligned_cols=211  Identities=15%  Similarity=0.104  Sum_probs=125.9

Q ss_pred             ccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC-----CCCcc--hHHHHHHHHHH---cCC
Q 039695          242 SLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS-----NPSVV--TYTSMIVGAAK---YGL  311 (605)
Q Consensus       242 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~~--~~~~li~~~~~---~g~  311 (605)
                      ..|..+.+.++-+..-..- +.-.....++++..+..|+++.|.++.+.-.     ++++.  .-..|+.+-+.   .-+
T Consensus       166 r~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldad  244 (531)
T COG3898         166 RLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDAD  244 (531)
T ss_pred             hcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCC
Confidence            3444455554444443322 2223455566666666666666666666443     23332  11223322221   233


Q ss_pred             hhHHHHHHHHHHHcCCCCCHHH-HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHH--HHH
Q 039695          312 GRFSLDLFNEMISRGIKPNDVT-FVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDE--AYK  388 (605)
Q Consensus       312 ~~~A~~l~~~m~~~g~~pd~~t-~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~--A~~  388 (605)
                      ...|...-.+..+  +.||-+- -..-..++.+.|++.++-.+++.+-   ...|.+..+...+  +.|.|+...  ..+
T Consensus       245 p~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aW---K~ePHP~ia~lY~--~ar~gdta~dRlkR  317 (531)
T COG3898         245 PASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAW---KAEPHPDIALLYV--RARSGDTALDRLKR  317 (531)
T ss_pred             hHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHH---hcCCChHHHHHHH--HhcCCCcHHHHHHH
Confidence            4455555444443  5666432 2334567889999999999999885   4466666554333  345554322  111


Q ss_pred             --HHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc-CChhHHHHHHHHHHhC
Q 039695          389 --LAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALA-GEWENVHSLRSEMKRT  464 (605)
Q Consensus       389 --~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~-g~~~~a~~~~~~m~~~  464 (605)
                        -++.|  +|+ +..+--++..+....|++..|..-.+.+....|.. +.|..|.++-... |+-.++...+-+..+.
T Consensus       318 a~~L~sl--k~n-naes~~~va~aAlda~e~~~ARa~Aeaa~r~~pre-s~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         318 AKKLESL--KPN-NAESSLAVAEAALDAGEFSAARAKAEAAAREAPRE-SAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHHhc--Ccc-chHHHHHHHHHHHhccchHHHHHHHHHHhhhCchh-hHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence              13334  344 26677778888889999999999999999999875 5888888886654 8888888877666553

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.45  E-value=2  Score=47.98  Aligned_cols=158  Identities=16%  Similarity=0.167  Sum_probs=93.0

Q ss_pred             CCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHH
Q 039695          177 NDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVV  256 (605)
Q Consensus       177 g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~  256 (605)
                      +++++|+.-+.++.   ...|.-.+.---++|.+.+|+.+         .+|+...+..+..+|+.            .+
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~l---------y~~~~e~~k~i~~~ya~------------hL  949 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALAL---------YKPDSEKQKVIYEAYAD------------HL  949 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhe---------eccCHHHHHHHHHHHHH------------HH
Confidence            44555555554443   22333333333445556666555         35666666655555432            11


Q ss_pred             HHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH--H
Q 039695          257 VRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVT--F  334 (605)
Q Consensus       257 ~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t--~  334 (605)
                      .+..      .++--.-+|.++|+.++|.+                  +|...|++.+|+.+-.+|...   -|...  -
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      12223446788888888864                  455678999999998877532   22222  2


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 039695          335 VGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ  394 (605)
Q Consensus       335 ~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  394 (605)
                      ..|..-+...++.-+|-++..+..    -.|.     -.+..|++...+++|..+.....
T Consensus      1003 ~~L~s~L~e~~kh~eAa~il~e~~----sd~~-----~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1003 EELVSRLVEQRKHYEAAKILLEYL----SDPE-----EAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHcccchhHHHHHHHHh----cCHH-----HHHHHHhhHhHHHHHHHHHHhcc
Confidence            456677778888888877776553    2332     34567888889999988876654

>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=95.32  E-value=0.024  Score=42.41  Aligned_cols=64  Identities=19%  Similarity=0.185  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-----CCCCc--hhhHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-----VDPDG--GPLLWGTLLSASRLHGRVDIAVEASNQLIES  430 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~p~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  430 (605)
                      ..+|+.+...|.+.|++++|++.+++..     ..++.  ...++..+..++...|++++|++.+++.+++
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3456666666667777776666665431     11111  1446777888888888888888888877653

...

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.26  E-value=0.12  Score=51.64  Aligned_cols=61  Identities=10%  Similarity=0.080  Sum_probs=40.3

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcH----HHHHHHHHHHhhcCCHHHHHHHHHhC
Q 039695          330 NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDA----KHYTCVVDMLGRTGRLDEAYKLAKSI  393 (605)
Q Consensus       330 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m  393 (605)
                      +...++.+..+|...|++++|...|+..+   .+.|+.    ..|..+..+|...|++++|++.+++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rAL---eL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETAL---ELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHH---hhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34566667777777777777777777654   445652    23666777777777777777777664

>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=95.19  E-value=0.55  Score=38.27  Aligned_cols=139  Identities=16%  Similarity=0.180  Sum_probs=80.6

Q ss_pred             HcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHH
Q 039695          308 KYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAY  387 (605)
Q Consensus       308 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  387 (605)
                      -.|..++..++..+....   .+..-++.++--....-+-+-..+.++.+-+-+    |          ...+|++....
T Consensus        14 ldG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiF----D----------is~C~NlKrVi   76 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIF----D----------ISKCGNLKRVI   76 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS---------------GGG-S-THHHH
T ss_pred             HhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhc----C----------chhhcchHHHH
Confidence            356777777887777653   133334444433333334444445555442222    2          12355555555


Q ss_pred             HHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          388 KLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       388 ~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      .-+-.+.  .+  ..-....++.....|+-+.-.+++..+.+.+..+|....-++.+|.+.|+..++.+++.+.-++|++
T Consensus        77 ~C~~~~n--~~--se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   77 ECYAKRN--KL--SEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHTT-------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHhc--ch--HHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            5554442  12  4455666778888899999899999988766667888999999999999999999999999999874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.18  E-value=0.28  Score=48.04  Aligned_cols=139  Identities=14%  Similarity=0.020  Sum_probs=96.8

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCC
Q 039695          303 IVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGR  382 (605)
Q Consensus       303 i~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  382 (605)
                      .+.|.+.|++..|...|++.+..            |. +...-+.++......         .-..++..+.-.|.+.++
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~------------l~-~~~~~~~ee~~~~~~---------~k~~~~lNlA~c~lKl~~  272 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF------------LE-YRRSFDEEEQKKAEA---------LKLACHLNLAACYLKLKE  272 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH------------hh-ccccCCHHHHHHHHH---------HHHHHhhHHHHHHHhhhh
Confidence            45677778888887777776541            00 111111122221111         123456778888999999


Q ss_pred             HHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHH-HHHHHH
Q 039695          383 LDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENV-HSLRSE  460 (605)
Q Consensus       383 ~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a-~~~~~~  460 (605)
                      +.+|++..+... ..|+ |....-.=..++...|+++.|+..|+++++++|.|-.+-..|+.+--+..+..+. .++|..
T Consensus       273 ~~~Ai~~c~kvLe~~~~-N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~  351 (397)
T KOG0543|consen  273 YKEAIESCNKVLELDPN-NVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYAN  351 (397)
T ss_pred             HHHHHHHHHHHHhcCCC-chhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999887743 3333 3666666788999999999999999999999999988888888887777666554 778888


Q ss_pred             HHhC
Q 039695          461 MKRT  464 (605)
Q Consensus       461 m~~~  464 (605)
                      |-.+
T Consensus       352 mF~k  355 (397)
T KOG0543|consen  352 MFAK  355 (397)
T ss_pred             Hhhc
Confidence            8654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.16  E-value=0.55  Score=39.28  Aligned_cols=63  Identities=19%  Similarity=0.141  Sum_probs=45.5

Q ss_pred             HHHHhhcCCHHHHHHHHHhCCCC-CC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          374 VDMLGRTGRLDEAYKLAKSIQVD-PD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~m~~~-p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                      .....+.|++++|.+.|+.+..+ |-  -....---|+.++.+.++++.|...+++.+++.|.++.
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~   82 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN   82 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC
Confidence            33445678888888888876421 11  01345566888889999999999999999999988765

>PRK11619 lytic murein transglycosylase; Provisional

Probab=95.14  E-value=6.1  Score=42.94  Aligned_cols=116  Identities=12%  Similarity=-0.031  Sum_probs=53.2

Q ss_pred             CChhHHHHHHHHHHHc-CCCCCHH--HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHH
Q 039695          310 GLGRFSLDLFNEMISR-GIKPNDV--TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       310 g~~~~A~~l~~~m~~~-g~~pd~~--t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  386 (605)
                      .+.+.|..++.+.... +..+...  ....+.......+...++...++....   -..+......-+..-.+.++++.+
T Consensus       255 ~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~---~~~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        255 QDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIM---RSQSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             hCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccc---ccCCcHHHHHHHHHHHHccCHHHH
Confidence            4456677777665442 2322221  222222222222224445555543311   112333333344444467777777


Q ss_pred             HHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHH
Q 039695          387 YKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLI  428 (605)
Q Consensus       387 ~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  428 (605)
                      ...+..|+..-.....-.-=+..+....|+.+.|...|+++.
T Consensus       332 ~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        332 NTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            777777652111001111124445455677777777777763

>PRK11906 transcriptional regulator; Provisional

Probab=94.99  E-value=0.44  Score=47.94  Aligned_cols=64  Identities=9%  Similarity=-0.012  Sum_probs=44.1

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +.....+..+....++.+.|...|+++..++|+.+.+|...+....-+|+.++|.+.+++..+.
T Consensus       338 a~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        338 GKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             HHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            5555556666666666777777777777777777777777777777777777777777664443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=94.93  E-value=6  Score=41.78  Aligned_cols=152  Identities=7%  Similarity=0.033  Sum_probs=89.8

Q ss_pred             CCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC----hhhHHHHHHHHhccCChHHHHHH
Q 039695           75 LKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPN----EFTFATVIKACSMLADLITGKQI  150 (605)
Q Consensus        75 ~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd----~~t~~~ll~a~~~~~~~~~a~~~  150 (605)
                      -|++++|.+++-+|.++|..     |..+.+-|++-...++++.   -|-..|    ...|+.+-..++....++.|.+.
T Consensus       747 ~g~feeaek~yld~drrDLA-----ielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDLA-----IELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             hcchhHhhhhhhccchhhhh-----HHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            48999999999999877753     4555666776666555432   111111    23566666666666677777776


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCCh
Q 039695          151 HTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQ  230 (605)
Q Consensus       151 ~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~  230 (605)
                      +..--.         ...++.+|.+..++++-+.+-..+++.+ ...-.|...+...|..++|.+.|-+--     .|. 
T Consensus       819 Y~~~~~---------~e~~~ecly~le~f~~LE~la~~Lpe~s-~llp~~a~mf~svGMC~qAV~a~Lr~s-----~pk-  882 (1189)
T KOG2041|consen  819 YSYCGD---------TENQIECLYRLELFGELEVLARTLPEDS-ELLPVMADMFTSVGMCDQAVEAYLRRS-----LPK-  882 (1189)
T ss_pred             HHhccc---------hHhHHHHHHHHHhhhhHHHHHHhcCccc-chHHHHHHHHHhhchHHHHHHHHHhcc-----CcH-
Confidence            654321         1234556666666666666666665532 234456667777777777777665431     121 


Q ss_pred             hHHHhHHHhhcccCchhhHHHHHH
Q 039695          231 HMLASVINACASLGRLVSGKVAHG  254 (605)
Q Consensus       231 ~t~~~ll~a~~~~~~~~~a~~~~~  254 (605)
                          ..+.+|..++++.+|.++-.
T Consensus       883 ----aAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  883 ----AAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             ----HHHHHHHHHHHHHHHHHHHH
Confidence                34556666666666665543

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.81  E-value=0.88  Score=42.95  Aligned_cols=104  Identities=13%  Similarity=0.037  Sum_probs=76.4

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcC---CHHHHHHHHHhCC-CCCCchhh
Q 039695          328 KPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTG---RLDEAYKLAKSIQ-VDPDGGPL  402 (605)
Q Consensus       328 ~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g---~~~~A~~~~~~m~-~~p~~~~~  402 (605)
                      +-|...|..|..+|...|+.+.|..-|....   .+.|+ ...+..+..++....   ...++.++|+++. .+|+ ++.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~---rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~ir  228 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNAL---RLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIR  228 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHH
Confidence            3367788888888888888888888888775   34443 666666666654432   4567888888754 3443 366


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      +..-|...+...|++.+|...|+.|++..|.+.
T Consensus       229 al~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         229 ALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            777788889999999999999999999887764

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.79  E-value=3.1  Score=37.91  Aligned_cols=197  Identities=14%  Similarity=0.081  Sum_probs=123.4

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccC-----CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRIS-----NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLH  339 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  339 (605)
                      ..........+...+.+..+...+....     ......+......+...+...++...+.........+. ........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHH
Confidence            3455555566666666666666665543     12334455555566666667777777777666433331 11112222


Q ss_pred             -HHhccCcHHHHHHHHHHHHHhcCCCC----cHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCc-hhhHHHHHHHHHHH
Q 039695          340 -ACSHSGLVDEGIQHLDSMYRKYGIIP----DAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDG-GPLLWGTLLSASRL  413 (605)
Q Consensus       340 -a~~~~g~~~~a~~~~~~m~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~-~~~~~~~ll~~~~~  413 (605)
                       ++...|+++.+...+.....   ..|    ....+......+...++.++|...+......... ....+..+...+..
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  214 (291)
T COG0457         138 GALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLK  214 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHH
Confidence             56677888888887777632   232    2344444444566778888888887765422221 25667778888888


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          414 HGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       414 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .++.+.+...+.......|.....+..+...+...|.++++...+.+.....
T Consensus       215 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         215 LGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             cccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8888888888888888888755566666676666677888888877776543

>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=94.64  E-value=0.37  Score=41.21  Aligned_cols=67  Identities=13%  Similarity=0.173  Sum_probs=30.2

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHH----HhcCCCCcHHH
Q 039695          302 MIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMY----RKYGIIPDAKH  369 (605)
Q Consensus       302 li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~----~~~~~~p~~~~  369 (605)
                      ++..+...|++++|+.+.+.+... -+-|...+..++.++...|+..+|.+.|+.+.    ++.|+.|+..+
T Consensus        68 l~~~~~~~~~~~~a~~~~~~~l~~-dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   68 LAEALLEAGDYEEALRLLQRALAL-DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHhccCHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            344444555555555555555553 22244555555555555555555555554442    23355555443

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.56  E-value=10  Score=42.77  Aligned_cols=27  Identities=15%  Similarity=0.183  Sum_probs=17.8

Q ss_pred             hHHHHHHHHHHhCC--CHHHHHHHHhhcC
Q 039695          164 VVCSSLVDMYGKCN--DVDGARRVFDLMG  190 (605)
Q Consensus       164 ~~~~~Li~~y~~~g--~~~~A~~~~~~m~  190 (605)
                      .-...+|..|.+.+  .++.|+....+..
T Consensus       791 ~~~~~ilTs~vk~~~~~ie~aL~kI~~l~  819 (1265)
T KOG1920|consen  791 KFNLFILTSYVKSNPPEIEEALQKIKELQ  819 (1265)
T ss_pred             hhhHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            44556777777777  6677776666554

>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=94.51  E-value=0.55  Score=48.15  Aligned_cols=135  Identities=19%  Similarity=0.219  Sum_probs=89.4

Q ss_pred             HHHHHcCChhHHHHHHHH-HHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCC
Q 039695          304 VGAAKYGLGRFSLDLFNE-MISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGR  382 (605)
Q Consensus       304 ~~~~~~g~~~~A~~l~~~-m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  382 (605)
                      ....-+|+++++.++... -.-..++  ..-...++.-+.+.|..+.|+++-..-..             -.++..++|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~~-------------rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPDH-------------RFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH-------------HHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChHH-------------HhHHHHhcCC
Confidence            344557788887666641 1111122  33466777777888999998876443321             2456678999


Q ss_pred             HHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          383 LDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       383 ~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      ++.|.++.++..   +  +..|..|......+|+++.|++.+.+.        .-+..|+-.|.-.|+.+.-.++-+...
T Consensus       334 L~~A~~~a~~~~---~--~~~W~~Lg~~AL~~g~~~lAe~c~~k~--------~d~~~L~lLy~~~g~~~~L~kl~~~a~  400 (443)
T PF04053_consen  334 LDIALEIAKELD---D--PEKWKQLGDEALRQGNIELAEECYQKA--------KDFSGLLLLYSSTGDREKLSKLAKIAE  400 (443)
T ss_dssp             HHHHHHHCCCCS---T--HHHHHHHHHHHHHTTBHHHHHHHHHHC--------T-HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC---c--HHHHHHHHHHHHHcCCHHHHHHHHHhh--------cCccccHHHHHHhCCHHHHHHHHHHHH
Confidence            999999877664   5  789999999999999999999999884        346678888999999888888887777


Q ss_pred             hCCC
Q 039695          463 RTGI  466 (605)
Q Consensus       463 ~~~~  466 (605)
                      .+|-
T Consensus       401 ~~~~  404 (443)
T PF04053_consen  401 ERGD  404 (443)
T ss_dssp             HTT-
T ss_pred             HccC
Confidence            7664

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.40  E-value=0.081  Score=31.95  Aligned_cols=32  Identities=19%  Similarity=0.086  Sum_probs=25.4

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          402 LLWGTLLSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       402 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      .+|..+..++...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            46777888888888888888888888888875

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 ....

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.27  E-value=4.2  Score=37.19  Aligned_cols=88  Identities=11%  Similarity=0.032  Sum_probs=51.1

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC-------CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhc----CCCCCch
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ-------VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIES----NQQVANA  437 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~-------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~p~~~~~  437 (605)
                      .|......|.+..+++||-..|.+-.       .-|+ .-..+.+.+-.+.-..++..|++.++.-.+.    +|++..+
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~-~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~  230 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNS-QCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRS  230 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhccc-HHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHH
Confidence            34444556667777777666554422       1122 0123455555556666788888888775543    3666667


Q ss_pred             HHHHHHHHHhcCChhHHHHHH
Q 039695          438 YVTLSNTYALAGEWENVHSLR  458 (605)
Q Consensus       438 ~~~l~~~y~~~g~~~~a~~~~  458 (605)
                      ...|+.+|- .|+.+++.++.
T Consensus       231 lenLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  231 LENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHhc-cCCHHHHHHHH
Confidence            777777664 46666666554

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=94.23  E-value=3.4  Score=40.98  Aligned_cols=72  Identities=14%  Similarity=0.138  Sum_probs=43.3

Q ss_pred             HHHHHHHcCCChhHHHHHHhcCCCC---Chhh----HHHHHHHHHh---cCChhHHHHHHHHHHhCCCCCChhhHHHHHH
Q 039695           67 HLINCYVRLKKTQVARQLFDEMLEP---NVVS----YTSLMAGYIN---MGQPQIALLLFQKMLGNLVWPNEFTFATVIK  136 (605)
Q Consensus        67 ~li~~~~~~g~~~~A~~~f~~m~~~---~~~~----~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~  136 (605)
                      .|+-.|-...+++...++++.+...   ++..    --...-++-+   .|+.++|++++..+....-.++..||..+.+
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            3444577777888888888877442   1111    1112223334   6777888888877666556667777776665


Q ss_pred             HH
Q 039695          137 AC  138 (605)
Q Consensus       137 a~  138 (605)
                      .|
T Consensus       226 Iy  227 (374)
T PF13281_consen  226 IY  227 (374)
T ss_pred             HH
Confidence            54

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=94.22  E-value=4.2  Score=36.97  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=9.5

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHH
Q 039695          200 IIVAHAQNAQGHEALEMFREFNY  222 (605)
Q Consensus       200 li~~~~~~g~~~~A~~~~~~m~~  222 (605)
                      ++.++.+.|++++|...|++...
T Consensus        48 la~a~y~~~~y~~A~~~~~~fi~   70 (203)
T PF13525_consen   48 LAYAYYKQGDYEEAIAAYERFIK   70 (203)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444444444444444444433

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.16  E-value=0.14  Score=30.83  Aligned_cols=33  Identities=21%  Similarity=0.156  Sum_probs=24.3

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 039695          402 LLWGTLLSASRLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       402 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      ..|..+...+...|++++|++.++++++++|++
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            356677777888888888888888888887764

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 ....

>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=94.09  E-value=0.61  Score=38.51  Aligned_cols=97  Identities=14%  Similarity=0.049  Sum_probs=50.6

Q ss_pred             ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhc--CCCChhhHHHHHHHH
Q 039695          127 NEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLM--GCRNVVSWTSIIVAH  204 (605)
Q Consensus       127 d~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m--~~~~~~~~~~li~~~  204 (605)
                      |..++..++-++++.|+++....+.+..-  |+.++...         ..+.       +..-  ..|+.....+++.+|
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~-------~~~~spl~Pt~~lL~AIv~sf   62 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD-------YPPSSPLYPTSRLLIAIVHSF   62 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc-------cCCCCCCCCCHHHHHHHHHHH
Confidence            44566666666666676666666654332  22222100         0000       1000  125566666666666


Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhc
Q 039695          205 AQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACA  241 (605)
Q Consensus       205 ~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~  241 (605)
                      +.+|++..|+++.+...+.-+++.+..++..++.-+.
T Consensus        63 ~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   63 GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            6666666666666666555445555666666665443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.97  E-value=0.43  Score=44.22  Aligned_cols=111  Identities=12%  Similarity=0.104  Sum_probs=78.8

Q ss_pred             hHHHHHHhcCC--CCChhhHHHHHHHHHhc-----CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC---------
Q 039695           79 QVARQLFDEML--EPNVVSYTSLMAGYINM-----GQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLA---------  142 (605)
Q Consensus        79 ~~A~~~f~~m~--~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~---------  142 (605)
                      -...+.|...+  ++|-.+|-+.+..|...     +.++-....++.|.+.|+.-|..+|+.||+.+-+..         
T Consensus        51 v~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~  130 (406)
T KOG3941|consen   51 VHVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQK  130 (406)
T ss_pred             cchhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHH
Confidence            34456677665  67888888888888654     455656666788999999999999999998764432         


Q ss_pred             -------ChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCH-HHHHHHHhhc
Q 039695          143 -------DLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDV-DGARRVFDLM  189 (605)
Q Consensus       143 -------~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~-~~A~~~~~~m  189 (605)
                             +-+-+..++++|...|+-||..+--.|++++++.+.. .+..++.--|
T Consensus       131 ~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  131 VFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence                   2234677888888888888888888888888777653 3333443333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.89  E-value=1.5  Score=44.34  Aligned_cols=152  Identities=13%  Similarity=0.085  Sum_probs=88.4

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHH
Q 039695          309 YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYK  388 (605)
Q Consensus       309 ~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  388 (605)
                      ..++..-+++-++..+  +.||..+...++ +--.+..+.++++++++.++..     ...+..- ......|..-   +
T Consensus       181 ERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAg-----E~~lg~s-~~~~~~g~~~---e  248 (539)
T PF04184_consen  181 ERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKAG-----EASLGKS-QFLQHHGHFW---E  248 (539)
T ss_pred             cCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHH-----HHhhchh-hhhhcccchh---h
Confidence            3444555555555554  556654433333 3334556788888888775321     0000000 0000111111   1


Q ss_pred             HHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--CCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          389 LAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ--VANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       389 ~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      .+..-...|-  ..+-..|..++.+.|+.++|++.++++++..|.  +-.+...|++++...+++.++..++.+..+-..
T Consensus       249 ~~~~Rdt~~~--~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l  326 (539)
T PF04184_consen  249 AWHRRDTNVL--VYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL  326 (539)
T ss_pred             hhhccccchh--hhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC
Confidence            1111111122  334456788888999999999999999987765  345788999999999999999999998866555


Q ss_pred             ccCCceeE
Q 039695          467 HKEPGCSW  474 (605)
Q Consensus       467 ~~~~~~s~  474 (605)
                      ++....+|
T Consensus       327 pkSAti~Y  334 (539)
T PF04184_consen  327 PKSATICY  334 (539)
T ss_pred             CchHHHHH
Confidence            55544444

The molecular function of this protein is uncertain.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.88  E-value=4.9  Score=38.02  Aligned_cols=50  Identities=10%  Similarity=-0.000  Sum_probs=21.6

Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          307 AKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       307 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      ...|+..+|..+|......... +...-..+..++...|+++.|..++..+
T Consensus       145 ~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~l  194 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAAL  194 (304)
T ss_pred             hhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhC
Confidence            3444555555555444442111 1223333444444455555555444433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.73  E-value=3.3  Score=39.09  Aligned_cols=122  Identities=10%  Similarity=0.086  Sum_probs=88.2

Q ss_pred             HHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHH---HHHHHHHc
Q 039695          339 HACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGT---LLSASRLH  414 (605)
Q Consensus       339 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~---ll~~~~~~  414 (605)
                      ......|+..++...|+.....   .|. ...-..|...|...|+.++|..++..+|..-.  ..-|..   -+..+.+.
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~---~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~--~~~~~~l~a~i~ll~qa  216 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQA---APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQ--DKAAHGLQAQIELLEQA  216 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHh---CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccch--hhHHHHHHHHHHHHHHH
Confidence            3456779999999999988643   333 56667789999999999999999999985433  333333   23334444


Q ss_pred             CChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          415 GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       415 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      .+..+... ++.-...+|+|...-..|...|...|+.++|.+.+-.+.+++.
T Consensus       217 a~~~~~~~-l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~  267 (304)
T COG3118         217 AATPEIQD-LQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDR  267 (304)
T ss_pred             hcCCCHHH-HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            44433332 3344567899999999999999999999999998887776654

>PRK11906 transcriptional regulator; Provisional

Probab=93.73  E-value=4.7  Score=40.87  Aligned_cols=158  Identities=13%  Similarity=0.103  Sum_probs=104.2

Q ss_pred             chH--HHHHHHHHHc-----CChhHHHHHHHHHHH-cCCCCCHH-HHHHHHHHHh--------c-cCcHHHHHHHHHHHH
Q 039695          297 VTY--TSMIVGAAKY-----GLGRFSLDLFNEMIS-RGIKPNDV-TFVGVLHACS--------H-SGLVDEGIQHLDSMY  358 (605)
Q Consensus       297 ~~~--~~li~~~~~~-----g~~~~A~~l~~~m~~-~g~~pd~~-t~~~ll~a~~--------~-~g~~~~a~~~~~~m~  358 (605)
                      ..|  ..++.|....     ...+.|+.+|.+... ..+.|+-. .|..+..++.        . .....+|.+.-+..+
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            566  6666665542     235578889998883 23566543 3333322221        1 233455666665554


Q ss_pred             HhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          359 RKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       359 ~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                         .+.|+ ......+..++.-.|+++.|..+|++.. ..|+ ...+|......+.-.|+.++|.+.+++.++++|....
T Consensus       332 ---eld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~  407 (458)
T PRK11906        332 ---DITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRK  407 (458)
T ss_pred             ---hcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhH
Confidence               45554 7777778888888899999999999854 4565 3667777777788899999999999999999998755


Q ss_pred             hHH--HHHHHHHhcCChhHHHHHHH
Q 039695          437 AYV--TLSNTYALAGEWENVHSLRS  459 (605)
Q Consensus       437 ~~~--~l~~~y~~~g~~~~a~~~~~  459 (605)
                      +-.  ..+++|... ..++|.+++-
T Consensus       408 ~~~~~~~~~~~~~~-~~~~~~~~~~  431 (458)
T PRK11906        408 AVVIKECVDMYVPN-PLKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHHHcCC-chhhhHHHHh
Confidence            433  334456654 4566666653

>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=93.50  E-value=7.5  Score=37.40  Aligned_cols=67  Identities=9%  Similarity=0.068  Sum_probs=31.8

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC-C--CcchHHHHHHHHHH--cCChhHHHHHHHHHHHcCCCCCH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN-P--SVVTYTSMIVGAAK--YGLGRFSLDLFNEMISRGIKPND  331 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~-~--~~~~~~~li~~~~~--~g~~~~A~~l~~~m~~~g~~pd~  331 (605)
                      +.++-.-+....+.++.+.+.+++.+|.. .  ....+..++..+-+  ......|...+..+....+.|..
T Consensus       121 ~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  121 PEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             cHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            33333344445555666666666665542 1  22344444444321  12334555666665554444443

It is also involved in sporulation [].

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.45  E-value=2.8  Score=35.43  Aligned_cols=42  Identities=7%  Similarity=-0.009  Sum_probs=20.3

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH  343 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~  343 (605)
                      .++..+.+.+.+.....+++.+...+. .+...++.++..+++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~   53 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHH
Confidence            344444444555555555555554432 344444455555543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.45  E-value=0.62  Score=43.34  Aligned_cols=93  Identities=14%  Similarity=0.237  Sum_probs=61.2

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC-------CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---CchH
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ-------VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV---ANAY  438 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~-------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~  438 (605)
                      .|+.-++.| +.|++.+|...|....       ..|+  ..-|  |..++...|+++.|...|..+.+-.|+.   +..+
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~n--A~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdal  218 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPN--AYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDAL  218 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccch--hHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHH
Confidence            455444433 4556777776665532       1222  3333  7777788888888888888887765544   4567


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          439 VTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      .-|+.+..+.|+.++|..+++++.++-.
T Consensus       219 lKlg~~~~~l~~~d~A~atl~qv~k~YP  246 (262)
T COG1729         219 LKLGVSLGRLGNTDEACATLQQVIKRYP  246 (262)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHHCC
Confidence            7778888888888888888888876543

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=93.42  E-value=7.4  Score=42.20  Aligned_cols=85  Identities=12%  Similarity=0.043  Sum_probs=33.4

Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhC-CCCcHhHHHHHHHHHHh---
Q 039695          202 VAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSG-CEFNDVVASALVDMYAK---  277 (605)
Q Consensus       202 ~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~li~~y~~---  277 (605)
                      ..+.-.|+++.|++.+.+  ..+ ...|.+.+...+.-+.-..-.....   ..+.... -.+...-+..||..|.+   
T Consensus       266 ~~LlLtgqFE~AI~~L~~--~~~-~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  266 QVLLLTGQFEAAIEFLYR--NEF-NRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHTT-HHHHHHHHHT----T--HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHhhHHHHHHHHHh--hcc-CcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            344556777777777765  122 4556666666665554332222211   1111110 01111345556666654   


Q ss_pred             cCCHHHHHHHHhccC
Q 039695          278 CGSVNYSDKVFNRIS  292 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~  292 (605)
                      ..+..+|.+.|--+.
T Consensus       340 ~td~~~Al~Y~~li~  354 (613)
T PF04097_consen  340 ITDPREALQYLYLIC  354 (613)
T ss_dssp             TT-HHHHHHHHHGGG
T ss_pred             ccCHHHHHHHHHHHH
Confidence            345555655555443

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.40  E-value=1.8  Score=36.24  Aligned_cols=113  Identities=15%  Similarity=0.075  Sum_probs=53.9

Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCC--CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCC
Q 039695          305 GAAKYGLGRFSLDLFNEMISRGIK--PNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGR  382 (605)
Q Consensus       305 ~~~~~g~~~~A~~l~~~m~~~g~~--pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  382 (605)
                      ...+.|++++|.+.|+.+...-..  -....-..++.++...+++++|...++..++-+--.|+ ..|...+.+++.-..
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~~~~   97 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSYYEQ   97 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHHHHH
Confidence            344556666666666666554111  12234445566666666666666666666533222222 233333444333222


Q ss_pred             HHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          383 LDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       383 ~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      .+..+.-+-.  .+.|               .+....|...|+++++.-|++.
T Consensus        98 ~~~~~~~~~~--~drD---------------~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   98 DEGSLQSFFR--SDRD---------------PTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             hhhHHhhhcc--cccC---------------cHHHHHHHHHHHHHHHHCcCCh
Confidence            2211111110  1111               1224577777888888878754

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.38  E-value=0.82  Score=44.01  Aligned_cols=122  Identities=13%  Similarity=0.151  Sum_probs=62.4

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCC--C--cHHHHHHHHHHHhhcCCHHHHHHHHH-------hCCCCCCch----h
Q 039695          337 VLHACSHSGLVDEGIQHLDSMYRKYGII--P--DAKHYTCVVDMLGRTGRLDEAYKLAK-------SIQVDPDGG----P  401 (605)
Q Consensus       337 ll~a~~~~g~~~~a~~~~~~m~~~~~~~--p--~~~~~~~li~~~~~~g~~~~A~~~~~-------~m~~~p~~~----~  401 (605)
                      +-.|+...+.++++.+.|+...+-..-.  |  ...+|..|...|++..++++|.-+..       ....+ |.+    .
T Consensus       128 ~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~  206 (518)
T KOG1941|consen  128 MGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSLKYRA  206 (518)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhHHHHH
Confidence            4445555556666666666553322111  1  24556666677777666666544332       22211 100    1


Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCC----CchHHHHHHHHHhcCChhHHHHHHH
Q 039695          402 LLWGTLLSASRLHGRVDIAVEASNQLIESN--QQV----ANAYVTLSNTYALAGEWENVHSLRS  459 (605)
Q Consensus       402 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~~----~~~~~~l~~~y~~~g~~~~a~~~~~  459 (605)
                      .+.-.+..+++..|....|.+.-+++.++.  ..|    ......++++|-..|+.|.|..-++
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe  270 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYE  270 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHH
Confidence            122234456667777777776666665532  222    2233456677777776666655444

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.24  E-value=14  Score=39.76  Aligned_cols=75  Identities=12%  Similarity=0.040  Sum_probs=43.3

Q ss_pred             HHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 039695           63 FTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSM  140 (605)
Q Consensus        63 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~  140 (605)
                      .++..+|+.+.-.|++++|-.+.-.|...+..-|.--+..++..++......+   +.......+...|..+|-.+..
T Consensus       393 kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~Ia~~---lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  393 KVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDIAPY---LPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             HHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchhhcc---CCCCCcccCchHHHHHHHHHHH
Confidence            45666677777777777777777777766777777666666666655433222   2222122234455555555544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.14  E-value=1  Score=41.95  Aligned_cols=92  Identities=18%  Similarity=0.209  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcC----CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISRG----IKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCV  373 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~l  373 (605)
                      |+.-+. +.+.|++.+|...|...++..    ..||  .+-.|..++...|+++.|..+|..+.++++-.|. ++.+--|
T Consensus       145 Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~n--A~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKl  221 (262)
T COG1729         145 YNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPN--AYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKL  221 (262)
T ss_pred             HHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccch--hHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHH
Confidence            444333 334556777777777766642    1222  3334666777777777777777777666555554 4555566


Q ss_pred             HHHHhhcCCHHHHHHHHHhC
Q 039695          374 VDMLGRTGRLDEAYKLAKSI  393 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~m  393 (605)
                      .....+.|+.++|...++++
T Consensus       222 g~~~~~l~~~d~A~atl~qv  241 (262)
T COG1729         222 GVSLGRLGNTDEACATLQQV  241 (262)
T ss_pred             HHHHHHhcCHHHHHHHHHHH
Confidence            66666666666666666554

>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=92.73  E-value=4  Score=33.50  Aligned_cols=136  Identities=15%  Similarity=0.145  Sum_probs=75.3

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhH---HHHHHHHHHhCCCHHH
Q 039695          105 NMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVV---CSSLVDMYGKCNDVDG  181 (605)
Q Consensus       105 ~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~---~~~Li~~y~~~g~~~~  181 (605)
                      -.|..++..++..+...+.   +..-+|.++--....-+-+...++++.+   |--.|...   .-.++.+|++.|..  
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsI---GkiFDis~C~NlKrVi~C~~~~n~~--   85 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSI---GKIFDISKCGNLKRVIECYAKRNKL--   85 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHH---GGGS-GGG-S-THHHHHHHHHTT----
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHH---hhhcCchhhcchHHHHHHHHHhcch--
Confidence            3566777777777765532   4455666655444444444444444332   32222221   12233444444332  


Q ss_pred             HHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCC
Q 039695          182 ARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGC  261 (605)
Q Consensus       182 A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  261 (605)
                                  ....+.-+....+.|+-++--+++.++...  -.+++.....+..||.+.|+..++..++..+-+.|+
T Consensus        86 ------------se~vD~ALd~lv~~~kkDqLdki~~~l~kn--~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   86 ------------SEYVDLALDILVKQGKKDQLDKIYNELKKN--EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             -------------HHHHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             ------------HHHHHHHHHHHHHhccHHHHHHHHHHHhhc--cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence                        223344567778888888888888887764  378888888899999999999999988888888875


Q ss_pred             C
Q 039695          262 E  262 (605)
Q Consensus       262 ~  262 (605)
                      +
T Consensus       152 k  152 (161)
T PF09205_consen  152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            4

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.52  E-value=6.9  Score=40.84  Aligned_cols=161  Identities=14%  Similarity=0.107  Sum_probs=101.3

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHc-CCCCCH-----HHHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCcHHHH
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMISR-GIKPND-----VTFVGVLHACSH----SGLVDEGIQHLDSMYRKYGIIPDAKHY  370 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~~-g~~pd~-----~t~~~ll~a~~~----~g~~~~a~~~~~~m~~~~~~~p~~~~~  370 (605)
                      .+++...-.|+-+.+++++.+-.+. |+.-..     .+|..++..+..    ....+.+.++++.+.++   .|+...|
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lf  269 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALF  269 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHH
Confidence            3444444456666666666554432 222111     123333333332    45788899999988644   5775544


Q ss_pred             HH-HHHHHhhcCCHHHHHHHHHhCCC-C---CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH-HHHHH
Q 039695          371 TC-VVDMLGRTGRLDEAYKLAKSIQV-D---PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV-TLSNT  444 (605)
Q Consensus       371 ~~-li~~~~~~g~~~~A~~~~~~m~~-~---p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~-~l~~~  444 (605)
                      .- -...+...|++++|++.|++... .   |.-....+--+...+....++++|...|.++.+...-....|. ..+-+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            33 34566778999999999996431 1   1111334555666788899999999999999987654444444 55566


Q ss_pred             HHhcCCh-------hHHHHHHHHHHhC
Q 039695          445 YALAGEW-------ENVHSLRSEMKRT  464 (605)
Q Consensus       445 y~~~g~~-------~~a~~~~~~m~~~  464 (605)
                      |...|+.       ++|.+++.++...
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            7788888       8888888887654

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=92.48  E-value=4  Score=40.74  Aligned_cols=127  Identities=13%  Similarity=0.081  Sum_probs=69.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 039695           94 VSYTSLMAGYINMGQPQIALLLFQKMLGNL-VWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDM  172 (605)
Q Consensus        94 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~  172 (605)
                      .+|...|+...+..-.+.|..+|-+..+.| +.++.+.+++.+.-++ .|+...|..+|+.-.+. ++.+..--+..+..
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~-f~d~~~y~~kyl~f  475 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK-FPDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh-CCCchHHHHHHHHH
Confidence            445556666655555666666666666666 4456666666665443 45555666666554433 12222333445555


Q ss_pred             HHhCCCHHHHHHHHhhcCC---CC--hhhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 039695          173 YGKCNDVDGARRVFDLMGC---RN--VVSWTSIIVAHAQNAQGHEALEMFREFNY  222 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~---~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  222 (605)
                      +..-++-+.|+.+|+...+   .+  ...|..||.--..-|+...+..+=++|..
T Consensus       476 Li~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         476 LIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            5666666666666664332   11  23455555555555555555555555544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=92.11  E-value=1.2  Score=39.83  Aligned_cols=154  Identities=18%  Similarity=0.187  Sum_probs=94.0

Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHH--HHHhhcC
Q 039695          305 GAAKYGLGRFSLDLFNEMISRGIKPND-VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVV--DMLGRTG  381 (605)
Q Consensus       305 ~~~~~g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li--~~~~~~g  381 (605)
                      -|-..|-+.-|.-=|.+...  +.|+. ..||.+--.+...|+++.|.+.|+...   .+.|+- -|..+=  -.+--.|
T Consensus        74 lYDSlGL~~LAR~DftQaLa--i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~---ELDp~y-~Ya~lNRgi~~YY~g  147 (297)
T COG4785          74 LYDSLGLRALARNDFSQALA--IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVL---ELDPTY-NYAHLNRGIALYYGG  147 (297)
T ss_pred             hhhhhhHHHHHhhhhhhhhh--cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHh---ccCCcc-hHHHhccceeeeecC
Confidence            45566777777766776665  67764 567777777888999999999999875   567751 122222  2233468


Q ss_pred             CHHHHHHHHHh----CCCCCCchhhHHHHHHH--------------HHHHcCChHH-------------HHHHHHHHHhc
Q 039695          382 RLDEAYKLAKS----IQVDPDGGPLLWGTLLS--------------ASRLHGRVDI-------------AVEASNQLIES  430 (605)
Q Consensus       382 ~~~~A~~~~~~----m~~~p~~~~~~~~~ll~--------------~~~~~g~~~~-------------a~~~~~~~~~~  430 (605)
                      +++-|.+=|..    =+..|-  ...|--+..              -+..+.+-.-             .+.+++++.+.
T Consensus       148 R~~LAq~d~~~fYQ~D~~DPf--R~LWLYl~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yLgkiS~e~l~~~~~a~  225 (297)
T COG4785         148 RYKLAQDDLLAFYQDDPNDPF--RSLWLYLNEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYLGKISEETLMERLKAD  225 (297)
T ss_pred             chHhhHHHHHHHHhcCCCChH--HHHHHHHHHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHHhhccHHHHHHHHHhh
Confidence            88888765544    232332  344544332              1222221111             12233333333


Q ss_pred             CCCC-------CchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          431 NQQV-------ANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       431 ~p~~-------~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..++       ..+|.-|+.-|...|..++|..+|+.....++
T Consensus       226 a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         226 ATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence            3333       34788899999999999999999998876554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.94  E-value=0.8  Score=43.32  Aligned_cols=63  Identities=24%  Similarity=0.274  Sum_probs=54.5

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      ..++..++.++...|+.+.+...++++++.+|-+...|..++.+|.+.|+...|...++.+.+
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            456677788888888899999999999999998888999999999999999999999888876

>PRK15331 chaperone protein SicA; Provisional

Probab=91.54  E-value=1.3  Score=38.03  Aligned_cols=82  Identities=13%  Similarity=-0.024  Sum_probs=35.8

Q ss_pred             cCCChhHHHHHHhcCC--C-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHH
Q 039695           74 RLKKTQVARQLFDEML--E-PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQI  150 (605)
Q Consensus        74 ~~g~~~~A~~~f~~m~--~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~  150 (605)
                      ..|++++|..+|.-+.  . -|..-|..|-.++-..+++++|+..|...-..+. -|...+-..-.++...|+.+.|+..
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~~~~A~~~  127 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKARQC  127 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHHHHH
Confidence            3455555555555431  1 2333344444444444555555555544433221 1333333334444444555555554


Q ss_pred             HHHHHH
Q 039695          151 HTHIET  156 (605)
Q Consensus       151 ~~~~~~  156 (605)
                      |+.++.
T Consensus       128 f~~a~~  133 (165)
T PRK15331        128 FELVNE  133 (165)
T ss_pred             HHHHHh
Confidence            444443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.48  E-value=20  Score=37.45  Aligned_cols=161  Identities=8%  Similarity=-0.009  Sum_probs=72.0

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHhC-CCCc-----hhHHHHHHHHHHh----CCCHHHHHHHHhhcCC--CChhhHH
Q 039695          131 FATVIKACSMLADLITGKQIHTHIETFG-FQYN-----LVVCSSLVDMYGK----CNDVDGARRVFDLMGC--RNVVSWT  198 (605)
Q Consensus       131 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g-~~~~-----~~~~~~Li~~y~~----~g~~~~A~~~~~~m~~--~~~~~~~  198 (605)
                      +..++...+-.||-+.|.+.+....+.+ +...     ..+|+..+..+..    ..+.+.|.++++.+..  |+...|.
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~yP~s~lfl  270 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRYPNSALFL  270 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhCCCcHHHH
Confidence            3445555555566666666555554432 1110     1123333333322    3445556666666554  5554444


Q ss_pred             HHH-HHHHHcCChhHHHHHHHHHHHcC--CCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHH-HHHHH
Q 039695          199 SII-VAHAQNAQGHEALEMFREFNYQS--RDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVAS-ALVDM  274 (605)
Q Consensus       199 ~li-~~~~~~g~~~~A~~~~~~m~~~~--~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~  274 (605)
                      -.- ..+...|+.++|++.|++.....  ..+.....+--+.-.+.-..++++|...+..+.+..-- +..+|. ...-+
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHHHHH
Confidence            332 23344566666666666443211  01112222333333444555666666666665553311 111221 22333


Q ss_pred             HHhcCCH-------HHHHHHHhccC
Q 039695          275 YAKCGSV-------NYSDKVFNRIS  292 (605)
Q Consensus       275 y~~~g~~-------~~A~~~~~~~~  292 (605)
                      |...|+.       ++|.++|.+++
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHH
Confidence            4445555       56666666554

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.21  E-value=7.6  Score=37.31  Aligned_cols=149  Identities=13%  Similarity=0.041  Sum_probs=67.7

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHH----HHhhcCCHH
Q 039695          309 YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVD----MLGRTGRLD  384 (605)
Q Consensus       309 ~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~----~~~~~g~~~  384 (605)
                      +|...+|-..++++.+. .+.|-..+...=.+|...|+.+.-...++++..+  ..|+...|..+=.    .+..+|-++
T Consensus       116 ~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  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            34555555555555543 3344455555555555556655555555555322  2334333322222    223456666


Q ss_pred             HHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC----CchHHHHHHHHHhcCChhHHHHHHH
Q 039695          385 EAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV----ANAYVTLSNTYALAGEWENVHSLRS  459 (605)
Q Consensus       385 ~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~----~~~~~~l~~~y~~~g~~~~a~~~~~  459 (605)
                      +|++..++.. ..|. +...-.++...+...|+..++.+...+--..-...    .-.|-..+-.|...+.++.|.++|+
T Consensus       193 dAEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            6666655532 2221 12233344445555566666655544432211000    0122233334444556666666655


Q ss_pred             HH
Q 039695          460 EM  461 (605)
Q Consensus       460 ~m  461 (605)
                      .=
T Consensus       272 ~e  273 (491)
T KOG2610|consen  272 RE  273 (491)
T ss_pred             HH
Confidence            43

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.08  E-value=0.45  Score=29.19  Aligned_cols=26  Identities=19%  Similarity=0.302  Sum_probs=20.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          437 AYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       437 ~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      +|..|+++|.+.|+|++|.+++++..
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            46778888999999999998888743

>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=91.06  E-value=9.2  Score=32.81  Aligned_cols=89  Identities=16%  Similarity=0.084  Sum_probs=60.2

Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHH
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDI  419 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~  419 (605)
                      -...++.+.+..++..+.   -+.|. ...-..-...+.+.|++.+|..+|+++...+.. ...-.+|+..|.....-..
T Consensus        20 al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~-~p~~kALlA~CL~~~~D~~   95 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPG-FPYAKALLALCLYALGDPS   95 (160)
T ss_pred             HHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCC-ChHHHHHHHHHHHHcCChH
Confidence            346678899999998884   56776 444444556678899999999999998744331 3444566666666555555


Q ss_pred             HHHHHHHHHhcCCC
Q 039695          420 AVEASNQLIESNQQ  433 (605)
Q Consensus       420 a~~~~~~~~~~~p~  433 (605)
                      =.....++++.+++
T Consensus        96 Wr~~A~evle~~~d  109 (160)
T PF09613_consen   96 WRRYADEVLESGAD  109 (160)
T ss_pred             HHHHHHHHHhcCCC
Confidence            55556666766653

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=90.97  E-value=12  Score=33.91  Aligned_cols=198  Identities=16%  Similarity=0.132  Sum_probs=120.3

Q ss_pred             HHHhHHHhhcccCchhhHHHHHHHHHHh-CCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCc-chHHHHHH-HH
Q 039695          232 MLASVINACASLGRLVSGKVAHGVVVRS-GCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PSV-VTYTSMIV-GA  306 (605)
Q Consensus       232 t~~~ll~a~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~-~~  306 (605)
                      .+......+...+.+..+...+...... ........+..+...+...++...+.+.+.....  ++. ........ .+
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGAL  140 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHH
Confidence            3333333444444444444444433331 2233444455555555666666667666666554  221 22333333 67


Q ss_pred             HHcCChhHHHHHHHHHHHcCC--CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHhhcCC
Q 039695          307 AKYGLGRFSLDLFNEMISRGI--KPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD--AKHYTCVVDMLGRTGR  382 (605)
Q Consensus       307 ~~~g~~~~A~~l~~~m~~~g~--~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~g~  382 (605)
                      ...|+.++|...|.+......  ......+......+...++.+.+...+.....   ..|+  ...+..+...+...+.
T Consensus       141 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         141 YELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK---LNPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh---hCcccchHHHHHhhHHHHHccc
Confidence            788888888888888855211  12233444444446677888999988888753   3333  6777788888888889


Q ss_pred             HHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          383 LDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       383 ~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      +++|...+.... ..|+ ....+..+...+...+..+.+...+.+..+..|.
T Consensus       218 ~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         218 YEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            999999887754 2222 1345555555555777899999999999998886

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=90.97  E-value=13  Score=34.48  Aligned_cols=142  Identities=15%  Similarity=0.149  Sum_probs=80.5

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCC--CCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 039695          298 TYTSMIVGAAKYGLGRFSLDLFNEMISRGI--KPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVD  375 (605)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  375 (605)
                      .|-.=+..-.+.|++++|.+.|+.+.....  +-...+...++.++-+.+++++|....++..+.++-.|+.. |...+.
T Consensus        36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d-Y~~Ylk  114 (254)
T COG4105          36 ELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD-YAYYLK  114 (254)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-HHHHHH
Confidence            333344455567888888888888776421  12345666667777777888888887777776666666532 233333


Q ss_pred             HHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc-----------------hH
Q 039695          376 MLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN-----------------AY  438 (605)
Q Consensus       376 ~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----------------~~  438 (605)
                      +++          .|..+. .++.+.             .-...|...|+++++.-|++.-                 -=
T Consensus       115 gLs----------~~~~i~-~~~rDq-------------~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~E  170 (254)
T COG4105         115 GLS----------YFFQID-DVTRDQ-------------SAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHE  170 (254)
T ss_pred             HHH----------HhccCC-ccccCH-------------HHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHH
Confidence            333          111111 011000             0122344444555555554421                 11


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          439 VTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      ...++-|.+.|.|..|..-+++|.+.
T Consensus       171 m~IaryY~kr~~~~AA~nR~~~v~e~  196 (254)
T COG4105         171 MAIARYYLKRGAYVAAINRFEEVLEN  196 (254)
T ss_pred             HHHHHHHHHhcChHHHHHHHHHHHhc
Confidence            24667788999999999988888876

>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=90.89  E-value=0.44  Score=28.56  Aligned_cols=31  Identities=19%  Similarity=0.124  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      +|..+...+...|+++.|...|++.++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            5666777777788888888888887777764

...

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.65  E-value=7  Score=37.83  Aligned_cols=139  Identities=10%  Similarity=0.094  Sum_probs=83.9

Q ss_pred             hhhHHHHHHHhhC-hhHH----HHHHHHHHHhCCCCchHHHHHHHHHHHc--CC----ChhHHHHHHhcCCC-------C
Q 039695           30 KAHFIQQLQECKH-LISL----ASVHSEILKSGFLSNTFTLNHLINCYVR--LK----KTQVARQLFDEMLE-------P   91 (605)
Q Consensus        30 ~~~~~~~l~~~~~-~~~~----~~~~~~~~~~g~~~~~~~~~~li~~~~~--~g----~~~~A~~~f~~m~~-------~   91 (605)
                      ..+++.++..-.. ....    ..+++.+.+.|+..+.+++-+..-....  ..    ....|..+|+.|.+       +
T Consensus        60 ~~~la~~l~~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~  139 (297)
T PF13170_consen   60 RFILAALLDISFEDPEEAFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSP  139 (297)
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCc
Confidence            4556666665555 2222    7788889999999888777664433333  22    35567888888843       4


Q ss_pred             ChhhHHHHHHHHHhcCCh----hHHHHHHHHHHhCCCCCChh--hHHHHHHHHhccCC--hHHHHHHHHHHHHhCCCCch
Q 039695           92 NVVSYTSLMAGYINMGQP----QIALLLFQKMLGNLVWPNEF--TFATVIKACSMLAD--LITGKQIHTHIETFGFQYNL  163 (605)
Q Consensus        92 ~~~~~~~li~~~~~~g~~----~~a~~~~~~m~~~g~~pd~~--t~~~ll~a~~~~~~--~~~a~~~~~~~~~~g~~~~~  163 (605)
                      +-.++..|+..  ...++    +.+..+|+.+...|...+..  ..+.+|..+.....  ...+..+++.+.+.|+++..
T Consensus       140 ~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~  217 (297)
T PF13170_consen  140 EDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKY  217 (297)
T ss_pred             cchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCcccc
Confidence            45566666655  33333    45667777777777665333  34444444433222  34667777888888877766


Q ss_pred             hHHHHHH
Q 039695          164 VVCSSLV  170 (605)
Q Consensus       164 ~~~~~Li  170 (605)
                      ..|..+.
T Consensus       218 ~~yp~lG  224 (297)
T PF13170_consen  218 MHYPTLG  224 (297)
T ss_pred             ccccHHH
Confidence            6655443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=90.41  E-value=9.8  Score=32.01  Aligned_cols=40  Identities=8%  Similarity=-0.014  Sum_probs=15.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHh
Q 039695           99 LMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACS  139 (605)
Q Consensus        99 li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~  139 (605)
                      ++..+.+.+.+.....+++.+...+. .+...++.++..++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~   52 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYA   52 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHH
Confidence            33444334444444444444443331 23333344444443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.33  E-value=15  Score=33.88  Aligned_cols=45  Identities=16%  Similarity=0.344  Sum_probs=24.8

Q ss_pred             hHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          164 VVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREF  220 (605)
Q Consensus       164 ~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  220 (605)
                      ..++.-..+|..+|..+.|-..+++..            -...+-++++|+++|++.
T Consensus        92 dl~eKAs~lY~E~GspdtAAmaleKAa------------k~lenv~Pd~AlqlYqra  136 (308)
T KOG1585|consen   92 DLYEKASELYVECGSPDTAAMALEKAA------------KALENVKPDDALQLYQRA  136 (308)
T ss_pred             HHHHHHHHHHHHhCCcchHHHHHHHHH------------HHhhcCCHHHHHHHHHHH
Confidence            345555666777777666655555431            122344566666666554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.03  E-value=6.7  Score=37.96  Aligned_cols=62  Identities=15%  Similarity=0.195  Sum_probs=38.7

Q ss_pred             hHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhccCc--HHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 039695          313 RFSLDLFNEMISRGIKPNDV--TFVGVLHACSHSGL--VDEGIQHLDSMYRKYGIIPDAKHYTCVVD  375 (605)
Q Consensus       313 ~~A~~l~~~m~~~g~~pd~~--t~~~ll~a~~~~g~--~~~a~~~~~~m~~~~~~~p~~~~~~~li~  375 (605)
                      +.+..+|+.+.+.|...+..  ....++.-+.....  +..+.++++.+ ++.|+++...+|..+.-
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l-~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNAL-KKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHH-HHcCCccccccccHHHH
Confidence            45677888888877776432  33333333322222  45777888888 56688888888776543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.02  E-value=0.57  Score=28.73  Aligned_cols=28  Identities=21%  Similarity=0.167  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIES  430 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~  430 (605)
                      +|..|...|...|++++|+.++++++.+
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            4677888888888888888888885543

>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=89.98  E-value=12  Score=32.48  Aligned_cols=133  Identities=11%  Similarity=0.038  Sum_probs=76.9

Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhC-CCHHHHHHHHhhcC
Q 039695          113 LLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQY-NLVVCSSLVDMYGKC-NDVDGARRVFDLMG  190 (605)
Q Consensus       113 ~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~Li~~y~~~-g~~~~A~~~~~~m~  190 (605)
                      ++.++.+.+.++.|+...+..+++.+.+.|.+..-.++    +..++-+ +..+...|++.-.+. .-..-|.+++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----lq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQL----LQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----HhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            45556666778888888888888888888876544443    3334333 334444443332211 11344556666653


Q ss_pred             CCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHH
Q 039695          191 CRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVR  258 (605)
Q Consensus       191 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  258 (605)
                          ..+..++..+...|++-+|+++.+.....     +......++.+..+.++...--.++....+
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~-----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKV-----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc-----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                24556777888889999988888765222     222234455665566655555555555444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.86  E-value=1.1  Score=39.56  Aligned_cols=92  Identities=16%  Similarity=0.162  Sum_probs=71.3

Q ss_pred             HHHhhcCCHHHHHHHHHhCC-CCCC----chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 039695          375 DMLGRTGRLDEAYKLAKSIQ-VDPD----GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAG  449 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~-~~p~----~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  449 (605)
                      +-+.+.|++++|..-|.... .-|.    ...+.|..-..+..+.+..+.|+.-..++++++|....+...-+.+|.+..
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKME  182 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhh
Confidence            34556788888877765521 1222    114456666778889999999999999999999988888888889999999


Q ss_pred             ChhHHHHHHHHHHhCCC
Q 039695          450 EWENVHSLRSEMKRTGI  466 (605)
Q Consensus       450 ~~~~a~~~~~~m~~~~~  466 (605)
                      ++++|..-++++.+...
T Consensus       183 k~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  183 KYEEALEDYKKILESDP  199 (271)
T ss_pred             hHHHHHHHHHHHHHhCc
Confidence            99999999999988654

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=89.77  E-value=5.7  Score=32.53  Aligned_cols=87  Identities=16%  Similarity=0.116  Sum_probs=39.7

Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-C-CCCc--hhhHHHHHHHHHHHcCC
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-V-DPDG--GPLLWGTLLSASRLHGR  416 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~-~p~~--~~~~~~~ll~~~~~~g~  416 (605)
                      +..|+++.|++.|.+.+   .+-| ....||.-.+++.-.|+.++|++=+++.. . .|..  .-..|..-...|+..|+
T Consensus        54 aE~g~Ld~AlE~F~qal---~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   54 AEAGDLDGALELFGQAL---CLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HhccchHHHHHHHHHHH---HhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            34455555555554443   2233 24445555555555555555554444321 0 0110  01123333444566666


Q ss_pred             hHHHHHHHHHHHhcC
Q 039695          417 VDIAVEASNQLIESN  431 (605)
Q Consensus       417 ~~~a~~~~~~~~~~~  431 (605)
                      .+.|..-|+.+-+++
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666655554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=89.59  E-value=0.67  Score=29.93  Aligned_cols=31  Identities=16%  Similarity=0.221  Sum_probs=27.8

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          436 NAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      .++..++..|...|++++|.+++++..+...
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            5788999999999999999999999988654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=89.42  E-value=26  Score=35.42  Aligned_cols=325  Identities=13%  Similarity=0.098  Sum_probs=164.4

Q ss_pred             chHHHHHHHHHHHcCCChhHHHHHHhcCCC--------CChhhHHHHHHHHHhcC--------C-------hhHHHHHHH
Q 039695           61 NTFTLNHLINCYVRLKKTQVARQLFDEMLE--------PNVVSYTSLMAGYINMG--------Q-------PQIALLLFQ  117 (605)
Q Consensus        61 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--------~~~~~~~~li~~~~~~g--------~-------~~~a~~~~~  117 (605)
                      |-..-+..+..+...|++.+++.++++|.+        -++.+||.++-.+.++-        .       ++.++-...
T Consensus       127 df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~k  206 (549)
T PF07079_consen  127 DFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLK  206 (549)
T ss_pred             HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHH
Confidence            344556677888899999999999998832        47788888555544321        1       122222233


Q ss_pred             HHHhC------CCCCChhhHHHHHHHHhcc--CChHHHHHHHHHHHHhCCCCch-hHHHHHHHHHHhCCCHHHHHHHHhh
Q 039695          118 KMLGN------LVWPNEFTFATVIKACSML--ADLITGKQIHTHIETFGFQYNL-VVCSSLVDMYGKCNDVDGARRVFDL  188 (605)
Q Consensus       118 ~m~~~------g~~pd~~t~~~ll~a~~~~--~~~~~a~~~~~~~~~~g~~~~~-~~~~~Li~~y~~~g~~~~A~~~~~~  188 (605)
                      +|...      .+.|....+..++.-..-.  ..+.--.+++..-...-+.|+- .+...|+.-+.+  +.+++..+-+.
T Consensus       207 ki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~  284 (549)
T PF07079_consen  207 KIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEA  284 (549)
T ss_pred             HHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHH
Confidence            33221      1334444444444332211  2223333444444444344543 234455555554  44444444333


Q ss_pred             cC--------CCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHH-------Hhhc-c---cCchhhH
Q 039695          189 MG--------CRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVI-------NACA-S---LGRLVSG  249 (605)
Q Consensus       189 m~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll-------~a~~-~---~~~~~~a  249 (605)
                      +.        +.=+.++..++...++.++..+|-+.+.-+..   ..|+...-..++       +..+ .   ..++..-
T Consensus       285 ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~---ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~y  361 (549)
T PF07079_consen  285 IASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI---LDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDY  361 (549)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh---cCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHH
Confidence            32        23356788888888999999888888776654   345443111111       1111 0   0111222


Q ss_pred             HHHHHHHHHhCCCCcHhHHHHHH---HHHHhcCC-HHHHHHHHhccCC---CCcchHHHHH----HHHHHc---CChhHH
Q 039695          250 KVAHGVVVRSGCEFNDVVASALV---DMYAKCGS-VNYSDKVFNRISN---PSVVTYTSMI----VGAAKY---GLGRFS  315 (605)
Q Consensus       250 ~~~~~~~~~~g~~~~~~~~~~li---~~y~~~g~-~~~A~~~~~~~~~---~~~~~~~~li----~~~~~~---g~~~~A  315 (605)
                      ..+++.+....++... ...-|+   .-+-+.|. -++|.++++.+.+   -|..+-|...    ..|.+.   ....+-
T Consensus       362 L~lwe~~qs~DiDrqQ-Lvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rL  440 (549)
T PF07079_consen  362 LNLWEEIQSYDIDRQQ-LVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRL  440 (549)
T ss_pred             HHHHHHHHhhcccHHH-HHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHH
Confidence            2233333333322111 111121   11223333 6677777776653   3433333322    223221   223333


Q ss_pred             HHHHHHHHHcCCCCCH----HHHHHHHHH--HhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHH
Q 039695          316 LDLFNEMISRGIKPND----VTFVGVLHA--CSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKL  389 (605)
Q Consensus       316 ~~l~~~m~~~g~~pd~----~t~~~ll~a--~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  389 (605)
                      +.+-+-..+.|++|-.    ..-+.|.+|  .-..|++.++.-+-..+.   .+.|++.+|..+.-.+....++++|.+.
T Consensus       441 lkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~  517 (549)
T PF07079_consen  441 LKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKRYQEAWEY  517 (549)
T ss_pred             HHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHH
Confidence            4444444456776632    233333333  344677777765555553   5677888887777777777888888888


Q ss_pred             HHhCC
Q 039695          390 AKSIQ  394 (605)
Q Consensus       390 ~~~m~  394 (605)
                      +..+|
T Consensus       518 l~~LP  522 (549)
T PF07079_consen  518 LQKLP  522 (549)
T ss_pred             HHhCC
Confidence            88776

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=89.10  E-value=2.6  Score=39.95  Aligned_cols=76  Identities=12%  Similarity=0.138  Sum_probs=58.6

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHH-----cCCCCCHHHHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMIS-----RGIKPNDVTFVG  336 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~-----~g~~pd~~t~~~  336 (605)
                      ..++..++..+..+|+.+.+...++++..   -|...|..++.+|.+.|+...|+..|+++..     .|+.|...+...
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            45677788888999999999888888775   3556899999999999999999999988765     467776665544


Q ss_pred             HHHH
Q 039695          337 VLHA  340 (605)
Q Consensus       337 ll~a  340 (605)
                      ...+
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4433

>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=88.76  E-value=2.1  Score=36.66  Aligned_cols=54  Identities=15%  Similarity=0.129  Sum_probs=38.7

Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...++.+.++.++..+.-+.|..+..-..-+..+...|+|.+|.++++.+.+..
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~   74 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERA   74 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccC
Confidence            456677777777777777777777766667777777777777777777776554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.73  E-value=5.4  Score=37.93  Aligned_cols=99  Identities=14%  Similarity=0.275  Sum_probs=67.3

Q ss_pred             hCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCC-C--------ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 039695           56 SGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLE-P--------NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWP  126 (605)
Q Consensus        56 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~-~--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  126 (605)
                      .|.+.+..+...++..-....+++++...+-.+.. |        +..+|--++.    .-++++++.++..=...|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll----ky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL----KYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH----ccChHHHHHHHhCcchhcccc
Confidence            45566666666777666666788888877766632 2        2223322222    235678888887777888888


Q ss_pred             ChhhHHHHHHHHhccCChHHHHHHHHHHHHhC
Q 039695          127 NEFTFATVIKACSMLADLITGKQIHTHIETFG  158 (605)
Q Consensus       127 d~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  158 (605)
                      |.+|++.+|..+.+.+++..|.++.-.++...
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            88888888888888888888887777666543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=88.68  E-value=41  Score=36.74  Aligned_cols=442  Identities=10%  Similarity=-0.038  Sum_probs=213.0

Q ss_pred             hhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChhHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcCCChhHHH
Q 039695            4 SLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSGF-LSNTFTLNHLINCYVRLKKTQVAR   82 (605)
Q Consensus         4 ~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~A~   82 (605)
                      ...+.|++..+.++...+...+. .....|..+...... ....++-..+.+..- +.....-..-+..+++.+++....
T Consensus        42 ~a~~~g~~~~~~~~~~~l~d~pL-~~yl~y~~L~~~l~~-~~~~ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~~w~~~~  119 (644)
T PRK11619         42 QAWDNRQMDVVEQLMPTLKDYPL-YPYLEYRQLTQDLMN-QPAVQVTNFIRANPTLPPARSLQSRFVNELARREDWRGLL  119 (644)
T ss_pred             HHHHCCCHHHHHHHHHhccCCCc-HhHHHHHHHHhcccc-CCHHHHHHHHHHCCCCchHHHHHHHHHHHHHHccCHHHHH
Confidence            34567777777777776654433 223334344333332 123556666655432 333334444556667788888888


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHH--HHHHHHHHhC--
Q 039695           83 QLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGK--QIHTHIETFG--  158 (605)
Q Consensus        83 ~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~--~~~~~~~~~g--  158 (605)
                      + |..-+..+...-.....+....|+.++|......+=..|-. .......+++.+.+.|.+....  +=+..+...|  
T Consensus       120 ~-~~~~~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~-~p~~cd~l~~~~~~~g~lt~~d~w~R~~~al~~~~~  197 (644)
T PRK11619        120 A-FSPEKPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKS-LPNACDKLFSVWQQSGKQDPLAYLERIRLAMKAGNT  197 (644)
T ss_pred             H-hcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC-CChHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCH
Confidence            7 44323345555566777788888887787777766544432 3455666777666555433221  1122222211  


Q ss_pred             ---------CCCc-hhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHH--HcCChhHHHHHHHHHHHcCCC
Q 039695          159 ---------FQYN-LVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHA--QNAQGHEALEMFREFNYQSRD  226 (605)
Q Consensus       159 ---------~~~~-~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~~~~  226 (605)
                               +.++ ......++..+.   +...+..++...+ ++...-...+.++.  ...+.+.|..++.........
T Consensus       198 ~lA~~l~~~l~~~~~~~a~a~~al~~---~p~~~~~~~~~~~-~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~~  273 (644)
T PRK11619        198 GLVTYLAKQLPADYQTIASALIKLQN---DPNTVETFARTTG-PTDFTRQMAAVAFASVARQDAENARLMIPSLVRAQKL  273 (644)
T ss_pred             HHHHHHHHhcChhHHHHHHHHHHHHH---CHHHHHHHhhccC-CChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcCC
Confidence                     0111 111122222221   1222222222221 11111111122222  234557777777776444323


Q ss_pred             CCChh--HHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCcchH-HH
Q 039695          227 RPNQH--MLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PSVVTY-TS  301 (605)
Q Consensus       227 ~p~~~--t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~-~~  301 (605)
                      .++..  ....+....+..+...++...+.......  .+..+...-+....+.++++.+...|..|..  .+...| -=
T Consensus       274 ~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~~~~~rw~YW  351 (644)
T PRK11619        274 NEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYW  351 (644)
T ss_pred             CHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhhccCHhhHHH
Confidence            22222  11222222222211334444444332222  2333344445555577888888888888763  221122 22


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHH-HHHHH-HHHHhcCCCCcHHHHHHHHHHHhh
Q 039695          302 MIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEG-IQHLD-SMYRKYGIIPDAKHYTCVVDMLGR  379 (605)
Q Consensus       302 li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a-~~~~~-~m~~~~~~~p~~~~~~~li~~~~~  379 (605)
                      +..++...|+.++|...|++...   ..   +|-.++.+ .+.|..-.- ..... .. ....-.|    -..-+..+..
T Consensus       352 ~aRa~~~~g~~~~A~~~~~~~a~---~~---~fYG~LAa-~~Lg~~~~~~~~~~~~~~-~~~~~~~----~~~ra~~L~~  419 (644)
T PRK11619        352 QADLLLEQGRKAEAEEILRQLMQ---QR---GFYPMVAA-QRLGEEYPLKIDKAPKPD-SALTQGP----EMARVRELMY  419 (644)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHhc---CC---CcHHHHHH-HHcCCCCCCCCCCCCchh-hhhccCh----HHHHHHHHHH
Confidence            45555667888888888888643   11   34333322 112211000 00000 00 0000011    1123455677


Q ss_pred             cCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC---CCCCchHHHHHHHHHhcCChhHHHH
Q 039695          380 TGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN---QQVANAYVTLSNTYALAGEWENVHS  456 (605)
Q Consensus       380 ~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---p~~~~~~~~l~~~y~~~g~~~~a~~  456 (605)
                      .|+..+|...+..+....+  ......+.......|..+.++.........+   -.-+..|...+..+++.-..+.+.-
T Consensus       420 ~g~~~~a~~ew~~~~~~~~--~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~~~~~~~a~~~~v~~~lv  497 (644)
T PRK11619        420 WNMDNTARSEWANLVASRS--KTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWNDEFRRYTSGKGIPQSYA  497 (644)
T ss_pred             CCCHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchHHHHHHHHHHcCCCHHHH
Confidence            8999999888876554444  5566666677778888888887776543311   1123356667777777666766654


Q ss_pred             HHHHHHhCCCccC
Q 039695          457 LRSEMKRTGIHKE  469 (605)
Q Consensus       457 ~~~~m~~~~~~~~  469 (605)
                      .---..+.++.|.
T Consensus       498 ~ai~rqES~f~p~  510 (644)
T PRK11619        498 MAIARQESAWNPK  510 (644)
T ss_pred             HHHHHHhcCCCCC
Confidence            3333345566544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=88.35  E-value=29  Score=34.57  Aligned_cols=70  Identities=19%  Similarity=0.287  Sum_probs=56.2

Q ss_pred             CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCC----CCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          397 PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQ----QVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       397 p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +.....+|..+...+++.|.++.|...+.++...++    ..+.+...-+......|+.++|...++...+..+
T Consensus       142 ~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~  215 (352)
T PF02259_consen  142 PEELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRL  215 (352)
T ss_pred             hhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence            333367899999999999999999999999988652    2355677778889999999999999888877433

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=88.35  E-value=5.3  Score=41.10  Aligned_cols=100  Identities=15%  Similarity=0.110  Sum_probs=47.1

Q ss_pred             HHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHH
Q 039695           72 YVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIH  151 (605)
Q Consensus        72 ~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~  151 (605)
                      ..++|+++.|.++-++..  +...|..|-....++|+++-|.+.|.+...         |..|+-.|...|+.+.-.++.
T Consensus       328 Al~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~  396 (443)
T PF04053_consen  328 ALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLA  396 (443)
T ss_dssp             HHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHH
Confidence            345555555555544432  444566666666666666666655554422         444444455555555555555


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhh
Q 039695          152 THIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDL  188 (605)
Q Consensus       152 ~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~  188 (605)
                      ......| .     +|.-..++.-.|++++..+++.+
T Consensus       397 ~~a~~~~-~-----~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  397 KIAEERG-D-----INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHcc-C-----HHHHHHHHHHcCCHHHHHHHHHH
Confidence            5444443 1     22223333334555555544443

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=88.32  E-value=31  Score=34.91  Aligned_cols=192  Identities=11%  Similarity=0.055  Sum_probs=102.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccC--CCCcchH-------HHHHHHHH----HcCChhHHHHHHHHHHHcCCCCCHH
Q 039695          266 VVASALVDMYAKCGSVNYSDKVFNRIS--NPSVVTY-------TSMIVGAA----KYGLGRFSLDLFNEMISRGIKPNDV  332 (605)
Q Consensus       266 ~~~~~li~~y~~~g~~~~A~~~~~~~~--~~~~~~~-------~~li~~~~----~~g~~~~A~~l~~~m~~~g~~pd~~  332 (605)
                      ..+..++....+.++...|.+.+.-+.  +|+...-       .++-+..+    ..-+..+=+.+|++.....+.-- .
T Consensus       299 ~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrq-Q  377 (549)
T PF07079_consen  299 DRFGNLLSFKVKQVQTEEAKQYLALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQ-Q  377 (549)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHH-H
Confidence            355566666667777777776666544  2332211       11111111    11122333455555554332211 1


Q ss_pred             HHHHHHH---HHhccCc-HHHHHHHHHHHHHhcCCCCc-HHHHHHHHH----HHhhc---CCHH---HHHHHHHhCCCCC
Q 039695          333 TFVGVLH---ACSHSGL-VDEGIQHLDSMYRKYGIIPD-AKHYTCVVD----MLGRT---GRLD---EAYKLAKSIQVDP  397 (605)
Q Consensus       333 t~~~ll~---a~~~~g~-~~~a~~~~~~m~~~~~~~p~-~~~~~~li~----~~~~~---g~~~---~A~~~~~~m~~~p  397 (605)
                      ....|+.   -+-+.|. -+.|..+++.+.   .+.|. .++-|.+..    .|..+   ..+.   .-.+++++....|
T Consensus       378 Lvh~L~~~Ak~lW~~g~~dekalnLLk~il---~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~  454 (549)
T PF07079_consen  378 LVHYLVFGAKHLWEIGQCDEKALNLLKLIL---QFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTP  454 (549)
T ss_pred             HHHHHHHHHHHHHhcCCccHHHHHHHHHHH---HhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCc
Confidence            1112222   2333444 677888888774   23332 333332221    11111   1111   2223334433333


Q ss_pred             C--chhhHHHHHHHH--HHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          398 D--GGPLLWGTLLSA--SRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       398 ~--~~~~~~~~ll~~--~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      -  .+...-|.|..|  +..+|++.++.-.-.-+.+..| .+.+|..++-+.....++++|..++..+.
T Consensus       455 i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  455 ITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             ccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            2  013345555554  4678999999888888888999 78899999999999999999999997653

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=88.26  E-value=2.1  Score=35.93  Aligned_cols=55  Identities=7%  Similarity=-0.066  Sum_probs=46.4

Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ...++.++++.++..+.-+.|+.+..-..-+..+...|+|++|.++++.+.+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            3478888888888888888888888888888888899999999999988877664

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.13  E-value=45  Score=36.53  Aligned_cols=145  Identities=14%  Similarity=0.072  Sum_probs=86.2

Q ss_pred             HHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHH----HhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhcc
Q 039695           66 NHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGY----INMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSML  141 (605)
Q Consensus        66 ~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~----~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~  141 (605)
                      ..-+++..+...++.|..+-..-. -|...-..++..|    -+.|++++|...|-+-... +.|     ..+++-+...
T Consensus       338 e~kL~iL~kK~ly~~Ai~LAk~~~-~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLda  410 (933)
T KOG2114|consen  338 ETKLDILFKKNLYKVAINLAKSQH-LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDA  410 (933)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCH
Confidence            345666667777777777766542 2333333344333    3568888888777665432 232     2345555555


Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChh-hHHHHHHHHHHcCChhHHHHHHH
Q 039695          142 ADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVV-SWTSIIVAHAQNAQGHEALEMFR  218 (605)
Q Consensus       142 ~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~-~~~~li~~~~~~g~~~~A~~~~~  218 (605)
                      .....--.+++.+.+.|+. +...-+.|+++|.|.++.+.-.+..+........ -....+..+-+.+-.++|..+-.
T Consensus       411 q~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~  487 (933)
T KOG2114|consen  411 QRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLAT  487 (933)
T ss_pred             HHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHH
Confidence            6666666777788888854 4455567888888888888888777776521111 12334455555555555554433

>PRK09687 putative lyase; Provisional

Probab=88.05  E-value=26  Score=33.71  Aligned_cols=75  Identities=8%  Similarity=0.063  Sum_probs=39.0

Q ss_pred             CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 039695          262 EFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHAC  341 (605)
Q Consensus       262 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  341 (605)
                      .++..+....+.++++.|+......+.+.+..++  ..-..+.++...|.. +|+..+.++...  .||...-...+.+|
T Consensus       203 D~~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        203 DKNEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             CCChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            3445555555566666666433333333333333  223456666666664 566777666653  34555555555444

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=87.48  E-value=41  Score=35.32  Aligned_cols=381  Identities=11%  Similarity=0.085  Sum_probs=220.6

Q ss_pred             chHHHHHHHHHHHcCCChhHHHHHHhcCCC--CChh-hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 039695           61 NTFTLNHLINCYVRLKKTQVARQLFDEMLE--PNVV-SYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKA  137 (605)
Q Consensus        61 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a  137 (605)
                      +-..|+.||.---...+++.+..+++.+..  |-.. -|-....-=.+-|..+.+.++|++-+.. ++-....|...+.-
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f  122 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAF  122 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHH
Confidence            344556666543344455666666666643  4443 2444444445668888999999887763 54455555555543


Q ss_pred             H-hccCChHHHHHHHHHHHHh-CCC-CchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHH---c----
Q 039695          138 C-SMLADLITGKQIHTHIETF-GFQ-YNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQ---N----  207 (605)
Q Consensus       138 ~-~~~~~~~~a~~~~~~~~~~-g~~-~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~---~----  207 (605)
                      + ...|+.+.....|+.++.. |.. .....|-..|..-..++++.....+++++.+--...++..-.-|.+   .    
T Consensus       123 ~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~  202 (577)
T KOG1258|consen  123 LKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEEK  202 (577)
T ss_pred             HhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChh
Confidence            3 3557888888888888765 321 2334566677766778889999999998877444455544444433   2    


Q ss_pred             --CChhHHHHHHHHHHHc---CCCCCChhHHHhHHHhhcc-cCchhhHHH-------HHHHHH-----------------
Q 039695          208 --AQGHEALEMFREFNYQ---SRDRPNQHMLASVINACAS-LGRLVSGKV-------AHGVVV-----------------  257 (605)
Q Consensus       208 --g~~~~A~~~~~~m~~~---~~~~p~~~t~~~ll~a~~~-~~~~~~a~~-------~~~~~~-----------------  257 (605)
                        -..+++.++-......   +...+.......-+.-... .+.++....       ++..+.                 
T Consensus       203 ~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~~I  282 (577)
T KOG1258|consen  203 ILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEEKRWGFEEGI  282 (577)
T ss_pred             hhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHHHHHhhhhhc
Confidence              2344444443333221   1011222222222222111 112222221       111111                 


Q ss_pred             Hh------C-CCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc---chHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 039695          258 RS------G-CEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV---VTYTSMIVGAAKYGLGRFSLDLFNEMISRGI  327 (605)
Q Consensus       258 ~~------g-~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  327 (605)
                      +.      + .+++..+|..-++.-.+.|+.+.+.-+|++..-|-.   ..|--.+.-....|+.+-|..++..-.+--+
T Consensus       283 krpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~  362 (577)
T KOG1258|consen  283 KRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHV  362 (577)
T ss_pred             cccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcC
Confidence            10      0 123456777778888888888888888887764322   2344444444444777777766665544322


Q ss_pred             C--CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHH---HHHHhCC-CCCCch
Q 039695          328 K--PNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAY---KLAKSIQ-VDPDGG  400 (605)
Q Consensus       328 ~--pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~---~~~~~m~-~~p~~~  400 (605)
                      +  |....+.+.+  +-..|+++.|..+++.+..+  . |+ ...-.--+....+.|..+.+.   +++.... .+-+  
T Consensus       363 k~~~~i~L~~a~f--~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~--  435 (577)
T KOG1258|consen  363 KKTPIIHLLEARF--EESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKEN--  435 (577)
T ss_pred             CCCcHHHHHHHHH--HHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccC--
Confidence            2  3333333322  34568999999999999654  3 66 444444566778889999888   5554432 2222  


Q ss_pred             hhHHHHHHHH-----HHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 039695          401 PLLWGTLLSA-----SRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAG  449 (605)
Q Consensus       401 ~~~~~~ll~~-----~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  449 (605)
                      ..+...+..-     +...++.+.|..++.++.+..|++...|..+++.....+
T Consensus       436 ~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  436 NGILEKLYVKFARLRYKIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             cchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            3333333322     345688999999999999999999999999998877665

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=87.38  E-value=25  Score=32.77  Aligned_cols=180  Identities=11%  Similarity=0.057  Sum_probs=107.8

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc------chHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCCH--HHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISNPSV------VTYTSMIVGAAKYGLGRFSLDLFNEMISRG-IKPND--VTFV  335 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~pd~--~t~~  335 (605)
                      ...|+-- ..-.+.|++++|.+.|+.+....+      .+--.++-++-+.+++++|+..+++....- -.||.  ..|.
T Consensus        35 ~~LY~~g-~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl  113 (254)
T COG4105          35 SELYNEG-LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL  113 (254)
T ss_pred             HHHHHHH-HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH
Confidence            3444443 344578999999999999985222      234445677888999999999999988742 23332  3444


Q ss_pred             HHHHHHhcc----CcHHHHH---HHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHH
Q 039695          336 GVLHACSHS----GLVDEGI---QHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLL  408 (605)
Q Consensus       336 ~ll~a~~~~----g~~~~a~---~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll  408 (605)
                      ..+.-+...    .+...+.   .-|+.++.+   -|+             +.-..+|..-+..+.   +.-..-=.++.
T Consensus       114 kgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r---yPn-------------S~Ya~dA~~~i~~~~---d~LA~~Em~Ia  174 (254)
T COG4105         114 KGLSYFFQIDDVTRDQSAARAAFAAFKELVQR---YPN-------------SRYAPDAKARIVKLN---DALAGHEMAIA  174 (254)
T ss_pred             HHHHHhccCCccccCHHHHHHHHHHHHHHHHH---CCC-------------CcchhhHHHHHHHHH---HHHHHHHHHHH
Confidence            444333222    2222233   333333322   122             222222222222211   10011112355


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCCc---hHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          409 SASRLHGRVDIAVEASNQLIESNQQVAN---AYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       409 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      .-|.+.|.+..|..-++.+++.-|+.+.   ++..+..+|...|..++|.+.-+-+...
T Consensus       175 ryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         175 RYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            6688999999999999999987655443   6667888999999999999987766544

>PRK09687 putative lyase; Provisional

Probab=87.33  E-value=29  Score=33.42  Aligned_cols=80  Identities=15%  Similarity=0.090  Sum_probs=35.9

Q ss_pred             CchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCCh----hHHHHHHHHHHHcCCCCCChhHHHhH
Q 039695          161 YNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQG----HEALEMFREFNYQSRDRPNQHMLASV  236 (605)
Q Consensus       161 ~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~~~~~p~~~t~~~l  236 (605)
                      +|..+....+..+...|..+-...+..-+..+|...-...+.++.+.|+.    .+++..+..+...   .|+...-...
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~---D~d~~VR~~A  111 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE---DKSACVRASA  111 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc---CCCHHHHHHH
Confidence            44444445555555555433333333322334444444445555555543    3455555555322   2444444444


Q ss_pred             HHhhccc
Q 039695          237 INACASL  243 (605)
Q Consensus       237 l~a~~~~  243 (605)
                      +.++...
T Consensus       112 ~~aLG~~  118 (280)
T PRK09687        112 INATGHR  118 (280)
T ss_pred             HHHHhcc
Confidence            4444443

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.58  E-value=12  Score=29.02  Aligned_cols=87  Identities=9%  Similarity=0.060  Sum_probs=59.1

Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 039695          144 LITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQ  223 (605)
Q Consensus       144 ~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  223 (605)
                      .++|.-+-+.+...+- ....+--.-+..+...|++++|..+.+.+..||...|-+|-.  .+.|..+++..-+.+|...
T Consensus        21 HqEA~tIAdwL~~~~~-~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        21 HQEANTIADWLHLKGE-SEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            4556666555554431 123333334456778899999999999999999999987754  4677777777777788777


Q ss_pred             CCCCCChhHHHh
Q 039695          224 SRDRPNQHMLAS  235 (605)
Q Consensus       224 ~~~~p~~~t~~~  235 (605)
                      |  .|...+|..
T Consensus        98 g--~p~lq~Faa  107 (115)
T TIGR02508        98 G--DPRLQTFVA  107 (115)
T ss_pred             C--CHHHHHHHH
Confidence            6  555555543

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.55  E-value=9.5  Score=33.03  Aligned_cols=119  Identities=9%  Similarity=-0.004  Sum_probs=58.4

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCChhhHHHHH---HHHhccCChHHHHHHHHHHHHhCCCCchhHH-HHH--HHHHHhCC
Q 039695          104 INMGQPQIALLLFQKMLGNLVWPNEFTFATVI---KACSMLADLITGKQIHTHIETFGFQYNLVVC-SSL--VDMYGKCN  177 (605)
Q Consensus       104 ~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll---~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~-~~L--i~~y~~~g  177 (605)
                      ++.+..++|+.-|..+.+.|...  +.....+   ...+..|+...|...|+++-+....|-+.-- ..|  .-.+...|
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~--YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~g  146 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGS--YPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNG  146 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCc--chHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccc
Confidence            44555666666666666554321  1111111   1234556666666666665543322222210 111  11234566


Q ss_pred             CHHHHHHHHhhcCCC-C---hhhHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 039695          178 DVDGARRVFDLMGCR-N---VVSWTSIIVAHAQNAQGHEALEMFREFNYQS  224 (605)
Q Consensus       178 ~~~~A~~~~~~m~~~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  224 (605)
                      .+++.....+.+..+ +   ...-.+|.-+-.+.|++.+|.+.|..+....
T Consensus       147 sy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da  197 (221)
T COG4649         147 SYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDA  197 (221)
T ss_pred             cHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccc
Confidence            666666666655431 1   1223345555566777777777777765543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.04  E-value=30  Score=33.50  Aligned_cols=149  Identities=9%  Similarity=-0.003  Sum_probs=82.0

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHh---CCCCcHhHHHHHHHHHHhcCCHHH
Q 039695          207 NAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRS---GCEFNDVVASALVDMYAKCGSVNY  283 (605)
Q Consensus       207 ~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~---g~~~~~~~~~~li~~y~~~g~~~~  283 (605)
                      .|...+|-..++++.+.  .+.|...+.-.=.+|..+|+.+.-+..++.+...   ++|...++-..+.-++..||-+++
T Consensus       116 ~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  116 RGKHHEAAIEWDKLLDD--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            45555555556665554  3455555555556666666666666655555542   233333444444455567788888


Q ss_pred             HHHHHhccCCCCc---chHHHHHHHHHHcCChhHHHHHHHHHHHc---CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          284 SDKVFNRISNPSV---VTYTSMIVGAAKYGLGRFSLDLFNEMISR---GIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       284 A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      |++.-++..+-|.   .+-.+....+-.+|+..++.++..+-...   +-..-...|-...-.+...+.++.|+++|+.-
T Consensus       194 AEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~e  273 (491)
T KOG2610|consen  194 AEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDRE  273 (491)
T ss_pred             HHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHHH
Confidence            8887777765332   33344555566677888777776543321   00001112222223344457788888877643

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.01  E-value=6.1  Score=30.41  Aligned_cols=62  Identities=16%  Similarity=0.276  Sum_probs=45.3

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 039695          312 GRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVD  375 (605)
Q Consensus       312 ~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  375 (605)
                      .-++.+-++.+....+.|++....+.|.||.+.+++..|.++|+....+.+.  +...|..+++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            3355566666667778899999999999999999999999999877544332  4445665553

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>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=85.69  E-value=15  Score=32.21  Aligned_cols=45  Identities=16%  Similarity=0.241  Sum_probs=30.1

Q ss_pred             hHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCcc
Q 039695          417 VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHK  468 (605)
Q Consensus       417 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~  468 (605)
                      ++.|...|+++.+.+|.+. .|..-+.+..      .|-+++.++.+.+...
T Consensus        96 F~kA~~~FqkAv~~~P~ne-~Y~ksLe~~~------kap~lh~e~~~~~~~~  140 (186)
T PF06552_consen   96 FEKATEYFQKAVDEDPNNE-LYRKSLEMAA------KAPELHMEIHKQGLGQ  140 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-H-HHHHHHHHHH------THHHHHHHHHHSSS--
T ss_pred             HHHHHHHHHHHHhcCCCcH-HHHHHHHHHH------hhHHHHHHHHHHHhhh
Confidence            5677778888888999874 5655555543      4888999988877643

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=85.30  E-value=48  Score=34.11  Aligned_cols=90  Identities=10%  Similarity=0.087  Sum_probs=57.0

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHH
Q 039695          196 SWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMY  275 (605)
Q Consensus       196 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  275 (605)
                      ..-+++..+.++-.+.-...+..+|..-|   .+...|..++..|... ..+.-..+++.+++..+. |+....-|++.|
T Consensus        68 ~l~~~~~~f~~n~k~~~veh~c~~~l~~~---e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~y  142 (711)
T COG1747          68 CLVTLLTIFGDNHKNQIVEHLCTRVLEYG---ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADKY  142 (711)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHHhc---chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHHH
Confidence            44556666666666666667777777644   4566667777777666 455566667766666533 455555566666


Q ss_pred             HhcCCHHHHHHHHhcc
Q 039695          276 AKCGSVNYSDKVFNRI  291 (605)
Q Consensus       276 ~~~g~~~~A~~~~~~~  291 (605)
                      -+ ++.+.+...|.++
T Consensus       143 Ek-ik~sk~a~~f~Ka  157 (711)
T COG1747         143 EK-IKKSKAAEFFGKA  157 (711)
T ss_pred             HH-hchhhHHHHHHHH
Confidence            65 6666666666654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=85.28  E-value=1.3  Score=26.77  Aligned_cols=31  Identities=16%  Similarity=0.183  Sum_probs=20.4

Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhCCCHHHHH
Q 039695          152 THIETFGFQYNLVVCSSLVDMYGKCNDVDGAR  183 (605)
Q Consensus       152 ~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~  183 (605)
                      ++.++.. +.|...|+.|...|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444443 556677777777777777777765

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=85.26  E-value=6.7  Score=30.52  Aligned_cols=60  Identities=15%  Similarity=0.225  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 039695          314 FSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVD  375 (605)
Q Consensus       314 ~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  375 (605)
                      +..+-++.+....+.|++....+.|.||.+.+++..|.++|+.+..+.+-.  ...|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            445555666666788999999999999999999999999999886655433  336666654

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 ....

>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=85.23  E-value=9.1  Score=33.85  Aligned_cols=61  Identities=16%  Similarity=0.198  Sum_probs=31.8

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh--hhHHHHHHHHhccCChHHHHHHHHHHH
Q 039695           95 SYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNE--FTFATVIKACSMLADLITGKQIHTHIE  155 (605)
Q Consensus        95 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~--~t~~~ll~a~~~~~~~~~a~~~~~~~~  155 (605)
                      .|..+..-|.+.|+.++|++.|.++......|..  ..+-.+++.+...+++..+.....++.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3445555555555555566666555554333322  234445555555566666555554443

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=84.80  E-value=3.1  Score=39.92  Aligned_cols=47  Identities=17%  Similarity=0.130  Sum_probs=29.8

Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHH
Q 039695          304 VGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQ  352 (605)
Q Consensus       304 ~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~  352 (605)
                      +-|.++|.+++|++.|..-+.  +.| |.+++..-..||.+...+..|+.
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~  152 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEE  152 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHH
Confidence            457777777777777766554  344 66666666666666666555443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=84.79  E-value=44  Score=33.21  Aligned_cols=148  Identities=12%  Similarity=0.006  Sum_probs=72.1

Q ss_pred             CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhccCcHHHHHHHHHHHHHh-cCCCCcHHH
Q 039695          294 PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP---NDVTFVGVLHACSHSGLVDEGIQHLDSMYRK-YGIIPDAKH  369 (605)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p---d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~-~~~~p~~~~  369 (605)
                      ....+|..+...+.+.|+++.|...+.++...+..+   ++.....-+...-..|+..+|...++..... ..-..+...
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~~~~~~~  223 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSKNIDSIS  223 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcccccc
Confidence            344567777777777777777777777776533111   1222223334444567777777777666441 111101111


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC--C-CCCCchhhHHHHHHHHHHHc------CChHHHHHHHHHHHhcCCCCCchHHH
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSI--Q-VDPDGGPLLWGTLLSASRLH------GRVDIAVEASNQLIESNQQVANAYVT  440 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m--~-~~p~~~~~~~~~ll~~~~~~------g~~~~a~~~~~~~~~~~p~~~~~~~~  440 (605)
                      ...+...+..      .......-  . ..+......+..+..-+...      ++.+.+...|.++.+..|....+|..
T Consensus       224 ~~~~~~~~~~------~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~  297 (352)
T PF02259_consen  224 NAELKSGLLE------SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHS  297 (352)
T ss_pred             HHHHhhcccc------ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHH
Confidence            1111100000      00000000  0 00000012333333333333      77888899999999999988777777


Q ss_pred             HHHHHHh
Q 039695          441 LSNTYAL  447 (605)
Q Consensus       441 l~~~y~~  447 (605)
                      ++..+.+
T Consensus       298 ~a~~~~~  304 (352)
T PF02259_consen  298 WALFNDK  304 (352)
T ss_pred             HHHHHHH
Confidence            7665543

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=84.12  E-value=0.8  Score=38.92  Aligned_cols=84  Identities=17%  Similarity=0.125  Sum_probs=53.3

Q ss_pred             HhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChh
Q 039695          234 ASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGR  313 (605)
Q Consensus       234 ~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  313 (605)
                      ..++..+.+.+.++....+++.+.+.+...+....+.|+..|++.++.++..++++....   .-...++..+.+.|.++
T Consensus        11 ~~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~   87 (143)
T PF00637_consen   11 SEVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYE   87 (143)
T ss_dssp             CCCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHH
Confidence            346677777888888888888888877667788889999999888777777766663222   22233344444444444


Q ss_pred             HHHHHHH
Q 039695          314 FSLDLFN  320 (605)
Q Consensus       314 ~A~~l~~  320 (605)
                      +|.-++.
T Consensus        88 ~a~~Ly~   94 (143)
T PF00637_consen   88 EAVYLYS   94 (143)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.86  E-value=16  Score=31.64  Aligned_cols=50  Identities=16%  Similarity=0.134  Sum_probs=21.3

Q ss_pred             ccCChHHHHHHHHHHHHhCCCCchhH-HHHHHHHHHhCCCHHHHHHHHhhc
Q 039695          140 MLADLITGKQIHTHIETFGFQYNLVV-CSSLVDMYGKCNDVDGARRVFDLM  189 (605)
Q Consensus       140 ~~~~~~~a~~~~~~~~~~g~~~~~~~-~~~Li~~y~~~g~~~~A~~~~~~m  189 (605)
                      ..+..++|+.-|..+.+.|...-+.. .-......+..|+...|...|+++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdei  120 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEI  120 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHH
Confidence            44455555555555555543221111 111122334445555555555544

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.50  E-value=39  Score=31.59  Aligned_cols=148  Identities=16%  Similarity=0.245  Sum_probs=83.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCC--------C-------CcchHHHHHHHHHHcCChhHHHHHHHHHHHc-CCCCCH
Q 039695          268 ASALVDMYAKCGSVNYSDKVFNRISN--------P-------SVVTYTSMIVGAAKYGLGRFSLDLFNEMISR-GIKPND  331 (605)
Q Consensus       268 ~~~li~~y~~~g~~~~A~~~~~~~~~--------~-------~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~pd~  331 (605)
                      -+-|...|...|.+.+..+++..+..        .       -...|..=|+.|..+.+-.+...+|++.... ..-|.+
T Consensus       148 NtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqalhiKSAIPHP  227 (440)
T KOG1464|consen  148 NTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQALHIKSAIPHP  227 (440)
T ss_pred             cchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHHHhhccCCch
Confidence            34556666666666666666665531        1       1235666788888888888888888876652 233444


Q ss_pred             HHHHHHHHHHh-----ccCcHHHHHHHHHHHHHhcCC--CCc---HHHHHHHHHHHhhcCC----HHHHHHHHHhCCCCC
Q 039695          332 VTFVGVLHACS-----HSGLVDEGIQHLDSMYRKYGI--IPD---AKHYTCVVDMLGRTGR----LDEAYKLAKSIQVDP  397 (605)
Q Consensus       332 ~t~~~ll~a~~-----~~g~~~~a~~~~~~m~~~~~~--~p~---~~~~~~li~~~~~~g~----~~~A~~~~~~m~~~p  397 (605)
                      . ...+++-|.     +.|.+++|-.-|-+..+.+.-  .|.   .--|-.|.+++.+.|-    -++|.      |.+.
T Consensus       228 l-ImGvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLANMLmkS~iNPFDsQEAK------PyKN  300 (440)
T KOG1464|consen  228 L-IMGVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLANMLMKSGINPFDSQEAK------PYKN  300 (440)
T ss_pred             H-HHhHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHHHHHHHcCCCCCcccccC------CCCC
Confidence            3 445666664     467788775433333344422  232   3346667777777662    22221      2223


Q ss_pred             CchhhHHHHHHHHHHHcCChHHHHHH
Q 039695          398 DGGPLLWGTLLSASRLHGRVDIAVEA  423 (605)
Q Consensus       398 ~~~~~~~~~ll~~~~~~g~~~~a~~~  423 (605)
                      ++.....+.|+.+|..+ ++.+-+++
T Consensus       301 dPEIlAMTnlv~aYQ~N-dI~eFE~I  325 (440)
T KOG1464|consen  301 DPEILAMTNLVAAYQNN-DIIEFERI  325 (440)
T ss_pred             CHHHHHHHHHHHHHhcc-cHHHHHHH
Confidence            32266788888888654 44433333

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=83.35  E-value=7.2  Score=34.83  Aligned_cols=76  Identities=13%  Similarity=0.111  Sum_probs=50.9

Q ss_pred             hcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC----CCCCchHHHHHHHHHhcCChhHH
Q 039695          379 RTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN----QQVANAYVTLSNTYALAGEWENV  454 (605)
Q Consensus       379 ~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----p~~~~~~~~l~~~y~~~g~~~~a  454 (605)
                      +.|+ ++|.+.|-.+...|..+....-..+..|-...|.+.+++++-+++++.    ..|+..+..|+.+|.+.|+++.|
T Consensus       119 r~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  119 RFGD-QEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             ccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            3344 456666666654443223333344444555778889999999888864    23467888999999999998887


Q ss_pred             H
Q 039695          455 H  455 (605)
Q Consensus       455 ~  455 (605)
                      .
T Consensus       198 Y  198 (203)
T PF11207_consen  198 Y  198 (203)
T ss_pred             h
Confidence            5

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=83.24  E-value=2.8  Score=26.26  Aligned_cols=27  Identities=30%  Similarity=0.377  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHh
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      +++.|...|...|++++|+.+++++++
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            445555555555555555555555543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=83.17  E-value=1.9  Score=25.59  Aligned_cols=30  Identities=17%  Similarity=0.243  Sum_probs=25.2

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          436 NAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .++..++.+|.+.|++++|.+.+++..+..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            467889999999999999999999887643

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=82.69  E-value=2.1  Score=25.56  Aligned_cols=30  Identities=23%  Similarity=0.373  Sum_probs=25.6

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          436 NAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .+|..++.+|...|++++|...+++..+..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            468899999999999999999999987643

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 ....

>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=82.46  E-value=34  Score=30.22  Aligned_cols=56  Identities=18%  Similarity=0.179  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccCCCCc------chHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          267 VASALVDMYAKCGSVNYSDKVFNRISNPSV------VTYTSMIVGAAKYGLGRFSLDLFNEM  322 (605)
Q Consensus       267 ~~~~li~~y~~~g~~~~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~l~~~m  322 (605)
                      .+..+.+.|.+.|+.+.|.+.|.++.+..+      ..+-.+|......|++..+.....+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            445566666666666666666665544221      12333444444444554444444443

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.

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=82.43  E-value=1.9  Score=24.11  Aligned_cols=23  Identities=17%  Similarity=0.237  Sum_probs=17.4

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHH
Q 039695          437 AYVTLSNTYALAGEWENVHSLRS  459 (605)
Q Consensus       437 ~~~~l~~~y~~~g~~~~a~~~~~  459 (605)
                      +...|+..+...|++++|..+++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            45677788888888888887764

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>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=82.26  E-value=6.2  Score=26.73  Aligned_cols=32  Identities=19%  Similarity=0.120  Sum_probs=25.6

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCCch
Q 039695          406 TLLSASRLHGRVDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       406 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  437 (605)
                      .+..++.+.|+++.|.+..+.+++.+|+|..+
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa   37 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDNRQA   37 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHH
Confidence            35667889999999999999999999998643

>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=82.19  E-value=11  Score=25.61  Aligned_cols=50  Identities=18%  Similarity=0.201  Sum_probs=35.1

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCceeEEEeCCEEeeeeccccCccchHHHHHHHHHHHHHHHHCCc
Q 039695          438 YVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMKERGY  513 (605)
Q Consensus       438 ~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~~~g~  513 (605)
                      ...++-++.+.|++++|.+..+.+.+..                          |...++......+.++|.+.|+
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~~e--------------------------P~N~Qa~~L~~~i~~~i~kdgl   53 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLEIE--------------------------PDNRQAQSLKELIEDKIQKDGL   53 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHT--------------------------TS-HHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhhC--------------------------CCcHHHHHHHHHHHHHHhccCC
Confidence            4567889999999999999999987743                          3344455555556667777763

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=81.87  E-value=3.5  Score=39.52  Aligned_cols=111  Identities=9%  Similarity=0.004  Sum_probs=80.5

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCC
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGR  416 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~  416 (605)
                      .+-|.+.|.+++|+..|..-+   .+.| +...|..-..+|.+..++..|..=......-.+.....|..-+.+-...|.
T Consensus       104 GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            456888999999999998664   6677 788888889999999999988776655331222123466666677777888


Q ss_pred             hHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHH
Q 039695          417 VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVH  455 (605)
Q Consensus       417 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~  455 (605)
                      ..+|.+-++.+++++|.+..    |-..|.......++.
T Consensus       181 ~~EAKkD~E~vL~LEP~~~E----LkK~~a~i~Sl~E~~  215 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPKNIE----LKKSLARINSLRERK  215 (536)
T ss_pred             HHHHHHhHHHHHhhCcccHH----HHHHHHHhcchHhhh
Confidence            99999999999999998643    444455444444443

>PRK10941 hypothetical protein; Provisional

Probab=81.81  E-value=12  Score=35.50  Aligned_cols=63  Identities=19%  Similarity=0.056  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ..+.|-.++.+.++++.|.++.+.++.+.|+++.-+.--+-+|.+.|.+..|..-++...+.-
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            456677788999999999999999999999999888888899999999999999888887654

>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=81.74  E-value=1.5e+02  Score=37.02  Aligned_cols=314  Identities=13%  Similarity=0.084  Sum_probs=172.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCC--CCchhHHHHHHHHHHhCCCHHHHHHHHhh-cCCCChhhHHHHHHHHHHcCCh
Q 039695          134 VIKACSMLADLITGKQIHTHIETFGF--QYNLVVCSSLVDMYGKCNDVDGARRVFDL-MGCRNVVSWTSIIVAHAQNAQG  210 (605)
Q Consensus       134 ll~a~~~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~Li~~y~~~g~~~~A~~~~~~-m~~~~~~~~~~li~~~~~~g~~  210 (605)
                      +..+-.+.+.+..|...++.-.....  ......+-.|...|+.-+++|...-+... ...++.   ..-|--....|++
T Consensus      1389 La~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~sl---~~qil~~e~~g~~ 1465 (2382)
T KOG0890|consen 1389 LARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPSL---YQQILEHEASGNW 1465 (2382)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCccH---HHHHHHHHhhccH
Confidence            33455566777777777776311000  11223344455688888888887777663 333432   2345556678999


Q ss_pred             hHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHH-HHHHHHhcCCHHHHHHHHh
Q 039695          211 HEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASA-LVDMYAKCGSVNYSDKVFN  289 (605)
Q Consensus       211 ~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~-li~~y~~~g~~~~A~~~~~  289 (605)
                      ..|..-|+.+.+.+  ++...+++.++......+.++...-..+-.... ..+...-+++ =+.+--+.++++.......
T Consensus      1466 ~da~~Cye~~~q~~--p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1466 ADAAACYERLIQKD--PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLESYLS 1542 (2382)
T ss_pred             HHHHHHHHHhhcCC--CccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhhhhhh
Confidence            99999999998765  344778888887777777776665543333322 2233333333 2444466777777666655


Q ss_pred             ccCCCCcchHHHH-H-HHHHHcC--ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH--------
Q 039695          290 RISNPSVVTYTSM-I-VGAAKYG--LGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM--------  357 (605)
Q Consensus       290 ~~~~~~~~~~~~l-i-~~~~~~g--~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m--------  357 (605)
                         ..+..+|.+. + ..+.+..  +.-.-.++.+.+.+.-+.        =+.+|+..|.+..+.++.-.+        
T Consensus      1543 ---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~--------~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~ 1611 (2382)
T KOG0890|consen 1543 ---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIE--------NLSACSIEGSYVRSYEILMKLHLLLELEN 1611 (2382)
T ss_pred             ---cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhh--------hHHHhhccchHHHHHHHHHHHHHHHHHHH
Confidence               5667777665 2 2222221  111122233333322111        123333333322222221111        


Q ss_pred             --HHhcCCCCcHH------HHHHHHHHHhhcCCHHHHHHHHHh----CCCCCC---chhhHHHHHHHHHHHcCChHHHHH
Q 039695          358 --YRKYGIIPDAK------HYTCVVDMLGRTGRLDEAYKLAKS----IQVDPD---GGPLLWGTLLSASRLHGRVDIAVE  422 (605)
Q Consensus       358 --~~~~~~~p~~~------~~~~li~~~~~~g~~~~A~~~~~~----m~~~p~---~~~~~~~~ll~~~~~~g~~~~a~~  422 (605)
                        ....+..++..      .|..-+..-....+..+-+--+++    ...+|+   ....+|-.....++..|.++.|..
T Consensus      1612 ~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~n 1691 (2382)
T KOG0890|consen 1612 SIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQN 1691 (2382)
T ss_pred             HHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHH
Confidence              11113333311      121122111111122221111111    112222   124589999999999999999999


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          423 ASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       423 ~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..-++.+..+  +.++.-.+......|+...|..++++..+...
T Consensus      1692 all~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1692 ALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            9888888774  46888999999999999999999999886554

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=81.72  E-value=2.8  Score=26.25  Aligned_cols=28  Identities=29%  Similarity=0.407  Sum_probs=24.2

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          436 NAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .++..|+..|...|++++|..++++..+
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            4678899999999999999999998865

>smart00028 TPR Tetratricopeptide repeats

Probab=81.38  E-value=3.2  Score=23.48  Aligned_cols=29  Identities=24%  Similarity=0.106  Sum_probs=14.2

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 039695          404 WGTLLSASRLHGRVDIAVEASNQLIESNQ  432 (605)
Q Consensus       404 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  432 (605)
                      |..+...+...|+++.|...+++.++..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            34444444555555555555555544444

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.

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=81.21  E-value=20  Score=34.08  Aligned_cols=112  Identities=9%  Similarity=0.160  Sum_probs=65.1

Q ss_pred             hhHHHHHHHHHHH-cCCCCCHHHHHHHHHHHhc-cC-cHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHH
Q 039695          312 GRFSLDLFNEMIS-RGIKPNDVTFVGVLHACSH-SG-LVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYK  388 (605)
Q Consensus       312 ~~~A~~l~~~m~~-~g~~pd~~t~~~ll~a~~~-~g-~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  388 (605)
                      ..+|+.+|+.... ..+--|..+...+++.... .+ ....-.++.+.+...++-.++..+..+.+..++..+++.+-.+
T Consensus       144 Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~  223 (292)
T PF13929_consen  144 VVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQ  223 (292)
T ss_pred             HHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHH
Confidence            3455555552211 1233455555555555443 11 2223334455555566667777778888888888888888888


Q ss_pred             HHHhCC-C-CCCchhhHHHHHHHHHHHcCChHHHHHH
Q 039695          389 LAKSIQ-V-DPDGGPLLWGTLLSASRLHGRVDIAVEA  423 (605)
Q Consensus       389 ~~~~m~-~-~p~~~~~~~~~ll~~~~~~g~~~~a~~~  423 (605)
                      +++... . .|..+...|..++..-...|+......+
T Consensus       224 fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~ki  260 (292)
T PF13929_consen  224 FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKI  260 (292)
T ss_pred             HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHH
Confidence            877633 1 2443466777777777777765544333

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=80.85  E-value=30  Score=29.33  Aligned_cols=52  Identities=17%  Similarity=0.134  Sum_probs=38.0

Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCC
Q 039695          343 HSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDP  397 (605)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p  397 (605)
                      ..++.+++..+++.|.   -+.|+ ...-..-.-.+.+.|++++|..+|+++...+
T Consensus        22 ~~~d~~D~e~lLdALr---vLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALR---VLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHH---HhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            3788888888888884   45665 3333344556778999999999999987544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=80.60  E-value=42  Score=29.93  Aligned_cols=92  Identities=13%  Similarity=0.092  Sum_probs=61.3

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHH-----HHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHH
Q 039695          337 VLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYT-----CVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSAS  411 (605)
Q Consensus       337 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~  411 (605)
                      +...+...+++++|...++...   + .|..+.+.     .|.......|.+++|+..++... .++........-...+
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l---~-~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~-~~~w~~~~~elrGDil  169 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQAL---A-QTKDENLKALAALRLARVQLQQKKADAALKTLDTIK-EESWAAIVAELRGDIL  169 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHH---c-cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-cccHHHHHHHHhhhHH
Confidence            3455677888888888887664   2 22223333     34456677899999999988765 2221122333345678


Q ss_pred             HHcCChHHHHHHHHHHHhcCCC
Q 039695          412 RLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      ...|+-++|+..|++.++.+++
T Consensus       170 l~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         170 LAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHcCchHHHHHHHHHHHHccCC
Confidence            8889999999999999888744

>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=80.53  E-value=1.6e+02  Score=36.71  Aligned_cols=306  Identities=8%  Similarity=-0.017  Sum_probs=150.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHH----HhCCCCCChhhHHHHHH-HHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 039695           98 SLMAGYINMGQPQIALLLFQKM----LGNLVWPNEFTFATVIK-ACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDM  172 (605)
Q Consensus        98 ~li~~~~~~g~~~~a~~~~~~m----~~~g~~pd~~t~~~ll~-a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~  172 (605)
                      .+-.+=.+.+.+.+|+..++.-    .+..   -...+..++. .|+..++++....+......   .|  .+++ .|-.
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~---~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a---~~--sl~~-qil~ 1458 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKE---TEEALYFLLQNLYGSIHDPDGVEGVSARRFA---DP--SLYQ-QILE 1458 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhH---HHHHHHHHHHHHHHhcCCcchhhhHHHHhhc---Cc--cHHH-HHHH
Confidence            3334445667788888888873    2211   1123333444 88889999888877664111   22  2222 3445


Q ss_pred             HHhCCCHHHHHHHHhhcCC--CC-hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHH-hHHHhhcccCchhh
Q 039695          173 YGKCNDVDGARRVFDLMGC--RN-VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLA-SVINACASLGRLVS  248 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~-~ll~a~~~~~~~~~  248 (605)
                      ....|+++.|...|+++..  |+ ..+++-++......|.++.++-..+-.....  .+....++ .=+.+.-+.++++.
T Consensus      1459 ~e~~g~~~da~~Cye~~~q~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~--se~~~~~~s~~~eaaW~l~qwD~ 1536 (2382)
T KOG0890|consen 1459 HEASGNWADAAACYERLIQKDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR--SEEVDELNSLGVEAAWRLSQWDL 1536 (2382)
T ss_pred             HHhhccHHHHHHHHHHhhcCCCccccchhhHHHhhhcccchhHHHhhhcchhhcc--CHHHHHHHHHHHHHHhhhcchhh
Confidence            5678999999999999976  33 5567777777777777777776554443321  22222222 22233345666666


Q ss_pred             HHHHHHHHHHhCCCCcHhHHHHH--HHHHHh--cCCHHHHHHHHhccCC------------C-CcchHHHHHHHHHHcCC
Q 039695          249 GKVAHGVVVRSGCEFNDVVASAL--VDMYAK--CGSVNYSDKVFNRISN------------P-SVVTYTSMIVGAAKYGL  311 (605)
Q Consensus       249 a~~~~~~~~~~g~~~~~~~~~~l--i~~y~~--~g~~~~A~~~~~~~~~------------~-~~~~~~~li~~~~~~g~  311 (605)
                      ....+.  ...     ..+|.+.  .....+  ..+.-.-....+.+.+            . =...|+.++....-.. 
T Consensus      1537 ~e~~l~--~~n-----~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~e- 1608 (2382)
T KOG0890|consen 1537 LESYLS--DRN-----IEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLE- 1608 (2382)
T ss_pred             hhhhhh--ccc-----ccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHH-
Confidence            666554  111     1111111  111111  1110000011111100            0 0012233322221111 


Q ss_pred             hhHHHHHHHHHHH--cCCCCCHHH------HHHHHHHHhccCcHHHHHHHHHHHHHhc----CCCCc-HHHHHHHHHHHh
Q 039695          312 GRFSLDLFNEMIS--RGIKPNDVT------FVGVLHACSHSGLVDEGIQHLDSMYRKY----GIIPD-AKHYTCVVDMLG  378 (605)
Q Consensus       312 ~~~A~~l~~~m~~--~g~~pd~~t------~~~ll~a~~~~g~~~~a~~~~~~m~~~~----~~~p~-~~~~~~li~~~~  378 (605)
                             ++.+.+  .++.|+..+      |..-+.--....+..+-+--++......    ++.-. .++|-...+...
T Consensus      1609 -------l~~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR 1681 (2382)
T KOG0890|consen 1609 -------LENSIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIAR 1681 (2382)
T ss_pred             -------HHHHHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHH
Confidence                   011111  123332221      1111211111111111111111111111    22222 677888888888


Q ss_pred             hcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 039695          379 RTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN  431 (605)
Q Consensus       379 ~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  431 (605)
                      ++|+++.|...+-......-  +..+.-...-..+.|+...|..++++.++..
T Consensus      1682 ~aG~~q~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1682 LAGHLQRAQNALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             hcccHHHHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            89999999887654332223  5667777777889999999999999999654

>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=80.50  E-value=0.79  Score=38.96  Aligned_cols=84  Identities=11%  Similarity=0.044  Sum_probs=54.5

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHH
Q 039695          134 VIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEA  213 (605)
Q Consensus       134 ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A  213 (605)
                      +++.+.+.+.+.....+++.+.+.+...+....+.|+..|++.++.+...++++....   .-...++..+-+.|.+++|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            4555666677777777777777666556677788888888888777777777764333   3334456666666667777


Q ss_pred             HHHHHHH
Q 039695          214 LEMFREF  220 (605)
Q Consensus       214 ~~~~~~m  220 (605)
                      .-++.++
T Consensus        90 ~~Ly~~~   96 (143)
T PF00637_consen   90 VYLYSKL   96 (143)
T ss_dssp             HHHHHCC
T ss_pred             HHHHHHc
Confidence            6666654

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=80.35  E-value=3.3  Score=24.23  Aligned_cols=22  Identities=14%  Similarity=0.311  Sum_probs=9.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHH
Q 039695          441 LSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       441 l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      ++.+|.+.|++++|.+.++++.
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~   27 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLI   27 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHH
Confidence            3444444444444444444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=80.34  E-value=11  Score=35.98  Aligned_cols=98  Identities=11%  Similarity=0.163  Sum_probs=68.9

Q ss_pred             hCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-------CCc--chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 039695          259 SGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN-------PSV--VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP  329 (605)
Q Consensus       259 ~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-------~~~--~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  329 (605)
                      .|.+....+...++..-....+++++...+-++..       ++.  .+|-.++    -.-++++++.++..=++-|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhcccc
Confidence            34555555666666666667778888877766653       222  2232222    2335678888888888889999


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 039695          330 NDVTFVGVLHACSHSGLVDEGIQHLDSMYRK  360 (605)
Q Consensus       330 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  360 (605)
                      |..|+..+++.+.+.+++..|.++.-.|+..
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999998888877776544

>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=80.17  E-value=4  Score=24.21  Aligned_cols=29  Identities=21%  Similarity=0.357  Sum_probs=25.6

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          436 NAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      .+|..++.+|...|++++|.+.+++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            36889999999999999999999987653

...

---

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	605
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-08
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	1e-05
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	3e-05
3u4t_A	272	TPR repeat-containing protein; structural genomics	1e-04
3tax_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	1e-04
2gw1_A	514	Mitochondrial precursor proteins import receptor;	3e-04

>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 = 66.0 bits (160), Expect = 2e-11
 Identities = 91/640 (14%), Positives = 200/640 (31%), Gaps = 165/640 (25%)

Query: 33  FIQQLQECKHLI-SLASVHS-----EILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFD 86
           F+    +CK +     S+ S      I+ S           L    +  K+ ++ ++  +
Sbjct: 29  FVDNF-DCKDVQDMPKSILSKEEIDHIIMSK--DAVSGTLRLFWT-LLSKQEEMVQKFVE 84

Query: 87  EMLEPNVVSYTSLMAGY-INMGQPQIALLLFQKMLGNLVWPNE-FTFATVIKACSMLADL 144
           E+L  N   Y  LM+       QP +   ++ +    L   N+ F    V +        
Sbjct: 85  EVLRIN---YKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRL-----QP 136

Query: 145 ITGKQIHTHIETFGFQYNLVVCSSLVDM--YGK-------CNDVDGARRVFDLMGCRNVV 195
               ++   +       N+++      +   GK       C       +V   M  +  +
Sbjct: 137 YL--KLRQALLELRPAKNVLIDG----VLGSGKTWVALDVCLS----YKVQCKMDFK--I 184

Query: 196 SWTSIIVAHAQNAQGHEALEMFREF------NYQSRDRPNQHMLASVINACASLGRLVSG 249
            W ++             LEM ++       N+ SR   + ++   + +  A L RL+  
Sbjct: 185 FWLNL----KNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240

Query: 250 KV-AHGVVVRSGCEFNDVVASALVDMYA-KCGS-VNYSDK-VFNRISNPSVVTYTSMIVG 305
           K   + ++V       +V  +   + +   C   +    K V + +S     T T + + 
Sbjct: 241 KPYENCLLV-----LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA---ATTTHISLD 292

Query: 306 AAKYGLGRF-SLDLFNEMISRGIKPNDVTFVGVL--HACSHS----GLVDEGIQHLDSMY 358
                L       L  + +    +P D      L     + +     ++ E I+   + +
Sbjct: 293 HHSMTLTPDEVKSLLLKYL--DCRPQD------LPREVLTTNPRRLSIIAESIRDGLATW 344

Query: 359 RKYGIIPDAKHYTCVVDMLGRTGRL-------DEAYKLAKSIQVDPDGGP-------LLW 404
             +      KH  C  D L              E  K+   + V P           L+W
Sbjct: 345 DNW------KHVNC--DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW 396

Query: 405 GTLLSASRLHGRVDIAVEASNQ-LIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMK- 462
             ++ +  +     +  +     L+E   +         +T ++        S+  E+K 
Sbjct: 397 FDVIKSDVM----VVVNKLHKYSLVEKQPK--------ESTISI-------PSIYLELKV 437

Query: 463 ----RTGIHK---------EPGCSW---VEIRDQTYAFYAGNALFERG-SEVLSLLRE-- 503
                  +H+         +   S        DQ +  + G+ L      E ++L R   
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497

Query: 504 -----LERKMKERGYVGGKTGLVFVDVED--EAREEIVGLHSERLALAFGLISIPKGITI 556
                LE+K++        +G +   ++     +  I     +   L   ++        
Sbjct: 498 LDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILD----FLP 553

Query: 557 RIMKNLRMCRDCHDVFKLISDIV------ERDFVVRDVNR 590
           +I +NL   +          D++      E + +  + ++
Sbjct: 554 KIEENLICSKYT--------DLLRIALMAEDEAIFEEAHK 585

>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 = 42.5 bits (99), Expect = 4e-04
 Identities = 46/324 (14%), Positives = 94/324 (29%), Gaps = 73/324 (22%)

Query: 5   LTRNLIFTLAASSLTRQNKRSSCH--------TKAHF-------IQQL--QECKH---LI 44
            TR    T   S+ T  +     H         K+          Q L  +        +
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL 330

Query: 45  SL--ASVHSEILKSGFL--SNTFTLNHLINCYVRLKKTQVARQLFDEM--LEPNV-VSYT 97
           S+   S+   +         N   L  +I   + + +    R++FD +    P+  +   
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI 390

Query: 98  SLMAGYINM---GQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHI 154
            L   + ++       +   L +  L     P E T +       +   L     +H  I
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEK-QPKESTISIPSIYLELKVKLENEYALHRSI 449

Query: 155 ETFGFQYNLVVCSSL-------VDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQN 207
                 YN+             +D Y                       + S I  H +N
Sbjct: 450 VD---HYNIPKTFDSDDLIPPYLDQY-----------------------FYSHIGHHLKN 483

Query: 208 AQGHEALEMFRE--FNY---QSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE 262
            +  E + +FR    ++   + + R +    ++  NA  S+   +     +   +     
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHD----STAWNASGSILNTLQQLKFYKPYICDNDP 539

Query: 263 FNDVVASALVDMYAKCGSVNYSDK 286
             + + +A++D   K        K
Sbjct: 540 KYERLVNAILDFLPKIEENLICSK 563

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 64.8 bits (156), Expect = 5e-11
 Identities = 22/193 (11%), Positives = 60/193 (31%), Gaps = 7/193 (3%)

Query: 219 EFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC 278
           +   Q+ + P +  LA ++        L   +   G   ++          A        
Sbjct: 81  DCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLT 140

Query: 279 GSVNYSDKVFNRISN-------PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND 331
             +  +  +              ++  Y ++++G A+ G  +  + +   +   G+ P+ 
Sbjct: 141 DQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDL 200

Query: 332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAK 391
           +++   L            I+       + G+   A     ++    R   L   +K+  
Sbjct: 201 LSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKP 260

Query: 392 SIQVDPDGGPLLW 404
           +  + P   P + 
Sbjct: 261 TFSLPPQLPPPVN 273

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 58.7 bits (140), Expect = 4e-09
 Identities = 23/244 (9%), Positives = 69/244 (28%), Gaps = 12/244 (4%)

Query: 1   MKKSLTRNLIFTLAASSLTRQNKRSSCHTK-AHFIQQLQECKHLISLASVHSEI---LKS 56
            +  +   L+    A  L    +++          + LQE    +SL    +      ++
Sbjct: 62  RRLQVEPRLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQA 121

Query: 57  GFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLE-------PNVVSYTSLMAGYINMGQP 109
                   L     C +   +  +A  L               +  Y ++M G+   G  
Sbjct: 122 QLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAF 181

Query: 110 QIALLLFQKMLGNLVWPNEFTFATVIKACS-MLADLITGKQIHTHIETFGFQYNLVVCSS 168
           +  + +   +    + P+  ++A  ++       D  T ++    +   G +   +  + 
Sbjct: 182 KELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAV 241

Query: 169 LVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRP 228
           L+    +   +    +V         +          ++    +    + + +   +   
Sbjct: 242 LLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQ 301

Query: 229 NQHM 232
               
Sbjct: 302 CLFE 305

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.8 bits (130), Expect = 7e-08
 Identities = 22/186 (11%), Positives = 62/186 (33%), Gaps = 15/186 (8%)

Query: 215 EMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVR------SGCEFNDVVA 268
           +     + Q++    Q  L +    C    +L    +AH ++V               + 
Sbjct: 112 QAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQL---PLAHHLLVVHHGQRQKRKLLTLDMY 168

Query: 269 SALVDMYAKCGSVNYSDKVFNRIS----NPSVVTYTSMIVGAAKYGLGRFSL-DLFNEMI 323
           +A++  +A+ G+      V   +      P +++Y + +    +      ++     +M 
Sbjct: 169 NAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMS 228

Query: 324 SRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRL 383
             G+K   +    +L +      V + +  +   +     +P   + + ++  +      
Sbjct: 229 QEGLKLQALFTAVLL-SEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGR 287

Query: 384 DEAYKL 389
               KL
Sbjct: 288 VSYPKL 293

>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 Length = 450

 Score = 47.0 bits (112), Expect = 1e-05
 Identities = 14/166 (8%), Positives = 40/166 (24%), Gaps = 21/166 (12%)

Query: 305 GAAKYGLGRFS--LDLFNEMISRGIKPNDVTFVGVL-HACSHSGLVDEGIQHLD------ 355
                  G     +          +K ++      +       G  +  +  +       
Sbjct: 184 AECFIKEGEPRKAISDLKAASK--LKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD 241

Query: 356 ----SMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYK-LAKSIQVDPDGGPLLWGTLLS- 409
                 +  Y  +          + L R GR  +A       ++ +P             
Sbjct: 242 QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSI-AEYTVRSKER 300

Query: 410 ---ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE 452
                    +   A+   +++++      NA    +  Y +   ++
Sbjct: 301 ICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYD 346

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus} Length = 359

 Score = 45.3 bits (108), Expect = 3e-05
 Identities = 14/166 (8%), Positives = 40/166 (24%), Gaps = 21/166 (12%)

Query: 305 GAAKYGLGRFS--LDLFNEMISRGIKPNDVTFVGVL-HACSHSGLVDEGIQHLD------ 355
                  G     +          +K ++      +       G  +  +  +       
Sbjct: 161 AECFIKEGEPRKAISDLKAASK--LKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD 218

Query: 356 ----SMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLA-KSIQVDPDGGPLLWGTLLS- 409
                 +  Y  +          + L R GR  +A       ++ +P             
Sbjct: 219 QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSV-AEYTVRSKER 277

Query: 410 ---ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE 452
                    +   A+   +++++      NA    +  Y +   ++
Sbjct: 278 ICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYD 323

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii} Length = 272

 Score = 43.0 bits (102), Expect = 1e-04
 Identities = 19/159 (11%), Positives = 49/159 (30%), Gaps = 20/159 (12%)

Query: 305 GAAKYGLGRF--SLDLFNEMISRGIKPNDVTFVGVL-HACSHSGLVDEGIQHLDSMYRKY 361
               +    +  ++++FN++ +   K N                  D   + +++ + K 
Sbjct: 10  ADFLFKNNNYAEAIEVFNKLEA--KKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV 67

Query: 362 GIIPD-AKHYTCVVDMLGRT----GRLDEA---YKLAKSIQVDPDGGPLLWGTLLSASRL 413
                 +  +       G+     G+   A   Y+   ++  D      ++G + S    
Sbjct: 68  NATKAKSADFE----YYGKILMKKGQDSLAIQQYQ--AAVDRDTTR-LDMYGQIGSYFYN 120

Query: 414 HGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE 452
            G   +A++   + I         +  L   Y    E+ 
Sbjct: 121 KGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYV 159

>3tax_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; thiocarbamate crosslink, covalent inhibitor, gylcosyltransfe inhibitor, O-GLCNAC transferase; HET: UDP; 1.88A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* Length = 723

 Score = 44.0 bits (103), Expect = 1e-04
 Identities = 26/155 (16%), Positives = 57/155 (36%), Gaps = 13/155 (8%)

Query: 305 GAAKYGLGRF--SLDLFNEMISRGIKPNDVTFVGVL-HACSHSGLVDEGIQHLDSMYRKY 361
              K   G    ++ L+ + +   + P        L       G + E + H    Y++ 
Sbjct: 16  ANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMH----YKEA 69

Query: 362 -GIIPD-AKHYTCVVDMLGRTGRLDEAYK-LAKSIQVDPDGGPLLWGTLLSASRLHGRVD 418
             I P  A  Y+ + + L     +  A +   ++IQ++P         L S  +  G + 
Sbjct: 70  IRISPTFADAYSNMGNTLKEMQDVQGALQCYTRAIQINPAF-ADAHSNLASIHKDSGNIP 128

Query: 419 IAVEASNQLIESNQQVANAYVTLSNTYALAGEWEN 453
            A+ +    ++      +AY  L++   +  +W +
Sbjct: 129 EAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD 163

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae} Length = 514

 Score = 42.8 bits (101), Expect = 3e-04
 Identities = 15/156 (9%), Positives = 44/156 (28%), Gaps = 18/156 (11%)

Query: 305 GAAKYGLGRF--SLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLD---SMYR 359
           G  K+       + +   + I   + P   +++ +    +      E   + D    +  
Sbjct: 244 GIFKFLKNDPLGAHEDIKKAIE--LFPRVNSYIYMALIMADRNDSTEYYNYFDKALKLDS 301

Query: 360 KYGIIPDAKHYTCVVDMLGRTGRLDEA---YKLAKSIQVDPDGGPLLWGTLLSASRLHGR 416
                  +  Y     M       D+A   +   K+ ++DP+     +  L   +    +
Sbjct: 302 NN-----SSVYYHRGQMNFILQNYDQAGKDFD--KAKELDPEN-IFPYIQLACLAYRENK 353

Query: 417 VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE 452
            D      ++      +        +       +++
Sbjct: 354 FDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFD 389

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	605
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	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.84
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.78
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.77
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.75
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.74
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.74
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.73
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.72
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.71
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.71
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.7
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.7
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.7
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.69
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.68
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.58
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.58
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.54
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.53
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.5
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.5
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.5
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.49
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.49
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.47
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.47
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.46
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.46
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.45
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.45
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.45
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.43
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.43
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.42
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.42
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.41
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.41
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.39
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.38
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.35
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.33
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.33
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.3
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.29
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.29
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.28
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.28
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.26
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.26
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.23
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.22
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.21
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.17
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.17
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.17
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.16
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.15
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.13
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.12
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.1
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.07
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.05
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.05
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.0
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.97
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.95
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.91
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.91
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.9
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.9
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.88
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.87
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.86
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.84
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.83
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.81
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.78
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.77
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.77
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.73
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.73
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.73
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.72
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.7
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.7
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.68
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.68
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.67
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.66
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.64
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.64
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.62
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.59
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.59
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.58
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.57
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.56
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.54
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.53
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.53
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.52
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.52
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.52
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.5
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.48
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.48
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.47
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.45
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.43
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.43
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.42
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.41
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.41
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.38
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.37
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.37
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.35
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.34
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.34
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.34
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.32
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.32
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.31
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.3
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.29
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.28
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.26
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.24
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.23
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.22
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.22
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.21
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.2
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.19
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.19
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.18
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.18
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.18
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.16
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.15
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.12
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.12
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.11
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.11
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.09
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.09
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.09
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.08
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.04
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.99
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.99
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.97
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.97
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.94
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.91
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.9
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.9
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.89
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.89
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.87
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.87
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.87
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.85
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.83
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.81
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.81
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.78
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.77
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.77
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.77
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.74
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.73
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.73
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.71
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.58
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.56
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.48
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.39
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.39
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.38
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.33
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.29
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.23
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.16
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.09
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.07
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.06
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.83
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.76
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.63
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.62
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.61
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.59
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.59
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.58
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.49
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.45
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.25
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.02
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.62
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.55
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.51
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.34
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.25
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.98
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.0
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.98
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.94
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.64
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	93.38
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.33
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.32
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.17
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	92.83
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.98
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	91.06
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	90.8
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	89.37
2p58_C	116	Putative type III secretion protein YSCG; type III	88.9
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.41
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	88.26
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.95
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	87.37
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	86.99
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	86.03
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.53
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	84.41
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	84.31
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	83.91
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	83.83
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	83.07
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	82.87
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	82.5
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	82.38
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	80.72

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=5.2e-39  Score=347.14  Aligned_cols=451  Identities=11%  Similarity=-0.045  Sum_probs=331.4

Q ss_pred             hhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChhHH---HHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhH
Q 039695            4 SLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISL---ASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQV   80 (605)
Q Consensus         4 ~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~   80 (605)
                      .+.+.|++++|+.++++|..  ..|+..++..+...+.+.++.   ..++..+.  ..++++.+++.++.+|.++|++++
T Consensus        93 ~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~  168 (597)
T 2xpi_A           93 DALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLLTKED--LYNRSSACRYLAAFCLVKLYDWQG  168 (597)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTC--GGGTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHh--ccccchhHHHHHHHHHHHHhhHHH
Confidence            34445555555555555542  233444444444444444333   22222221  124455555555555555555555


Q ss_pred             HHHHHhcC-CCC------------------ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhc
Q 039695           81 ARQLFDEM-LEP------------------NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPN-EFTFATVIKACSM  140 (605)
Q Consensus        81 A~~~f~~m-~~~------------------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd-~~t~~~ll~a~~~  140 (605)
                      |.++|+++ +..                  ++.+|+.++.+|.+.|++++|+++|++|.+.+  |+ ...+..+...+..
T Consensus       169 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~  246 (597)
T 2xpi_A          169 ALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD--AKCYEAFDQLVSNHLL  246 (597)
T ss_dssp             HHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCS
T ss_pred             HHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--chhhHHHHHHHHhhcc
Confidence            55555533 221                  24555555555555555555555555555432  22 2222222222211


Q ss_pred             cCChHH--HHHH-HHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CChhhHHHHHHHHHHcCChhHHHH
Q 039695          141 LADLIT--GKQI-HTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--RNVVSWTSIIVAHAQNAQGHEALE  215 (605)
Q Consensus       141 ~~~~~~--a~~~-~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~  215 (605)
                      .+..+.  +..+ +..+...+..+...+|+.++.+|.+.|++++|.++|+++..  ++..+|+.++.+|.+.|++++|++
T Consensus       247 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  326 (597)
T 2xpi_A          247 TADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLA  326 (597)
T ss_dssp             CHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHH
Confidence            111111  0011 22222222233344566667888899999999999999988  899999999999999999999999


Q ss_pred             HHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--
Q 039695          216 MFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--  293 (605)
Q Consensus       216 ~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--  293 (605)
                      +|+++...+  +.+..++..++.++.+.|++++|..++..+.+.. +.+..+++.++.+|.++|++++|.++|+++.+  
T Consensus       327 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  403 (597)
T 2xpi_A          327 ITTKILEID--PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD  403 (597)
T ss_dssp             HHHHHHHHC--TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            999999865  4578889999999999999999999999999765 66789999999999999999999999998753  


Q ss_pred             -CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHH
Q 039695          294 -PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTC  372 (605)
Q Consensus       294 -~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  372 (605)
                       .+..+|+.++.+|.+.|++++|+++|++|.+.+ +.+..++..++.+|.+.|++++|.++|+.+.+.  .+.+..+|+.
T Consensus       404 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~  480 (597)
T 2xpi_A          404 PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYAL--FQYDPLLLNE  480 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHH
Confidence             567799999999999999999999999999863 347889999999999999999999999999643  2335889999


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC-------CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          373 VVDMLGRTGRLDEAYKLAKSIQ-------VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m~-------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ++.+|.+.|++++|.++|+++.       ..|+....+|..++.+|...|++++|++.++++++.+|+++.+|..++.+|
T Consensus       481 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  560 (597)
T 2xpi_A          481 LGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVY  560 (597)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            9999999999999999999863       345422579999999999999999999999999999999999999999999


Q ss_pred             HhcCChhHHHHHHHHHHhCCC
Q 039695          446 ALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       446 ~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      .+.|++++|.+.++++.+...
T Consensus       561 ~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          561 LHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHhCCHHHHHHHHHHHHhcCC
Confidence            999999999999999988543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1e-35  Score=321.35  Aligned_cols=381  Identities=11%  Similarity=-0.052  Sum_probs=322.1

Q ss_pred             HHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHH
Q 039695           70 NCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQ  149 (605)
Q Consensus        70 ~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~  149 (605)
                      ..+.+.|.+..+...|..++.+++..|+.++..|.+.|++++|+.+|++|..  ..||..++..++.+|...|++++|.+
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           61 NNTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHH
Confidence            3466788899999999999999999999999999999999999999999985  56888999999999999999999999


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC-C------------------ChhhHHHHHHHHHHcCCh
Q 039695          150 IHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC-R------------------NVVSWTSIIVAHAQNAQG  210 (605)
Q Consensus       150 ~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~-~------------------~~~~~~~li~~~~~~g~~  210 (605)
                      +|+.+...  +++..+++.++.+|.++|++++|.++|+++.. .                  ++.+|+.++.+|.+.|++
T Consensus       139 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  216 (597)
T 2xpi_A          139 LLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNF  216 (597)
T ss_dssp             HHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCH
Confidence            99987643  68899999999999999999999999996543 3                  488999999999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCC-hhH--------------------------------------HHhHHHhhcccCchhhHHH
Q 039695          211 HEALEMFREFNYQSRDRPN-QHM--------------------------------------LASVINACASLGRLVSGKV  251 (605)
Q Consensus       211 ~~A~~~~~~m~~~~~~~p~-~~t--------------------------------------~~~ll~a~~~~~~~~~a~~  251 (605)
                      ++|+++|++|...+   |+ ...                                      |..++..|.+.|++++|.+
T Consensus       217 ~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~  293 (597)
T 2xpi_A          217 DRAKECYKEALMVD---AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAED  293 (597)
T ss_dssp             HHHHHHHHHHHHHC---TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC---chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHH
Confidence            99999999998865   32 222                                      2333667778899999999


Q ss_pred             HHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC---CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCC
Q 039695          252 AHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS---NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIK  328 (605)
Q Consensus       252 ~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  328 (605)
                      ++..+.+.  +++..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|+.++|..+|+++... .+
T Consensus       294 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~  370 (597)
T 2xpi_A          294 YLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDR-HP  370 (597)
T ss_dssp             HHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CT
T ss_pred             HHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-Cc
Confidence            99988876  5889999999999999999999999999986   357789999999999999999999999999865 34


Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHH
Q 039695          329 PNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGT  406 (605)
Q Consensus       329 pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~  406 (605)
                      .+..++..+...|.+.|++++|.++|+.+.+   +.| +..+|+.++.+|.+.|++++|+++|+++. ..|+ +..+|..
T Consensus       371 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~  446 (597)
T 2xpi_A          371 EKAVTWLAVGIYYLCVNKISEARRYFSKSST---MDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQG-THLPYLF  446 (597)
T ss_dssp             TSHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTT-CSHHHHH
T ss_pred             ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHH
Confidence            5788999999999999999999999999964   345 48899999999999999999999999864 3332 2789999


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       407 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      ++.+|...|++++|.+.|+++++..|.++.+|..++.+|.+.|++++|.++++++.+.
T Consensus       447 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  504 (597)
T 2xpi_A          447 LGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLL  504 (597)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999999999876

>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=99.96  E-value=1.8e-28  Score=254.67  Aligned_cols=182  Identities=10%  Similarity=0.144  Sum_probs=129.2

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCc---------hhhHHHHHHHHHHhCCCCcHh
Q 039695          196 SWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGR---------LVSGKVAHGVVVRSGCEFNDV  266 (605)
Q Consensus       196 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~---------~~~a~~~~~~~~~~g~~~~~~  266 (605)
                      .++.+|.+|++.|+.++|+++|++|.+.| ++||..||+++|.+|+..+.         ++.|.++|+.|.+.|+.||..
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~G-v~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNG-VQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHT-CCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcC-CCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            45566666666666666666666666666 77777777777777665443         456677777777777777777


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccC----CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 039695          267 VASALVDMYAKCGSVNYSDKVFNRIS----NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACS  342 (605)
Q Consensus       267 ~~~~li~~y~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~  342 (605)
                      +|++||++|++.|++++|.++|++|.    .||..+||+||.+|++.|+.++|.++|++|.+.|+.||..||++||.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            77777777777777777777777765    36777777777777777777777777777777777777777777777777


Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhh
Q 039695          343 HSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGR  379 (605)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~  379 (605)
                      +.|++++|.+++++| ++.+..|+..+|+.++..|..
T Consensus       187 ~~g~~d~A~~ll~~M-r~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          187 DTKNADKVYKTLQRL-RDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCHHHHHHHHHHH-HHHTSSBCHHHHHHHHHHHHS
T ss_pred             hCCCHHHHHHHHHHH-HHhCCCcCHHHHHHHHHHHhc
Confidence            777777777777777 455777777777777777654

>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=99.96  E-value=4.7e-26  Score=231.80  Aligned_cols=372  Identities=12%  Similarity=0.032  Sum_probs=269.9

Q ss_pred             HHHHcCCChhHHHHHHhcCC--CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHH
Q 039695           70 NCYVRLKKTQVARQLFDEML--EP-NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLIT  146 (605)
Q Consensus        70 ~~~~~~g~~~~A~~~f~~m~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~  146 (605)
                      ..+.+.|++++|.+.|+++.  .| +...+..+...+.+.|++++|...++...+.. +.+..+|..+..++...|++++
T Consensus         7 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~   85 (388)
T 1w3b_A            7 HREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            44556777788777777662  23 44556666667777777777777777776642 2356677777777777788888


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 039695          147 GKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--R-NVVSWTSIIVAHAQNAQGHEALEMFREFNYQ  223 (605)
Q Consensus       147 a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  223 (605)
                      |.+.++.+.+.. +.+...+..+..+|.+.|++++|.+.|+++..  | +...+..+...+...|++++|++.|+++...
T Consensus        86 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  164 (388)
T 1w3b_A           86 AIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            888777777754 34455677777777777888777777777643  3 3445666677777778888888888777764


Q ss_pred             CCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHH
Q 039695          224 SRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYT  300 (605)
Q Consensus       224 ~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~  300 (605)
                      .  +.+..++..+...+...|++++|...++.+++.. +.+...+..+...+...|++++|...|++..+   .+..+|.
T Consensus       165 ~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  241 (388)
T 1w3b_A          165 Q--PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHG  241 (388)
T ss_dssp             C--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHH
T ss_pred             C--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHH
Confidence            3  3346677777777777778888887777777765 44566777778888888888888888776642   3456777


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhc
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRT  380 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~  380 (605)
                      .+...|.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|.+.|+.+.+.  .+++...+..+...+.+.
T Consensus       242 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~  318 (388)
T 1w3b_A          242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHc
Confidence            88888888888888888888887742 224567777888888888888888888887643  234577788888888888


Q ss_pred             CCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          381 GRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       381 g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      |++++|.+.++++. ..|+ +..+|..+..++...|++++|...++++++..|+++.+|..++.+|...|+
T Consensus       319 g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          319 GNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TCHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            88888888888754 3343 266788888888888888888888888888888888888888887776653

>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=99.96  E-value=2.8e-28  Score=253.33  Aligned_cols=182  Identities=12%  Similarity=0.082  Sum_probs=129.9

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCC---------hHHHHHHHHHHHHhCCCCchhH
Q 039695           95 SYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLAD---------LITGKQIHTHIETFGFQYNLVV  165 (605)
Q Consensus        95 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~---------~~~a~~~~~~~~~~g~~~~~~~  165 (605)
                      .++.+|.+|++.|++++|+++|++|.+.|++||..||++||.+|+..+.         ++.|.++|++|.+.|+.||..+
T Consensus        28 ~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~t  107 (501)
T 4g26_A           28 LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEAT  107 (501)
T ss_dssp             HHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHH
Confidence            4666677777777777777777777777777777777777777765443         4667777777777777777777


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhcCC----CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhc
Q 039695          166 CSSLVDMYGKCNDVDGARRVFDLMGC----RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACA  241 (605)
Q Consensus       166 ~~~Li~~y~~~g~~~~A~~~~~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~  241 (605)
                      ||+||++|++.|++++|.++|++|..    ||..+||++|.+|++.|+.++|.++|++|.+.| +.||..||+++|.+|+
T Consensus       108 yn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G-~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          108 FTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESE-VVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHh
Confidence            77777777777777777777777643    677777777777777777777777777777777 7777777777777777


Q ss_pred             ccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHh
Q 039695          242 SLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAK  277 (605)
Q Consensus       242 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  277 (605)
                      +.|++++|.++++.|.+.|..|+..+|+.+++.|+.
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            777777777777777777777777777777777654

>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=1.4e-25  Score=228.27  Aligned_cols=353  Identities=14%  Similarity=0.089  Sum_probs=307.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCC-hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCC
Q 039695          100 MAGYINMGQPQIALLLFQKMLGNLVWPN-EFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCND  178 (605)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~pd-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  178 (605)
                      ...+.+.|++++|+..+.++.+.  .|+ ...+..+...+...|++++|...++.+++.. +.+...+..+...|.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            45667889999999999998875  354 4456666677888999999999999998875 6688899999999999999


Q ss_pred             HHHHHHHHhhcCC--C-ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHH
Q 039695          179 VDGARRVFDLMGC--R-NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGV  255 (605)
Q Consensus       179 ~~~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~  255 (605)
                      +++|...|+++..  | +..+|..+..++.+.|++++|++.|.++....  +.+...+..+...+...|++++|...+..
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  160 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            9999999998853  3 45679999999999999999999999998754  33445667777888889999999999999


Q ss_pred             HHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CH
Q 039695          256 VVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-ND  331 (605)
Q Consensus       256 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~  331 (605)
                      +.+.. +.+..+++.+...|.+.|++++|...|+++.+   .+...|..+...+...|++++|+..|++....  .| +.
T Consensus       161 al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~  237 (388)
T 1w3b_A          161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHA  237 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCH
Confidence            99875 55678999999999999999999999999863   34567888999999999999999999999885  34 57


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      .++..+..++...|++++|.+.|+.+.+   ..|+ ...|..+...|.+.|++++|.+.++++. ..|+ +..+|..+..
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~  313 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPT-HADSLNNLAN  313 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHH
Confidence            8888999999999999999999999864   4564 7889999999999999999999998864 2333 2789999999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      .+...|++++|...++++++..|+++.++..++.+|.+.|++++|.+.++++.+.
T Consensus       314 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          314 IKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999999999999874

>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=99.92  E-value=3.1e-22  Score=207.70  Aligned_cols=324  Identities=12%  Similarity=0.076  Sum_probs=219.7

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 039695           92 NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVD  171 (605)
Q Consensus        92 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~  171 (605)
                      ++..|..+...+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++.+++.+ +.+..++..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            44556666667777777777777777766542 2245566666666777777777777777776664 345666667777


Q ss_pred             HHHhCCCHHHHHHHHhhcCC--C-Ch---hhHHHHHH------------HHHHcCChhHHHHHHHHHHHcCCCCCChhHH
Q 039695          172 MYGKCNDVDGARRVFDLMGC--R-NV---VSWTSIIV------------AHAQNAQGHEALEMFREFNYQSRDRPNQHML  233 (605)
Q Consensus       172 ~y~~~g~~~~A~~~~~~m~~--~-~~---~~~~~li~------------~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~  233 (605)
                      +|.+.|++++|.+.|+++..  | +.   ..|..++.            .+.+.|++++|+..|+++....         
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---------  173 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC---------  173 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---------
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---------
Confidence            77777777777777776644  2 22   44444433            3555666666666666665432         


Q ss_pred             HhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcC
Q 039695          234 ASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYG  310 (605)
Q Consensus       234 ~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g  310 (605)
                                                  +.+..++..+..+|.+.|++++|.+.|+++.+   .+..+|..+...|...|
T Consensus       174 ----------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  225 (450)
T 2y4t_A          174 ----------------------------VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLG  225 (450)
T ss_dssp             ----------------------------TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTT
T ss_pred             ----------------------------CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence                                        22344445555555555555555555555432   34556666677777777


Q ss_pred             ChhHHHHHHHHHHHcCCCCCH-HHHHH------------HHHHHhccCcHHHHHHHHHHHHHhcCCCCc-----HHHHHH
Q 039695          311 LGRFSLDLFNEMISRGIKPND-VTFVG------------VLHACSHSGLVDEGIQHLDSMYRKYGIIPD-----AKHYTC  372 (605)
Q Consensus       311 ~~~~A~~l~~~m~~~g~~pd~-~t~~~------------ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~  372 (605)
                      ++++|+..|+++...  .|+. ..+..            +..+|.+.|++++|...|+.+...   .|+     ..+|..
T Consensus       226 ~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~  300 (450)
T 2y4t_A          226 DHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKER  300 (450)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHH
Confidence            777777777777653  3332 22322            277888999999999999998653   454     458899


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHH---------
Q 039695          373 VVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLS---------  442 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~---------  442 (605)
                      +..++.+.|++++|++.++++. ..|+ +..+|..+..+|...|++++|...+++++++.|+++.++..+.         
T Consensus       301 l~~~~~~~g~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~  379 (450)
T 2y4t_A          301 ICHCFSKDEKPVEAIRVCSEVLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQS  379 (450)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcc
Confidence            9999999999999999998853 3443 2789999999999999999999999999999999999998888         


Q ss_pred             ---HHHHhcC-----ChhHHHHHHHH
Q 039695          443 ---NTYALAG-----EWENVHSLRSE  460 (605)
Q Consensus       443 ---~~y~~~g-----~~~~a~~~~~~  460 (605)
                         +.|...|     +.+++.+.+++
T Consensus       380 ~~~~~y~~lg~~~~~~~~~~~~~y~~  405 (450)
T 2y4t_A          380 QKRDYYKILGVKRNAKKQEIIKAYRK  405 (450)
T ss_dssp             HSCCSGGGSCSSTTCCTTHHHHHHHH
T ss_pred             cchhHHHHhCCCccCCHHHHHHHHHH
Confidence               4455556     44555665554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=1.7e-22  Score=213.38  Aligned_cols=396  Identities=11%  Similarity=-0.016  Sum_probs=312.9

Q ss_pred             HHHHHHHHHHHcCCChhHHHHHHhcCC--CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 039695           63 FTLNHLINCYVRLKKTQVARQLFDEML--EPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSM  140 (605)
Q Consensus        63 ~~~~~li~~~~~~g~~~~A~~~f~~m~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~  140 (605)
                      ..+..+...|.+.|++++|...|+++.  .|++..|..+..+|.+.|++++|+..|+++.+.+. .+..++..+..++..
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKP-DYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccCh-HHHHHHHHHHHHHHH
Confidence            445566778888999999999999883  47888999999999999999999999999887542 255688888889999


Q ss_pred             cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHH----------------------------------
Q 039695          141 LADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVF----------------------------------  186 (605)
Q Consensus       141 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~----------------------------------  186 (605)
                      .|++++|...++.+.+.+ +++......++..+.+......+.+.+                                  
T Consensus        86 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            999999999999988876 344444444544444332222222222                                  


Q ss_pred             ----hhcCC----------CChhhHHHHHHHHHH---cCChhHHHHHHHHHHH-----cCCCCC--------ChhHHHhH
Q 039695          187 ----DLMGC----------RNVVSWTSIIVAHAQ---NAQGHEALEMFREFNY-----QSRDRP--------NQHMLASV  236 (605)
Q Consensus       187 ----~~m~~----------~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~~~~~p--------~~~t~~~l  236 (605)
                          .....          .+...|......+..   .|++++|+..|+++..     .. ..|        +..++..+
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLD-KNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTT-TSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhc-cCccccccChHHHHHHHHH
Confidence                11110          113344444444554   8999999999999987     32 122        34567778


Q ss_pred             HHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChh
Q 039695          237 INACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGR  313 (605)
Q Consensus       237 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  313 (605)
                      ...+...|+++.|...+..+.+....  ..++..+...|...|++++|...|+.+.+   .+...|..+...|...|+++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHH
Confidence            88899999999999999999987644  88899999999999999999999998764   46678999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 039695          314 FSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI  393 (605)
Q Consensus       314 ~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  393 (605)
                      +|+..|++...... .+..++..+...+...|++++|...++.+.+..  +.+...+..+...|.+.|++++|...++++
T Consensus       322 ~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  398 (514)
T 2gw1_A          322 QAGKDFDKAKELDP-ENIFPYIQLACLAYRENKFDDCETLFSEAKRKF--PEAPEVPNFFAEILTDKNDFDKALKQYDLA  398 (514)
T ss_dssp             HHHHHHHHHHHTCS-SCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCh-hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc--ccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999998532 356788889999999999999999999986542  224778889999999999999999999875


Q ss_pred             C-CCCCc-----hhhHHHHHHHHHHH---cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          394 Q-VDPDG-----GPLLWGTLLSASRL---HGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       394 ~-~~p~~-----~~~~~~~ll~~~~~---~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      . ..|+.     ....|..+...+..   .|++++|...++++++..|+++.++..++.+|.+.|++++|.+.+++..+.
T Consensus       399 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          399 IELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3 12221     02389999999999   999999999999999999999999999999999999999999999999875


Q ss_pred             CC
Q 039695          465 GI  466 (605)
Q Consensus       465 ~~  466 (605)
                      ..
T Consensus       479 ~~  480 (514)
T 2gw1_A          479 AR  480 (514)
T ss_dssp             CS
T ss_pred             cc
Confidence            43

>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=99.89  E-value=7.7e-21  Score=197.15  Aligned_cols=365  Identities=10%  Similarity=0.019  Sum_probs=254.7

Q ss_pred             CCchHHHHHHHHHHHcCCChhHHHHHHhcCC---CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHH
Q 039695           59 LSNTFTLNHLINCYVRLKKTQVARQLFDEML---EPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVI  135 (605)
Q Consensus        59 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll  135 (605)
                      +.++..+..+...|.+.|++++|..+|+++.   ..+..+|..+..+|.+.|++++|+..|+++.+.+. .+..++..+.
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~  101 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKM-DFTAARLQRG  101 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CcHHHHHHHH
Confidence            4567788899999999999999999999873   35788999999999999999999999999988643 2567888999


Q ss_pred             HHHhccCChHHHHHHHHHHHHhCCCCch---hHHHHH------------HHHHHhCCCHHHHHHHHhhcCC---CChhhH
Q 039695          136 KACSMLADLITGKQIHTHIETFGFQYNL---VVCSSL------------VDMYGKCNDVDGARRVFDLMGC---RNVVSW  197 (605)
Q Consensus       136 ~a~~~~~~~~~a~~~~~~~~~~g~~~~~---~~~~~L------------i~~y~~~g~~~~A~~~~~~m~~---~~~~~~  197 (605)
                      .++...|++++|.+.++.+.+.. +.+.   ..+..+            ...|.+.|++++|...|+++..   .+...|
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  180 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELR  180 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHH
Confidence            99999999999999999998764 3344   555555            4448999999999999998753   567889


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHh
Q 039695          198 TSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAK  277 (605)
Q Consensus       198 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  277 (605)
                      ..+...|.+.|++++|++.|+++....  +.+..++..+...+...|++++|...+..+.+.. +.+...+..+...   
T Consensus       181 ~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~---  254 (450)
T 2y4t_A          181 ELRAECFIKEGEPRKAISDLKAASKLK--NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQV---  254 (450)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHH--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH---
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHH---
Confidence            999999999999999999999998764  4567778888888888888888888888887654 2233333332100   


Q ss_pred             cCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHhccCcHHHHHH
Q 039695          278 CGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN-----DVTFVGVLHACSHSGLVDEGIQ  352 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd-----~~t~~~ll~a~~~~g~~~~a~~  352 (605)
                       +               ....+..+...+.+.|++++|+.+|+++...  .|+     ...+..+..++.+.|++++|..
T Consensus       255 -~---------------~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~  316 (450)
T 2y4t_A          255 -K---------------KLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIR  316 (450)
T ss_dssp             -H---------------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             -H---------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence             0               0011222355566666666666666666653  233     2355566666666677777766


Q ss_pred             HHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHH------------HHHcC---
Q 039695          353 HLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSA------------SRLHG---  415 (605)
Q Consensus       353 ~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~------------~~~~g---  415 (605)
                      .++.+...   .| +...|..+..+|...|++++|.+.++++ ...|+ +...+..+..+            |...|   
T Consensus       317 ~~~~a~~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~  392 (450)
T 2y4t_A          317 VCSEVLQM---EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNEN-DQQIREGLEKAQRLLKQSQKRDYYKILGVKR  392 (450)
T ss_dssp             HHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHHHHHHSCCSGGGSCSST
T ss_pred             HHHHHHHh---CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHhhcccchhHHHHhCCCc
Confidence            66666432   33 3566666666666777777777666653 23343 24445444422            22333   


Q ss_pred             --ChHHHHHHHHH-HHhcCCCCCc----------hHHHHHHHHHhcCChhH
Q 039695          416 --RVDIAVEASNQ-LIESNQQVAN----------AYVTLSNTYALAGEWEN  453 (605)
Q Consensus       416 --~~~~a~~~~~~-~~~~~p~~~~----------~~~~l~~~y~~~g~~~~  453 (605)
                        +.+++.+.+++ .++..|++..          .+..+..+|...|+.+.
T Consensus       393 ~~~~~~~~~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~  443 (450)
T 2y4t_A          393 NAKKQEIIKAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEM  443 (450)
T ss_dssp             TCCTTHHHHHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGG
T ss_pred             cCCHHHHHHHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHH
Confidence              56677888886 6677776532          34445555555555443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.89  E-value=9.9e-21  Score=199.77  Aligned_cols=388  Identities=11%  Similarity=-0.006  Sum_probs=293.5

Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCC---CCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695           45 SLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEML---EPNVVSYTSLMAGYINMGQPQIALLLFQKMLG  121 (605)
Q Consensus        45 ~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  121 (605)
                      .+...+..+++..  |++.++..+..+|.+.|++++|...|+++.   ..+..+|..+..+|.+.|++++|+..|+++..
T Consensus        24 ~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  101 (514)
T 2gw1_A           24 DAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSL  101 (514)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            3355555555544  567778888888888888888888888763   23567788888888888888888888888887


Q ss_pred             CCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHH-----------------------------------hCC-------
Q 039695          122 NLVWPNEFTFATVIKACSMLADLITGKQIHTHIET-----------------------------------FGF-------  159 (605)
Q Consensus       122 ~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~-----------------------------------~g~-------  159 (605)
                      .+. ++......++..+........+.+.+..+..                                   ...       
T Consensus       102 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (514)
T 2gw1_A          102 NGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANY  180 (514)
T ss_dssp             SSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSC
T ss_pred             cCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHh
Confidence            653 3444444444433322222222221111100                                   000       


Q ss_pred             --CCchhHHHHHHHHHHh---CCCHHHHHHHHhhcCC-----------------CChhhHHHHHHHHHHcCChhHHHHHH
Q 039695          160 --QYNLVVCSSLVDMYGK---CNDVDGARRVFDLMGC-----------------RNVVSWTSIIVAHAQNAQGHEALEMF  217 (605)
Q Consensus       160 --~~~~~~~~~Li~~y~~---~g~~~~A~~~~~~m~~-----------------~~~~~~~~li~~~~~~g~~~~A~~~~  217 (605)
                        +.+...+..+...+..   .|++++|...|+++..                 .+..+|..+...+...|++++|+..|
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  260 (514)
T 2gw1_A          181 DESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDI  260 (514)
T ss_dssp             CSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence              1124444445554554   8999999999987644                 13467888899999999999999999


Q ss_pred             HHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---C
Q 039695          218 REFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---P  294 (605)
Q Consensus       218 ~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~  294 (605)
                      +++....   |+..++..+..++...|++++|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.+   .
T Consensus       261 ~~~l~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  336 (514)
T 2gw1_A          261 KKAIELF---PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE  336 (514)
T ss_dssp             HHHHHHC---CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS
T ss_pred             HHHHhhC---ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh
Confidence            9998865   447888888999999999999999999998865 45677889999999999999999999998752   4


Q ss_pred             CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc----HHHH
Q 039695          295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD----AKHY  370 (605)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~  370 (605)
                      +...|..+...|...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.....-.|+    ...+
T Consensus       337 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  415 (514)
T 2gw1_A          337 NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPL  415 (514)
T ss_dssp             CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHH
Confidence            56789999999999999999999999998852 335678888999999999999999999988654333333    4488


Q ss_pred             HHHHHHHhh---cCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHH
Q 039695          371 TCVVDMLGR---TGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTL  441 (605)
Q Consensus       371 ~~li~~~~~---~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  441 (605)
                      ..+...|.+   .|++++|.+.+++.. ..|+ +..+|..+...+...|++++|...++++++..|.++..+..+
T Consensus       416 ~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  489 (514)
T 2gw1_A          416 VGKATLLTRNPTVENFIEATNLLEKASKLDPR-SEQAKIGLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAI  489 (514)
T ss_dssp             HHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHH
T ss_pred             HHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHH
Confidence            899999999   999999999998853 3343 277899999999999999999999999999999987766655

>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=99.87  E-value=6.7e-20  Score=194.63  Aligned_cols=389  Identities=12%  Similarity=0.020  Sum_probs=277.9

Q ss_pred             HHHHHHHHHHHcCCChhHHHHHHhcCC---CCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHh
Q 039695           63 FTLNHLINCYVRLKKTQVARQLFDEML---EPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACS  139 (605)
Q Consensus        63 ~~~~~li~~~~~~g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~  139 (605)
                      ..+..+...|.+.|++++|.+.|+++.   ..++.+|..+..+|.+.|++++|++.|+++.+.+. .+..++..+..++.
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~  104 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRASANE  104 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHHHHH
Confidence            345556666677777777777777662   23566677777777777777777777777766432 24556666667777


Q ss_pred             ccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhc------------------------------
Q 039695          140 MLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLM------------------------------  189 (605)
Q Consensus       140 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m------------------------------  189 (605)
                      ..|++++|...++ ....  .|+.  .+..+..+...+....|...++++                              
T Consensus       105 ~~g~~~~A~~~~~-~~~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (537)
T 3fp2_A          105 SLGNFTDAMFDLS-VLSL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLE  179 (537)
T ss_dssp             HHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHH
T ss_pred             HcCCHHHHHHHHH-HHhc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHH
Confidence            7777777777774 2211  1211  111222333333334444444443                              


Q ss_pred             -------CCCChh---hHHHHHHHHHH--------cCChhHHHHHHHHHHHcCCCCCC--------hhHHHhHHHhhccc
Q 039695          190 -------GCRNVV---SWTSIIVAHAQ--------NAQGHEALEMFREFNYQSRDRPN--------QHMLASVINACASL  243 (605)
Q Consensus       190 -------~~~~~~---~~~~li~~~~~--------~g~~~~A~~~~~~m~~~~~~~p~--------~~t~~~ll~a~~~~  243 (605)
                             ...+..   .+..+...+..        .|++++|+.+|+++....   |+        ..++..+...+...
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~---p~~~~~~~~~~~~~~~~g~~~~~~  256 (537)
T 3fp2_A          180 VSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN---TVDDPLRENAALALCYTGIFHFLK  256 (537)
T ss_dssp             HHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC---CCcchhhHHHHHHHHHHHHHHHhc
Confidence                   322221   22223222222        257899999999988654   44        22456666777888


Q ss_pred             CchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHH
Q 039695          244 GRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFN  320 (605)
Q Consensus       244 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~  320 (605)
                      |+++.|...+..+.+..  |+...+..+...|.+.|++++|.+.|+++.+   .+..+|..+...|...|++++|...|+
T Consensus       257 ~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  334 (537)
T 3fp2_A          257 NNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQ  334 (537)
T ss_dssp             TCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            99999999999999875  4478888999999999999999999998763   456789999999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC----C
Q 039695          321 EMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ----V  395 (605)
Q Consensus       321 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~  395 (605)
                      +..... +.+..++..+...+...|++++|...++.+.+.   .| +...+..+...|.+.|++++|.+.++++.    .
T Consensus       335 ~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  410 (537)
T 3fp2_A          335 KAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK---FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEV  410 (537)
T ss_dssp             HHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCc
Confidence            998853 224678888999999999999999999999654   34 47788899999999999999999998753    1


Q ss_pred             CCC--chhhHHHHHHHHHHHc----------CChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          396 DPD--GGPLLWGTLLSASRLH----------GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       396 ~p~--~~~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .++  .....+..+...+...          |++++|...++++++..|+++.++..++.+|.+.|++++|.+.+++..+
T Consensus       411 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  490 (537)
T 3fp2_A          411 QEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI  490 (537)
T ss_dssp             CSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            111  1123355566777777          9999999999999999999999999999999999999999999999987


Q ss_pred             CCC
Q 039695          464 TGI  466 (605)
Q Consensus       464 ~~~  466 (605)
                      ...
T Consensus       491 ~~~  493 (537)
T 3fp2_A          491 LAR  493 (537)
T ss_dssp             HC-
T ss_pred             hCC
Confidence            654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.84  E-value=2.4e-18  Score=172.16  Aligned_cols=326  Identities=11%  Similarity=0.056  Sum_probs=194.3

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 039695           92 NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVD  171 (605)
Q Consensus        92 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~  171 (605)
                      |+..|..+...+.+.|++++|+..|+++.+... .+..++..+...+...|++++|...++.+.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDP-DNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            345677777778888888888888888776432 245567777777777788888888887777764 345566777777


Q ss_pred             HHHhCCCHHHHHHHHhhcCC--C----ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCc
Q 039695          172 MYGKCNDVDGARRVFDLMGC--R----NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGR  245 (605)
Q Consensus       172 ~y~~~g~~~~A~~~~~~m~~--~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~  245 (605)
                      +|.+.|++++|...|++...  |    +...|..+...+.                        ...+......+...|+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~------------------------~~~~~~~a~~~~~~~~  135 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE------------------------MQRLRSQALDAFDGAD  135 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH------------------------HHHHHHHHHHHHHTTC
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH------------------------HHHHHHHHHHHHHccC
Confidence            77777777777777776644  2    2223333310000                        0000111223333444


Q ss_pred             hhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          246 LVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEM  322 (605)
Q Consensus       246 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m  322 (605)
                      +++|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.+   .+..+|..+...|...|++++|...|++.
T Consensus       136 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          136 YTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444444444444332 23344555555556666666666666655442   33455666666666666777777777666


Q ss_pred             HHcCCCCC-HHHHH------------HHHHHHhccCcHHHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHhhcCCHHHHH
Q 039695          323 ISRGIKPN-DVTFV------------GVLHACSHSGLVDEGIQHLDSMYRKYGIIPD--AKHYTCVVDMLGRTGRLDEAY  387 (605)
Q Consensus       323 ~~~g~~pd-~~t~~------------~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~  387 (605)
                      .+.  .|+ ...+.            .+...+...|++++|...++.+.....-.|.  ...+..+...|.+.|++++|.
T Consensus       215 ~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          215 LKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             Hhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            653  222 22211            2245566777777777777777543211111  123455667777778888888


Q ss_pred             HHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039695          388 KLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL  447 (605)
Q Consensus       388 ~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  447 (605)
                      +.+++.. ..|+ ++.+|..+...+...|++++|...++++++.+|+++.++..+..++..
T Consensus       293 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          293 RICSEVLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRL  352 (359)
T ss_dssp             HHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            7777643 2332 266777778888888888888888888888888777766666655543

>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=99.83  E-value=7.4e-19  Score=186.55  Aligned_cols=383  Identities=11%  Similarity=0.007  Sum_probs=278.1

Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCC---CCChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695           45 SLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEML---EPNVVSYTSLMAGYINMGQPQIALLLFQKMLG  121 (605)
Q Consensus        45 ~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  121 (605)
                      .+...+..+++.. +.++..+..+..+|.+.|++++|.+.|++..   ..++.+|..+...+...|++++|+..|+.+ .
T Consensus        43 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~-~  120 (537)
T 3fp2_A           43 EAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLSVL-S  120 (537)
T ss_dssp             -CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH-C
T ss_pred             HHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHHHH-h
Confidence            3356666666554 4466777777788888888888888887763   235667777778888888888888888533 2


Q ss_pred             CCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhC------CCCc---------------------------h---hH
Q 039695          122 NLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFG------FQYN---------------------------L---VV  165 (605)
Q Consensus       122 ~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g------~~~~---------------------------~---~~  165 (605)
                      .  .|+...  ..+..+...+....+...++.+.+..      ..|+                           .   ..
T Consensus       121 ~--~~~~~~--~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  196 (537)
T 3fp2_A          121 L--NGDFDG--ASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALL  196 (537)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHH
T ss_pred             c--CCCCCh--HHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHH
Confidence            2  122111  11222233333455555555553320      0111                           1   13


Q ss_pred             HHHHHHHHHhC--------CCHHHHHHHHhhcCC--CC--------hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC
Q 039695          166 CSSLVDMYGKC--------NDVDGARRVFDLMGC--RN--------VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDR  227 (605)
Q Consensus       166 ~~~Li~~y~~~--------g~~~~A~~~~~~m~~--~~--------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  227 (605)
                      ...+...+...        |++++|..+|+++..  |+        ..+|..+...+...|++++|+..|.+.....   
T Consensus       197 ~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~---  273 (537)
T 3fp2_A          197 SDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH---  273 (537)
T ss_dssp             HHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC---
Confidence            33444443333        478999999998865  33        2356677788899999999999999998854   


Q ss_pred             CChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHH
Q 039695          228 PNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIV  304 (605)
Q Consensus       228 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~  304 (605)
                      |+...+..+...+...|+++.|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.+   .+...|..+..
T Consensus       274 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~  352 (537)
T 3fp2_A          274 PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLAC  352 (537)
T ss_dssp             CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            668888899999999999999999999999876 55788899999999999999999999998763   45678999999


Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC----cHHHHHHHHHHHhhc
Q 039695          305 GAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP----DAKHYTCVVDMLGRT  380 (605)
Q Consensus       305 ~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p----~~~~~~~li~~~~~~  380 (605)
                      .|...|++++|...|+++.+.. +.+...+..+...+...|++++|...|+.+.+...-.+    ....+..+...|.+.
T Consensus       353 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~  431 (537)
T 3fp2_A          353 LLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQ  431 (537)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998863 33567888899999999999999999998865431111    233345556777787


Q ss_pred             ----------CCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          381 ----------GRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       381 ----------g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                                |++++|...+++.. ..|+ +..+|..+...+...|++++|...+++++++.|.+.....
T Consensus       432 ~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          432 SSQDPTQLDEEKFNAAIKLLTKACELDPR-SEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             HTC----CCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH
T ss_pred             hhccchhhhHhHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHH
Confidence                      99999999998854 3443 2778999999999999999999999999999998765433

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.82  E-value=1.5e-17  Score=166.26  Aligned_cols=307  Identities=9%  Similarity=-0.005  Sum_probs=237.8

Q ss_pred             hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHH
Q 039695          128 EFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAH  204 (605)
Q Consensus       128 ~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~  204 (605)
                      ...+..+...+...|++++|...++.+++.. +.+..++..+...|...|++++|...|++...   .+...|..+...|
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            4556667777788888888888888888765 45677788888888888888888888877643   3556777888888


Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCC---Ch-hHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCC
Q 039695          205 AQNAQGHEALEMFREFNYQSRDRP---NQ-HMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGS  280 (605)
Q Consensus       205 ~~~g~~~~A~~~~~~m~~~~~~~p---~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  280 (605)
                      .+.|++++|+..|++.....   |   +. ..+..+...       .                .......+...+...|+
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~~~l~~~-------~----------------~~~~~~~~a~~~~~~~~  135 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSN---PSEQEEKEAESQLVKA-------D----------------EMQRLRSQALDAFDGAD  135 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSC---CCHHHHHHHHHHHHHH-------H----------------HHHHHHHHHHHHHHTTC
T ss_pred             HHcCChHHHHHHHHHHHhcC---CcccChHHHHHHHHHH-------H----------------HHHHHHHHHHHHHHccC
Confidence            88888888888888877543   4   21 111111110       0                01123345678899999


Q ss_pred             HHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          281 VNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       281 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      +++|.+.|+++.+   .+...|..+...|...|++++|+..+++.... .+.+..++..+...+...|++++|...++..
T Consensus       136 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          136 YTAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKL-KSDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999998763   46678889999999999999999999999986 3446788889999999999999999999998


Q ss_pred             HHhcCCCCc-HHHHH------------HHHHHHhhcCCHHHHHHHHHhCC-CCCCchh---hHHHHHHHHHHHcCChHHH
Q 039695          358 YRKYGIIPD-AKHYT------------CVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGP---LLWGTLLSASRLHGRVDIA  420 (605)
Q Consensus       358 ~~~~~~~p~-~~~~~------------~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~---~~~~~ll~~~~~~g~~~~a  420 (605)
                      .+.   .|+ ...+.            .+...+.+.|++++|.+.+++.. ..|+...   ..|..+..++...|++++|
T Consensus       215 ~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  291 (359)
T 3ieg_A          215 LKL---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEA  291 (359)
T ss_dssp             HHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             Hhh---CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHH
Confidence            644   343 33322            33677899999999999998753 3444211   2355688899999999999


Q ss_pred             HHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          421 VEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       421 ~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...++++++..|+++.++..++.+|...|++++|.+.+++..+..
T Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  336 (359)
T 3ieg_A          292 IRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHN  336 (359)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999998754

>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=99.81  E-value=7.3e-18  Score=166.62  Aligned_cols=286  Identities=9%  Similarity=-0.010  Sum_probs=183.2

Q ss_pred             CchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHH
Q 039695          161 YNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVI  237 (605)
Q Consensus       161 ~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll  237 (605)
                      .+..++..+...+...|++++|.++|+++..   .+...+..++..+...|++++|+..+.++....  +.+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY--PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHH
Confidence            3444445555555555555555555555432   233344445555555555555555555555432  23344455555


Q ss_pred             HhhcccC-chhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChh
Q 039695          238 NACASLG-RLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGR  313 (605)
Q Consensus       238 ~a~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  313 (605)
                      ..+...| ++++|...+..+.+.. +.+...+..+...|...|++++|.+.|+++.+   .+...+..+...|...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHH
Confidence            5555555 5555555555555443 33445566666667777777777777666542   33456666777777778888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC-------CCCcHHHHHHHHHHHhhcCCHHHH
Q 039695          314 FSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYG-------IIPDAKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       314 ~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~-------~~p~~~~~~~li~~~~~~g~~~~A  386 (605)
                      +|...|++..+.. +.+..++..+...+...|++++|...++.+.....       .......+..+...|.+.|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            8888887777642 33456777777777888888888888877754321       123356788888888888888888


Q ss_pred             HHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH-HhcCCh
Q 039695          387 YKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY-ALAGEW  451 (605)
Q Consensus       387 ~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y-~~~g~~  451 (605)
                      .+.+++.. ..|+ +...|..+...+...|++++|...++++++..|+++.++..++.++ ...|+.
T Consensus       256 ~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          256 LDYHRQALVLIPQ-NASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHHhhCcc-chHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            88887743 2332 2678888888888888888888888888888888888888888877 444543

>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=99.80  E-value=3.1e-18  Score=169.70  Aligned_cols=286  Identities=9%  Similarity=0.026  Sum_probs=126.4

Q ss_pred             cCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHH
Q 039695           74 RLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTH  153 (605)
Q Consensus        74 ~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~  153 (605)
                      +.|++++|.+.++++..|+  +|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|...++.
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 HIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            7789999999999996664  9999999999999999999999653      5888999999999999999999998888


Q ss_pred             HHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHH
Q 039695          154 IETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHML  233 (605)
Q Consensus       154 ~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~  233 (605)
                      ..+.  .+++.+.+.|+.+|.++|+++++.++++.   |+..+|+.+...|...|.+++|...|..+          ..|
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~  151 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNF  151 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT----------TCH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhH
Confidence            8774  45688899999999999999999988864   77789999999999999999999999875          368


Q ss_pred             HhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChh
Q 039695          234 ASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGR  313 (605)
Q Consensus       234 ~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  313 (605)
                      ..+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|+++
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHH
Confidence            88888888889888888888777      367888888888888888888877777655 34444556888888888888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHH--hccCcHHHHHHHHHHHHHhcCCCC------cHHHHHHHHHHHhhcCCHHH
Q 039695          314 FSLDLFNEMISRGIKPNDVTFVGVLHAC--SHSGLVDEGIQHLDSMYRKYGIIP------DAKHYTCVVDMLGRTGRLDE  385 (605)
Q Consensus       314 ~A~~l~~~m~~~g~~pd~~t~~~ll~a~--~~~g~~~~a~~~~~~m~~~~~~~p------~~~~~~~li~~~~~~g~~~~  385 (605)
                      +|+.+++...... +-....|+.+.-++  -+.+++.+..+.|.   .+-+++|      +..+|.-++-.|...++++.
T Consensus       225 Eai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~  300 (449)
T 1b89_A          225 ELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDN  300 (449)
T ss_dssp             HHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHH
Confidence            8888888876532 22233444443333  34455555555444   3335555      35677888888888888888


Q ss_pred             HHHHHHhC
Q 039695          386 AYKLAKSI  393 (605)
Q Consensus       386 A~~~~~~m  393 (605)
                      |...+-+-
T Consensus       301 A~~tm~~h  308 (449)
T 1b89_A          301 AIITMMNH  308 (449)
T ss_dssp             HHHHHHHS
T ss_pred             HHHHHHhC
Confidence            87765443

>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=99.78  E-value=8.4e-17  Score=158.97  Aligned_cols=266  Identities=12%  Similarity=-0.011  Sum_probs=228.7

Q ss_pred             CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHH
Q 039695          192 RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASAL  271 (605)
Q Consensus       192 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  271 (605)
                      .+...+..+...+...|++++|+++|+++....  +.+...+..++.++...|++++|...+..+.+.. +.+..++..+
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   96 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD--PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAV   96 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            456677888889999999999999999998765  4455666677788899999999999999999875 5567888999


Q ss_pred             HHHHHhcC-CHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcH
Q 039695          272 VDMYAKCG-SVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLV  347 (605)
Q Consensus       272 i~~y~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~  347 (605)
                      ...|...| ++++|.+.|++..+   .+...|..+...|...|++++|+..|++..+... .+...+..+...+...|++
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhhH
Confidence            99999999 99999999998764   4567899999999999999999999999988632 2456677788999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCC---------CCCchhhHHHHHHHHHHHcCCh
Q 039695          348 DEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQV---------DPDGGPLLWGTLLSASRLHGRV  417 (605)
Q Consensus       348 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~---------~p~~~~~~~~~ll~~~~~~g~~  417 (605)
                      ++|...++...   ...|+ ...+..+...|.+.|++++|...+++...         .++....+|..+..++...|++
T Consensus       176 ~~A~~~~~~al---~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  252 (330)
T 3hym_B          176 KLAERFFSQAL---SIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY  252 (330)
T ss_dssp             HHHHHHHHHHH---TTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHH---HhCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH
Confidence            99999999886   34554 78899999999999999999999887431         0111256899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          418 DIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       418 ~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      ++|...++++++..|+++.++..++.+|.+.|++++|.+.+++..+.
T Consensus       253 ~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          253 AEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             HHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            99999999999999999999999999999999999999999877654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.77  E-value=2.1e-15  Score=158.05  Aligned_cols=366  Identities=10%  Similarity=-0.033  Sum_probs=292.1

Q ss_pred             CchHHHHHHHHHHHc----CCChhHHHHHHhcCCC-CChhhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCChhh
Q 039695           60 SNTFTLNHLINCYVR----LKKTQVARQLFDEMLE-PNVVSYTSLMAGYIN----MGQPQIALLLFQKMLGNLVWPNEFT  130 (605)
Q Consensus        60 ~~~~~~~~li~~~~~----~g~~~~A~~~f~~m~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~pd~~t  130 (605)
                      .++..+..|-..|..    .++++.|...|++..+ .++.++..|-..|..    .+++++|+..|++..+.|   +...
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a  113 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQA  113 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            366777777778877    7999999999987633 577888888889988    899999999999998865   5566


Q ss_pred             HHHHHHHHhc----cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----CCCHHHHHHHHhhcCC-CChhhHHHHH
Q 039695          131 FATVIKACSM----LADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGK----CNDVDGARRVFDLMGC-RNVVSWTSII  201 (605)
Q Consensus       131 ~~~ll~a~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~----~g~~~~A~~~~~~m~~-~~~~~~~~li  201 (605)
                      +..+-..+..    .+++++|.+.++...+.|   +...+..|..+|..    .++.++|.+.|++..+ .+..++..+.
T Consensus       114 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg  190 (490)
T 2xm6_A          114 QQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLG  190 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            7777777776    789999999999998876   56778888888887    7899999999987654 5778888888


Q ss_pred             HHHHH----cCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcc----cCchhhHHHHHHHHHHhCCCCcHhHHHHHHH
Q 039695          202 VAHAQ----NAQGHEALEMFREFNYQSRDRPNQHMLASVINACAS----LGRLVSGKVAHGVVVRSGCEFNDVVASALVD  273 (605)
Q Consensus       202 ~~~~~----~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  273 (605)
                      ..|..    .+++++|++.|++..+.+    +...+..+...+..    .++.++|...+....+.|   +...+..|..
T Consensus       191 ~~y~~g~g~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  263 (490)
T 2xm6_A          191 YMYSRGLGVERNDAISAQWYRKSATSG----DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGY  263 (490)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHH
T ss_pred             HHHhcCCCCCcCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            88888    899999999999988765    45556666666654    788999999999888765   4556677777


Q ss_pred             HHHh----cCCHHHHHHHHhccCC-CCcchHHHHHHHHHHc-----CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 039695          274 MYAK----CGSVNYSDKVFNRISN-PSVVTYTSMIVGAAKY-----GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH  343 (605)
Q Consensus       274 ~y~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~  343 (605)
                      +|..    .++.++|.+.|++..+ .+...+..+...|...     ++.++|+..|++..+.|   +...+..+...+..
T Consensus       264 ~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~  340 (490)
T 2xm6_A          264 ILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFR  340 (490)
T ss_dssp             HHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHh
Confidence            8877    8999999999998765 4566777788888877     89999999999998865   34556666666665


Q ss_pred             cC---cHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH---
Q 039695          344 SG---LVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGR----TGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL---  413 (605)
Q Consensus       344 ~g---~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~---  413 (605)
                      .|   +.++|.++|+...+.    .+...+..|..+|..    .+++++|.+.|++.....+  +..+..|...+..   
T Consensus       341 ~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~--~~a~~~Lg~~y~~g~g  414 (490)
T 2xm6_A          341 LGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGL--SAAQVQLGEIYYYGLG  414 (490)
T ss_dssp             SCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHTSS
T ss_pred             CCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCC
Confidence            45   788999999988543    357788888888888    8999999999988654445  7888889999988   


Q ss_pred             -cCChHHHHHHHHHHHhcCCC---CCchHHHHHHHHHh
Q 039695          414 -HGRVDIAVEASNQLIESNQQ---VANAYVTLSNTYAL  447 (605)
Q Consensus       414 -~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~y~~  447 (605)
                       .++.++|...|+++.+.+|+   ++.+...|..++..
T Consensus       415 ~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          415 VERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             SCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence             89999999999999998854   55566666555443

>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=99.77  E-value=2e-17  Score=166.39  Aligned_cols=279  Identities=13%  Similarity=0.015  Sum_probs=209.6

Q ss_pred             hCCCHHHHHH-HHhhcCC-----C--ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCch
Q 039695          175 KCNDVDGARR-VFDLMGC-----R--NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRL  246 (605)
Q Consensus       175 ~~g~~~~A~~-~~~~m~~-----~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~  246 (605)
                      -.|++++|.. .|++...     |  +...|..+...+.+.|++++|+..|+++....  +.+..++..+..++...|++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCcCH
Confidence            3466777776 6664432     1  34557777777777888888888887777653  44566777777777777888


Q ss_pred             hhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CC-cchHHH---------------HHHHHHH
Q 039695          247 VSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PS-VVTYTS---------------MIVGAAK  308 (605)
Q Consensus       247 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~-~~~~~~---------------li~~~~~  308 (605)
                      ++|...+..+.+.. +.+..++..+...|.+.|++++|.+.|+++.+  |+ ...+..               .+..+..
T Consensus       115 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          115 LLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            88888887777765 44667777788888888888888888877653  21 122211               2333448


Q ss_pred             cCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHH
Q 039695          309 YGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       309 ~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A  386 (605)
                      .|++++|+..|+++....... +..++..+...+...|++++|...++.+...   .|+ ...+..+...|.+.|++++|
T Consensus       194 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHcCCHHHH
Confidence            899999999999998853221 4788899999999999999999999998643   454 78999999999999999999


Q ss_pred             HHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-----------CchHHHHHHHHHhcCChhHH
Q 039695          387 YKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV-----------ANAYVTLSNTYALAGEWENV  454 (605)
Q Consensus       387 ~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~y~~~g~~~~a  454 (605)
                      .+.++++. ..|+ +..+|..+..++...|++++|...++++++..|++           ..+|..++.+|...|++++|
T Consensus       271 ~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  349 (368)
T 1fch_A          271 VAAYRRALELQPG-YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAY  349 (368)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGH
T ss_pred             HHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhH
Confidence            99998853 3343 27799999999999999999999999999988877           67899999999999999999


Q ss_pred             HHHHHH
Q 039695          455 HSLRSE  460 (605)
Q Consensus       455 ~~~~~~  460 (605)
                      ..++++
T Consensus       350 ~~~~~~  355 (368)
T 1fch_A          350 GAADAR  355 (368)
T ss_dssp             HHHHTT
T ss_pred             HHhHHH
Confidence            998763

>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=2.5e-15  Score=159.09  Aligned_cols=397  Identities=10%  Similarity=0.057  Sum_probs=284.4

Q ss_pred             CCchHHHHHHHHHHHcCCChhHHHHHHhcCCC--C-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHH
Q 039695           59 LSNTFTLNHLINCYVRLKKTQVARQLFDEMLE--P-NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVI  135 (605)
Q Consensus        59 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll  135 (605)
                      +-+...|..++. +.+.|+++.|..+|+++.+  | +...|...+..+.+.|++++|..+|++.+...  |+...|...+
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~   86 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYL   86 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHH
Confidence            457778888888 4778999999999998844  3 56689999999999999999999999998853  6766666655


Q ss_pred             HHH-hccCChHHHHH----HHHHHHHh-CCCC-chhHHHHHHHHHHh---------CCCHHHHHHHHhhcCC-CCh---h
Q 039695          136 KAC-SMLADLITGKQ----IHTHIETF-GFQY-NLVVCSSLVDMYGK---------CNDVDGARRVFDLMGC-RNV---V  195 (605)
Q Consensus       136 ~a~-~~~~~~~~a~~----~~~~~~~~-g~~~-~~~~~~~Li~~y~~---------~g~~~~A~~~~~~m~~-~~~---~  195 (605)
                      ... ...|+.+.|.+    +|+.+++. |..| +...|...+....+         .|+++.|..+|++... |+.   .
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~  166 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQ  166 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHH
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHH
Confidence            432 34566666554    77766654 5443 46678888877665         6889999999998764 321   3


Q ss_pred             hHHHHHHHH-------------HHcCChhHHHHHHHHHH------HcC--CCCCCh--------hHHHhHHHhhcc----
Q 039695          196 SWTSIIVAH-------------AQNAQGHEALEMFREFN------YQS--RDRPNQ--------HMLASVINACAS----  242 (605)
Q Consensus       196 ~~~~li~~~-------------~~~g~~~~A~~~~~~m~------~~~--~~~p~~--------~t~~~ll~a~~~----  242 (605)
                      .|.......             .+.+++.+|..++.+..      +..  .++|+.        ..|...+.-...    
T Consensus       167 ~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~  246 (530)
T 2ooe_A          167 LWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLR  246 (530)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCcc
Confidence            343322211             12355677777776532      111  023331        233333322211    


Q ss_pred             cCch----hhHHHHHHHHHHhCCCCcHhHHHHHHHHHHh-------cCCHH-------HHHHHHhccCC---C-CcchHH
Q 039695          243 LGRL----VSGKVAHGVVVRSGCEFNDVVASALVDMYAK-------CGSVN-------YSDKVFNRISN---P-SVVTYT  300 (605)
Q Consensus       243 ~~~~----~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~-------~g~~~-------~A~~~~~~~~~---~-~~~~~~  300 (605)
                      .++.    +.+..+++.+++.. +.+..+|..++..+.+       .|+++       +|..+|++..+   | +...|.
T Consensus       247 ~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~  325 (530)
T 2ooe_A          247 TEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYF  325 (530)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHH
T ss_pred             CCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHH
Confidence            1222    35667888887764 5577888888888876       69987       89999998864   3 467889


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHH-
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPND--VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDM-  376 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~--~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~-  376 (605)
                      .++..+.+.|++++|..+|+++.+  ..|+.  ..|...+..+.+.|++++|.++|+...+   ..|. ...|.....+ 
T Consensus       326 ~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~---~~~~~~~~~~~~a~~~  400 (530)
T 2ooe_A          326 AYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE---DARTRHHVYVTAALME  400 (530)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---CTTCCTHHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHh---ccCCchHHHHHHHHHH
Confidence            999999999999999999999998  45543  4788888888889999999999998863   3443 3333333322 


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc----hHHHHHHHHHhcCCh
Q 039695          377 LGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN----AYVTLSNTYALAGEW  451 (605)
Q Consensus       377 ~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~y~~~g~~  451 (605)
                      +...|+.++|..+|+.. ...|+ ++..|..++..+...|+.+.|..+|+++++..|.++.    .|...+......|+.
T Consensus       401 ~~~~~~~~~A~~~~e~al~~~p~-~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~  479 (530)
T 2ooe_A          401 YYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  479 (530)
T ss_dssp             HHHTCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCH
T ss_pred             HHHcCChhHHHHHHHHHHHHCCC-CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            34689999999999874 33343 3789999999999999999999999999998776655    777778888889999


Q ss_pred             hHHHHHHHHHHhCC
Q 039695          452 ENVHSLRSEMKRTG  465 (605)
Q Consensus       452 ~~a~~~~~~m~~~~  465 (605)
                      +.+.++.+++.+.-
T Consensus       480 ~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          480 ASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHC
Confidence            99999999887643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.75  E-value=1.8e-14  Score=150.92  Aligned_cols=353  Identities=13%  Similarity=0.002  Sum_probs=295.2

Q ss_pred             CCChhhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc----cCChHHHHHHHHHHHHhCCCC
Q 039695           90 EPNVVSYTSLMAGYIN----MGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSM----LADLITGKQIHTHIETFGFQY  161 (605)
Q Consensus        90 ~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~----~~~~~~a~~~~~~~~~~g~~~  161 (605)
                      ..++.++..+-..|..    .+++++|+..|++..+.|   +...+..+-..+..    .++.++|.+.++...+.|   
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---  109 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---  109 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---
Confidence            4577888888888888    899999999999998864   56677778888877    899999999999999876   


Q ss_pred             chhHHHHHHHHHHh----CCCHHHHHHHHhhcCC-CChhhHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCChhH
Q 039695          162 NLVVCSSLVDMYGK----CNDVDGARRVFDLMGC-RNVVSWTSIIVAHAQ----NAQGHEALEMFREFNYQSRDRPNQHM  232 (605)
Q Consensus       162 ~~~~~~~Li~~y~~----~g~~~~A~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~p~~~t  232 (605)
                      +...+..|..+|..    .+++++|.+.|++..+ .+..++..+...|..    .+++++|++.|++..+.+    +...
T Consensus       110 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~----~~~a  185 (490)
T 2xm6_A          110 LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG----NVWS  185 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHH
Confidence            66777888999998    8999999999998755 467788888888887    789999999999998765    5666


Q ss_pred             HHhHHHhhcc----cCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHh----cCCHHHHHHHHhccCC-CCcchHHHHH
Q 039695          233 LASVINACAS----LGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAK----CGSVNYSDKVFNRISN-PSVVTYTSMI  303 (605)
Q Consensus       233 ~~~ll~a~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~----~g~~~~A~~~~~~~~~-~~~~~~~~li  303 (605)
                      +..+...+..    .++.++|...+....+.|   +...+..|..+|..    .++.++|.+.|++..+ .+...+..+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg  262 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLG  262 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            7777777766    789999999999998876   55677888888886    8899999999998765 5666777788


Q ss_pred             HHHHH----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc-----CcHHHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 039695          304 VGAAK----YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHS-----GLVDEGIQHLDSMYRKYGIIPDAKHYTCVV  374 (605)
Q Consensus       304 ~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~-----g~~~~a~~~~~~m~~~~~~~p~~~~~~~li  374 (605)
                      ..|..    .++.++|+..|++..+.|   +...+..+...+...     +++++|...|+...+. +   +...+..+.
T Consensus       263 ~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg  335 (490)
T 2xm6_A          263 YILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DATAQANLG  335 (490)
T ss_dssp             HHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHH
T ss_pred             HHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHH
Confidence            88887    899999999999998764   445666666677666     8999999999988542 2   456777888


Q ss_pred             HHHhhcC---CHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039695          375 DMLGRTG---RLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL----HGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL  447 (605)
Q Consensus       375 ~~~~~~g---~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  447 (605)
                      .+|.+.|   ++++|.+.|++.....+  +..+..|...+..    .+++++|...++++.+.+  ++.++..|+.+|.+
T Consensus       336 ~~y~~~g~~~~~~~A~~~~~~a~~~~~--~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~  411 (490)
T 2xm6_A          336 AIYFRLGSEEEHKKAVEWFRKAAAKGE--KAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYY  411 (490)
T ss_dssp             HHHHHSCCHHHHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHH
T ss_pred             HHHHhCCCcccHHHHHHHHHHHHHCCC--HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHc
Confidence            8888766   78999999988654455  8899999999998    899999999999999875  46789999999999


Q ss_pred             ----cCChhHHHHHHHHHHhCCC
Q 039695          448 ----AGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       448 ----~g~~~~a~~~~~~m~~~~~  466 (605)
                          .+++++|.+.+++..+.+.
T Consensus       412 g~g~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          412 GLGVERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHHHC
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCC
Confidence                8999999999999998774

>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=99.75  E-value=1.1e-16  Score=161.07  Aligned_cols=298  Identities=11%  Similarity=-0.006  Sum_probs=171.4

Q ss_pred             hcCChhHHHH-HHHHHHhCCC---CCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHH
Q 039695          105 NMGQPQIALL-LFQKMLGNLV---WPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVD  180 (605)
Q Consensus       105 ~~g~~~~a~~-~~~~m~~~g~---~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~  180 (605)
                      ..|++++|++ .|++......   ..+...+..+...+...|++++|...++.+++.. +.+..++..+...|.+.|+++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  115 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQEL  115 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHH
Confidence            3466666666 6665443211   1134456666667777777777777777777654 445667777777777777777


Q ss_pred             HHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHH
Q 039695          181 GARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVV  257 (605)
Q Consensus       181 ~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~  257 (605)
                      +|...|+++..   .+..+|..+...|...|++++|++.|+++....   |+........      +.....        
T Consensus       116 ~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~------~~~~~~--------  178 (368)
T 1fch_A          116 LAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT---PAYAHLVTPA------EEGAGG--------  178 (368)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS---TTTGGGCC----------------------
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---cCcHHHHHHH------HHHhhh--------
Confidence            77777776532   456677778888888888888888888877644   3222111100      000000        


Q ss_pred             HhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--C---CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH
Q 039695          258 RSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--P---SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDV  332 (605)
Q Consensus       258 ~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  332 (605)
                         ..+ ......+...+ ..|++++|...|+++.+  |   +..+|..+...|.+.|++++|+..|+++.... +.+..
T Consensus       179 ---~~~-~~~~~~~~~~~-~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~  252 (368)
T 1fch_A          179 ---AGL-GPSKRILGSLL-SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYL  252 (368)
T ss_dssp             -----------CTTHHHH-HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             ---hcc-cHHHHHHHHHh-hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHH
Confidence               000 00111112222 55556666666655542  2   34556666666666677777777776666541 22455


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCc----------h
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDG----------G  400 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~----------~  400 (605)
                      ++..+...+...|++++|...|+.+.+.   .|+ ...+..+..+|.+.|++++|.+.+++.. ..|+.          .
T Consensus       253 ~~~~l~~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  329 (368)
T 1fch_A          253 LWNKLGATLANGNQSEEAVAAYRRALEL---QPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMS  329 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchh
Confidence            6666677777777777777777766432   333 6667777777777777777777766532 11210          1


Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      ..+|..+..++...|+.++|..++++.++
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            46788888888888888888777765543

>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=99.74  E-value=3.1e-18  Score=169.68  Aligned_cols=252  Identities=12%  Similarity=0.089  Sum_probs=118.5

Q ss_pred             HhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHH
Q 039695          174 GKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAH  253 (605)
Q Consensus       174 ~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~  253 (605)
                      -+.|++++|.++++++..|+  +|..|+.++.+.|++++|++.|.+       .+|..+|..++.++...|++++|..++
T Consensus        14 ~~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfik-------a~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIK-------ADDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHc-------CCCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            36788999999999996664  899999999999999999999964       367779999999999999999999988


Q ss_pred             HHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 039695          254 GVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVT  333 (605)
Q Consensus       254 ~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  333 (605)
                      ....+.  .+++.+.+.|+.+|.++|+++++.++++   .|+..+|+.+...|...|++++|..+|.++         ..
T Consensus        85 ~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~---~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n  150 (449)
T 1b89_A           85 QMARKK--ARESYVETELIFALAKTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SN  150 (449)
T ss_dssp             --------------------------CHHHHTTTTT---CC----------------CTTTHHHHHHHT---------TC
T ss_pred             HHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hh
Confidence            877774  4557889999999999999999998886   478889999999999999999999999976         36


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH
Q 039695          334 FVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL  413 (605)
Q Consensus       334 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~  413 (605)
                      |..+..++.+.|++++|.+.+..+       .++.+|..++.+|...|+++.|......+...|+    -...++..|.+
T Consensus       151 ~~~LA~~L~~Lg~yq~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~~~ad----~l~~lv~~Yek  219 (449)
T 1b89_A          151 FGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHAD----ELEELINYYQD  219 (449)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHH----HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHHHHhCHh----hHHHHHHHHHH
Confidence            889999999999999999999877       2688999999999999999999877766654444    34468899999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc--CChhHHHHHHH
Q 039695          414 HGRVDIAVEASNQLIESNQQVANAYVTLSNTYALA--GEWENVHSLRS  459 (605)
Q Consensus       414 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~--g~~~~a~~~~~  459 (605)
                      .|.+++|..++++.+.+++...+.|..|..+|++-  ++..+..+.|.
T Consensus       220 ~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~  267 (449)
T 1b89_A          220 RGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFW  267 (449)
T ss_dssp             TTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHS
T ss_pred             CCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            99999999999999999999999999999988865  45555555543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.74  E-value=3.9e-17  Score=164.27  Aligned_cols=261  Identities=12%  Similarity=-0.015  Sum_probs=202.7

Q ss_pred             ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHH
Q 039695          193 NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALV  272 (605)
Q Consensus       193 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  272 (605)
                      +...|..+...+.+.|++++|+..|+++....  +.+..++..+..++...|++++|...+..+++.. +.+..++..+.
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  140 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD--PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALA  140 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            44567777788888888888888888877654  4466777777788888888888888888877765 44577788888


Q ss_pred             HHHHhcCCHHHHHHHHhccCC--CC-----------cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCC-CCHHHHHHHH
Q 039695          273 DMYAKCGSVNYSDKVFNRISN--PS-----------VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIK-PNDVTFVGVL  338 (605)
Q Consensus       273 ~~y~~~g~~~~A~~~~~~~~~--~~-----------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-pd~~t~~~ll  338 (605)
                      ..|.+.|++++|...|+++.+  |+           ...+..+...|...|++++|+.+|+++...... ++..++..+.
T Consensus       141 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          141 VSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            888888888888888887753  11           223445578889999999999999999885322 2578899999


Q ss_pred             HHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCC
Q 039695          339 HACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGR  416 (605)
Q Consensus       339 ~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~  416 (605)
                      ..+...|++++|...|+.+.+.   .| +...+..+..+|.+.|++++|.+.+++.. ..|+ +..+|..+..++...|+
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~  296 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTV---RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCINLGA  296 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHCCC
Confidence            9999999999999999998643   44 48899999999999999999999998853 3443 27789999999999999


Q ss_pred             hHHHHHHHHHHHhcCCC------------CCchHHHHHHHHHhcCChhHHHHHHHH
Q 039695          417 VDIAVEASNQLIESNQQ------------VANAYVTLSNTYALAGEWENVHSLRSE  460 (605)
Q Consensus       417 ~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~y~~~g~~~~a~~~~~~  460 (605)
                      +++|...+++++++.|.            +..+|..|..++...|+.+.+.++.++
T Consensus       297 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          297 YREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             CHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999999999998766            356889999999999999998887654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.73  E-value=3.4e-15  Score=144.58  Aligned_cols=269  Identities=10%  Similarity=-0.008  Sum_probs=199.8

Q ss_pred             HHhCCCHHHHHHHHhhcCCCCh----hhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhh
Q 039695          173 YGKCNDVDGARRVFDLMGCRNV----VSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVS  248 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~  248 (605)
                      ....|++..|+..++.....++    .....+..+|...|++++|+..++.    . ..|+..++..+...+...++.+.
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~-~~~~~~a~~~la~~~~~~~~~~~   83 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----S-SAPELQAVRMFAEYLASHSRRDA   83 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----T-SCHHHHHHHHHHHHHHCSTTHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----c-CChhHHHHHHHHHHHcCCCcHHH
Confidence            3456777777777766554322    2334456677777777777765543    1 34566666777777777777777


Q ss_pred             HHHHHHHHHHhCC-CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 039695          249 GKVAHGVVVRSGC-EFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGI  327 (605)
Q Consensus       249 a~~~~~~~~~~g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  327 (605)
                      |.+.++.+...+. +.+..++..+...|.+.|++++|.+.|++  ..+...+..++..|.+.|++++|.+.|+++.+.  
T Consensus        84 A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--  159 (291)
T 3mkr_A           84 IVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--  159 (291)
T ss_dssp             HHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--
Confidence            7777777776653 44566777788899999999999999998  567788999999999999999999999999986  


Q ss_pred             CCCHHHH---HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhH
Q 039695          328 KPNDVTF---VGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLL  403 (605)
Q Consensus       328 ~pd~~t~---~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~  403 (605)
                      .|+....   ...+..+...|++++|..+|+++...  .+.+...++.+..++.+.|++++|.+.+++. ...|+ ++.+
T Consensus       160 ~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~-~~~~  236 (291)
T 3mkr_A          160 DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSG-HPET  236 (291)
T ss_dssp             CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHH
Confidence            3554321   12334444568999999999999765  3446889999999999999999999999884 34454 3778


Q ss_pred             HHHHHHHHHHcCChHH-HHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHH
Q 039695          404 WGTLLSASRLHGRVDI-AVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSL  457 (605)
Q Consensus       404 ~~~ll~~~~~~g~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~  457 (605)
                      |..++..+...|+.++ +.++++++++.+|+++.    +.+...+.+.++++..-
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~----~~d~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPF----IKEYRAKENDFDRLVLQ  287 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHH----HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChH----HHHHHHHHHHHHHHHHH
Confidence            9999999999999876 67899999999999874    34555666666665543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.72  E-value=3.2e-15  Score=155.77  Aligned_cols=253  Identities=9%  Similarity=-0.017  Sum_probs=134.7

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhc----ccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHH
Q 039695          207 NAQGHEALEMFREFNYQSRDRPNQHMLASVINACA----SLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVN  282 (605)
Q Consensus       207 ~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~  282 (605)
                      .++.++|++.|++.....  +.+...+..+...+.    ..++.++|.+.+....+.. +.+..++..+...|.+.|+++
T Consensus       188 ~~~~~~al~~~~~al~l~--p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~  264 (472)
T 4g1t_A          188 WPPSQNAIDPLRQAIRLN--PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPD  264 (472)
T ss_dssp             SCCCCCTHHHHHHHHHHC--SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHH
T ss_pred             chHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchH
Confidence            455555555555554432  223333333322222    2344555555555555543 334455555666666666666


Q ss_pred             HHHHHHhccCC--C-CcchHHHHHHHHHH-------------------cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 039695          283 YSDKVFNRISN--P-SVVTYTSMIVGAAK-------------------YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHA  340 (605)
Q Consensus       283 ~A~~~~~~~~~--~-~~~~~~~li~~~~~-------------------~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  340 (605)
                      +|...|++..+  | +..+|..+...|..                   .+..++|...|++..+.. +.+..++..+...
T Consensus       265 ~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~  343 (472)
T 4g1t_A          265 KAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASL  343 (472)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHH
Confidence            66666655542  2 22334444333321                   233567888888877642 2244567778888


Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCcH--HHHHHHHH-HHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCC
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIPDA--KHYTCVVD-MLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGR  416 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p~~--~~~~~li~-~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~  416 (605)
                      +...|++++|...|++.... ...|..  ..+..+.. .+...|+.++|+..+++. ...|+  ...+...         
T Consensus       344 ~~~~~~~~~A~~~~~kaL~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~--~~~~~~~---------  411 (472)
T 4g1t_A          344 HALADQYEEAEYYFQKEFSK-ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQK--SREKEKM---------  411 (472)
T ss_dssp             HHHTTCHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCC--CHHHHHH---------
T ss_pred             HHHhccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcc--cHHHHHH---------
Confidence            99999999999999988532 222221  12333333 234678999999998773 45566  3333222         


Q ss_pred             hHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCceeEE
Q 039695          417 VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWV  475 (605)
Q Consensus       417 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~  475 (605)
                      ...+.+++++.++.+|+++.+|..|+.+|...|++++|.+.+++..+.+...+...+|+
T Consensus       412 ~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          412 KDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            34456778888899999999999999999999999999999999988776555555664

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.71  E-value=1.6e-16  Score=159.74  Aligned_cols=260  Identities=11%  Similarity=0.004  Sum_probs=135.8

Q ss_pred             hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHH
Q 039695          128 EFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAH  204 (605)
Q Consensus       128 ~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~  204 (605)
                      ...+..+...+...|++++|...++.+++.. +.+..++..+..+|.+.|++++|...|++...   .+..+|..+...|
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSY  143 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            3345566666666666666666666666654 44566667777777777777777777766543   3456677777777


Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCCh-----------hHHHhHHHhhcccCchhhHHHHHHHHHHhCCC-CcHhHHHHHH
Q 039695          205 AQNAQGHEALEMFREFNYQSRDRPNQ-----------HMLASVINACASLGRLVSGKVAHGVVVRSGCE-FNDVVASALV  272 (605)
Q Consensus       205 ~~~g~~~~A~~~~~~m~~~~~~~p~~-----------~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li  272 (605)
                      .+.|++++|+..|+++....   |+.           ..+..+...+...|++++|...+..+.+.... .+..++..+.
T Consensus       144 ~~~g~~~~A~~~~~~al~~~---p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQN---PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC---HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHhC---ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            77777777777777776533   221           11122344444555555555555555554311 1344444444


Q ss_pred             HHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 039695          273 DMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQ  352 (605)
Q Consensus       273 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~  352 (605)
                      ..|.+.|++++|                               +..|++..+. .+.+..++..+..++...|++++|..
T Consensus       221 ~~~~~~g~~~~A-------------------------------~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~  268 (365)
T 4eqf_A          221 VLFHLSGEFNRA-------------------------------IDAFNAALTV-RPEDYSLWNRLGATLANGDRSEEAVE  268 (365)
T ss_dssp             HHHHHHTCHHHH-------------------------------HHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHCCCHHHH-------------------------------HHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            444444444444                               4444444442 11234444444455555555555555


Q ss_pred             HHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCC-----------CchhhHHHHHHHHHHHcCChHH
Q 039695          353 HLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDP-----------DGGPLLWGTLLSASRLHGRVDI  419 (605)
Q Consensus       353 ~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p-----------~~~~~~~~~ll~~~~~~g~~~~  419 (605)
                      .|+.+.+.   .|+ ...+..+..+|.+.|++++|.+.+++.. ..|           ..+..+|..+..++...|+.+.
T Consensus       269 ~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  345 (365)
T 4eqf_A          269 AYTRALEI---QPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPEL  345 (365)
T ss_dssp             HHHHHHHH---CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHhc---CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHH
Confidence            55544321   232 4444555555555555555555544421 000           0014566666666666777666


Q ss_pred             HHHHHHH
Q 039695          420 AVEASNQ  426 (605)
Q Consensus       420 a~~~~~~  426 (605)
                      +..+.++
T Consensus       346 a~~~~~~  352 (365)
T 4eqf_A          346 FQAANLG  352 (365)
T ss_dssp             HHHHHTT
T ss_pred             HHHHHHh
Confidence            6665544

>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=99.71  E-value=1.3e-13  Score=151.78  Aligned_cols=409  Identities=13%  Similarity=0.074  Sum_probs=290.7

Q ss_pred             hhhhhccchHHHHHHHHHhhhCCCC--CChhhHHHHHHHhhChhHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCChhH
Q 039695            3 KSLTRNLIFTLAASSLTRQNKRSSC--HTKAHFIQQLQECKHLISLASVHSEILKSGFLSNTFTLNHLINCYVRLKKTQV   80 (605)
Q Consensus         3 ~~l~~~~~~~~a~~~l~~m~~~g~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~   80 (605)
                      +.+...|.+.+|++++++....+..  -+...-..++....+. +..++.+.+.+.+    .+...-+...+...|.+++
T Consensus       993 Kaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd----~~d~~eIA~Iai~lglyEE 1067 (1630)
T 1xi4_A          993 KAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLD----NYDAPDIANIAISNELFEE 1067 (1630)
T ss_pred             HHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhh----hccHHHHHHHHHhCCCHHH
Confidence            4567789999999999998755331  1112222233222222 3344444444433    2224446677778999999


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCC
Q 039695           81 ARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQ  160 (605)
Q Consensus        81 A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~  160 (605)
                      |..+|++.. ......+.++.   ..+++++|.++.++.      -+..+|..+.+++...|++++|...|...      
T Consensus      1068 Af~IYkKa~-~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA------ 1131 (1630)
T 1xi4_A         1068 AFAIFRKFD-VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------ 1131 (1630)
T ss_pred             HHHHHHHcC-CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------
Confidence            999999874 22222333433   668899999988855      14678889999999999999999998553      


Q ss_pred             CchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHH
Q 039695          161 YNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVIN  238 (605)
Q Consensus       161 ~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~  238 (605)
                      .|...|..++..|.+.|++++|.+.+....+  ++....+.++.+|++.+++++ ++-|-       ..|+...+..+..
T Consensus      1132 dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~~e~~Idt~LafaYAKl~rlee-le~fI-------~~~n~ad~~~iGd 1203 (1630)
T 1xi4_A         1132 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAE-LEEFI-------NGPNNAHIQQVGD 1203 (1630)
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhcCHHH-HHHHH-------hCCCHHHHHHHHH
Confidence            4677788899999999999999999976543  444445568899999988885 43332       1356667778889


Q ss_pred             hhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHH
Q 039695          239 ACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDL  318 (605)
Q Consensus       239 a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l  318 (605)
                      .|...|++++|..+|..+         ..|..+...|.+.|++++|.+.+++.  .+..+|..+-.+|...|++..|...
T Consensus      1204 ~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA--~n~~aWkev~~acve~~Ef~LA~~c 1272 (1630)
T 1xi4_A         1204 RCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMC 1272 (1630)
T ss_pred             HHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh--CCHHHHHHHHHHHhhhhHHHHHHHH
Confidence            999999999999999875         47888999999999999999999877  5568899999999999998888887


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhh--cCCHHHHHHHHHh-CC
Q 039695          319 FNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGR--TGRLDEAYKLAKS-IQ  394 (605)
Q Consensus       319 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~--~g~~~~A~~~~~~-m~  394 (605)
                      ...     +..+...+..++..|.+.|.+++|+.+++...   ++.|. ...|+-|..+|++  -+++.++.++|.. +.
T Consensus      1273 gl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL---~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rin 1344 (1630)
T 1xi4_A         1273 GLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL---GLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVN 1344 (1630)
T ss_pred             HHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh---ccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            654     33355667788889999999999999998664   66654 5667777777765  4567777777765 32


Q ss_pred             CCC----CchhhHHHHHHHHHHHcCChHHHHHHHHHHHh------------cCCCCCchHHHHHHHHHhcC---------
Q 039695          395 VDP----DGGPLLWGTLLSASRLHGRVDIAVEASNQLIE------------SNQQVANAYVTLSNTYALAG---------  449 (605)
Q Consensus       395 ~~p----~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~------------~~p~~~~~~~~l~~~y~~~g---------  449 (605)
                      ..|    -.....|.-+.-.|.+.|+++.|....-+-..            ..+.++..|.-.+..|...+         
T Consensus      1345 i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyykai~Fyl~~~P~~lndLl~ 1424 (1630)
T 1xi4_A         1345 IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFKPLLLNDLLM 1424 (1630)
T ss_pred             cchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHHHHHHHhhChHHHHHHHH
Confidence            222    02366899999999999999988833211111            14667778887777777666         


Q ss_pred             ------ChhHHHHHHH
Q 039695          450 ------EWENVHSLRS  459 (605)
Q Consensus       450 ------~~~~a~~~~~  459 (605)
                            +.+.+.+++.
T Consensus      1425 ~l~~rlD~~R~V~l~~ 1440 (1630)
T 1xi4_A         1425 VLSPRLDHTRAVNYFS 1440 (1630)
T ss_pred             HhhhcCChHHHHHHHH
Confidence                  6666666665

>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=99.71  E-value=5.8e-16  Score=152.66  Aligned_cols=256  Identities=12%  Similarity=-0.054  Sum_probs=173.0

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHh
Q 039695          198 TSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAK  277 (605)
Q Consensus       198 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~  277 (605)
                      ..+...+...|++++|+.+|+++....  +.+..++..+..++...|++++|...+..+.+.. +.+..++..+...|.+
T Consensus        25 ~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~  101 (327)
T 3cv0_A           25 MEEGLSMLKLANLAEAALAFEAVCQAA--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN  101 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHH
Confidence            333344444444444444444443322  2233334444444444444444444444444432 2334445555555555


Q ss_pred             cCCHHHHHHHHhccCC--C-CcchHHHH--------------HH-HHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 039695          278 CGSVNYSDKVFNRISN--P-SVVTYTSM--------------IV-GAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLH  339 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~~--~-~~~~~~~l--------------i~-~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  339 (605)
                      .|++++|.+.|+++.+  | +...+..+              .. .+...|++++|...++++.+.. +.+..++..+..
T Consensus       102 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~  180 (327)
T 3cv0_A          102 EHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGV  180 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            5555555555555432  1 11222222              22 2677888999999999998763 336788888999


Q ss_pred             HHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCCh
Q 039695          340 ACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRV  417 (605)
Q Consensus       340 a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~  417 (605)
                      .+...|++++|...++.+.+.   .| +...+..+...|.+.|++++|.+.+++.. ..|+ +..+|..+...+...|++
T Consensus       181 ~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~  256 (327)
T 3cv0_A          181 LYNLSNNYDSAAANLRRAVEL---RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPG-YVRVMYNMAVSYSNMSQY  256 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhccHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhccH
Confidence            999999999999999988643   34 47889999999999999999999998853 3343 277899999999999999


Q ss_pred             HHHHHHHHHHHhcCCC------------CCchHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          418 DIAVEASNQLIESNQQ------------VANAYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       418 ~~a~~~~~~~~~~~p~------------~~~~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      ++|...++++++..|.            ++.++..++.+|.+.|++++|..++++.
T Consensus       257 ~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          257 DLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            9999999999999998            6789999999999999999999988643

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.70  E-value=9.5e-18  Score=178.90  Aligned_cols=130  Identities=11%  Similarity=0.146  Sum_probs=117.9

Q ss_pred             chHHHHHHHHHHHcCCChhHHHHHHhcC-------CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHH
Q 039695           61 NTFTLNHLINCYVRLKKTQVARQLFDEM-------LEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFAT  133 (605)
Q Consensus        61 ~~~~~~~li~~~~~~g~~~~A~~~f~~m-------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~  133 (605)
                      -..+||+||++|+++|++++|.++|++|       ..||+++||+||.+|++.|++++|.++|++|.+.|+.||.+||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            4568999999999999999999999776       369999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCCh-HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcC
Q 039695          134 VIKACSMLADL-ITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMG  190 (605)
Q Consensus       134 ll~a~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~  190 (605)
                      +|.++++.|+. +.|.+++++|.+.|+.||..+|+.+++.+.+.+-++...+++..+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~  263 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFS  263 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccC
Confidence            99999999985 7899999999999999999999999988887766666666655543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.70  E-value=1.8e-14  Score=152.53  Aligned_cols=367  Identities=6%  Similarity=-0.025  Sum_probs=266.8

Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 039695           91 PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLV  170 (605)
Q Consensus        91 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li  170 (605)
                      .|..+|..++. +.+.|++++|..+|+++.+.. +-+...|...+..+.+.|+++.|.++|+.+++..  |+...|..++
T Consensus        11 ~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~   86 (530)
T 2ooe_A           11 YDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYL   86 (530)
T ss_dssp             TCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHH
T ss_pred             CCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHH
Confidence            37789999998 588999999999999999852 2255678889999999999999999999999864  6777888777


Q ss_pred             H-HHHhCCCHHHHHH----HHhhcC------CCChhhHHHHHHHHHH---------cCChhHHHHHHHHHHHcCCCCCCh
Q 039695          171 D-MYGKCNDVDGARR----VFDLMG------CRNVVSWTSIIVAHAQ---------NAQGHEALEMFREFNYQSRDRPNQ  230 (605)
Q Consensus       171 ~-~y~~~g~~~~A~~----~~~~m~------~~~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~~~~~p~~  230 (605)
                      . .....|+.+.|.+    +|+...      ..+...|...+....+         .|++++|..+|++..... ..+..
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P-~~~~~  165 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNP-MINIE  165 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSC-CTTHH
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhch-hhhHH
Confidence            5 3345677766654    666542      1456788888776655         688999999999987632 22212


Q ss_pred             hHHHhHHHh---h----------cccCchhhHHHHHHHHHH------hC---CCCc--------HhHHHHHHHHHHhc--
Q 039695          231 HMLASVINA---C----------ASLGRLVSGKVAHGVVVR------SG---CEFN--------DVVASALVDMYAKC--  278 (605)
Q Consensus       231 ~t~~~ll~a---~----------~~~~~~~~a~~~~~~~~~------~g---~~~~--------~~~~~~li~~y~~~--  278 (605)
                      ..|......   .          ...+.+..|..++..+..      ..   ++|+        ...|...+......  
T Consensus       166 ~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~  245 (530)
T 2ooe_A          166 QLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPL  245 (530)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCc
Confidence            333322211   1          123456666666655321      11   2333        24555555443322  


Q ss_pred             --CCH----HHHHHHHhccCC---CCcchHHHHHHHHHH-------cCChh-------HHHHHHHHHHHcCCCC-CHHHH
Q 039695          279 --GSV----NYSDKVFNRISN---PSVVTYTSMIVGAAK-------YGLGR-------FSLDLFNEMISRGIKP-NDVTF  334 (605)
Q Consensus       279 --g~~----~~A~~~~~~~~~---~~~~~~~~li~~~~~-------~g~~~-------~A~~l~~~m~~~g~~p-d~~t~  334 (605)
                        ++.    +.|..+|++...   .+...|..++..+.+       .|+.+       +|..+|++..+. +.| +...+
T Consensus       246 ~~~~~~~~~~~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~~~l~  324 (530)
T 2ooe_A          246 RTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLY  324 (530)
T ss_dssp             CCSCSHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT-TCSSCHHHH
T ss_pred             cCCcchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH-hCcccHHHH
Confidence              232    366777877763   456788888888776       69987       899999998863 334 57788


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHH-H
Q 039695          335 VGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD--AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSA-S  411 (605)
Q Consensus       335 ~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~-~  411 (605)
                      ..++..+...|++++|..+|+.+.+   +.|+  ...|..++..+.+.|++++|.++|++....|+.....|...... +
T Consensus       325 ~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~  401 (530)
T 2ooe_A          325 FAYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEY  401 (530)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHhC---ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            8888899999999999999999964   4665  35899999999999999999999998543333223333332222 3


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ...|+.+.|..+|+++++..|+++..|..++..+.+.|+.++|..++++....+.
T Consensus       402 ~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~  456 (530)
T 2ooe_A          402 YCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  456 (530)
T ss_dssp             HHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCC
T ss_pred             HHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccC
Confidence            4689999999999999999999999999999999999999999999999988643

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.70  E-value=1.7e-17  Score=176.90  Aligned_cols=132  Identities=11%  Similarity=0.118  Sum_probs=114.7

Q ss_pred             CCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC-------CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHH
Q 039695          261 CEFNDVVASALVDMYAKCGSVNYSDKVFNRIS-------NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVT  333 (605)
Q Consensus       261 ~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t  333 (605)
                      ...-..+||+||++|+++|++++|.++|++|.       .||++|||+||.||++.|+.++|.++|++|.+.|+.||.+|
T Consensus       123 ~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvT  202 (1134)
T 3spa_A          123 LSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS  202 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Confidence            34456799999999999999999999997753       58999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCc-HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhC
Q 039695          334 FVGVLHACSHSGL-VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSI  393 (605)
Q Consensus       334 ~~~ll~a~~~~g~-~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  393 (605)
                      |+++|.++++.|. .++|.++|++| .+.|+.||..+|++++....+.+-++...++...+
T Consensus       203 YntLI~glcK~G~~~e~A~~Ll~EM-~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          203 YAAALQCMGRQDQDAGTIERCLEQM-SQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHH-HHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHH-HHcCCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            9999999999997 57899999999 45599999999999998888776666655554444

>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=99.69  E-value=1.4e-13  Score=151.73  Aligned_cols=349  Identities=10%  Similarity=0.076  Sum_probs=264.7

Q ss_pred             chHHHHHHHHHHHcCCChhHHHHHHhcCC-CCC-----hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHH
Q 039695           61 NTFTLNHLINCYVRLKKTQVARQLFDEML-EPN-----VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATV  134 (605)
Q Consensus        61 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~-~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~l  134 (605)
                      ++.--...+..|...|.+.+|++++++.. +|+     ...-|.++.+..+. +..+..++..+...       ....-+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~-------~d~~eI 1055 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDN-------YDAPDI 1055 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhh-------ccHHHH
Confidence            33344556777888888888888888773 222     34556666666666 55666666655532       113335


Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHH
Q 039695          135 IKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEAL  214 (605)
Q Consensus       135 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~  214 (605)
                      ...|...|.+++|..+|++..     -.....+.+   +-..|++++|.++.++..  +..+|..+..++.+.|++++|+
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~-----~~~~A~~VL---ie~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFD-----VNTSAVQVL---IEHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHH---HHHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHH
Confidence            667778899999999988752     111222333   237788999999988774  4678899999999999999999


Q ss_pred             HHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCC
Q 039695          215 EMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP  294 (605)
Q Consensus       215 ~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~  294 (605)
                      +.|.+.       -|...|..++.+|.+.|+++++.+.+....+..  +++.+.+.++..|+|.+++++.....   ..+
T Consensus      1126 dsYiKA-------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~ 1193 (1630)
T 1xi4_A         1126 DSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGP 1193 (1630)
T ss_pred             HHHHhc-------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCC
Confidence            999652       467788889999999999999999999887765  44444556999999999998655443   456


Q ss_pred             CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 039695          295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVV  374 (605)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li  374 (605)
                      +...|..+...|...|++++|..+|...         ..|..+..++.+.|++++|.+.+++.       .+..+|..+.
T Consensus      1194 n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-------~n~~aWkev~ 1257 (1630)
T 1xi4_A         1194 NNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKEVC 1257 (1630)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-------CCHHHHHHHH
Confidence            7778888889999999999999999884         47889999999999999999988865       3467888888


Q ss_pred             HHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc--CChh
Q 039695          375 DMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALA--GEWE  452 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~--g~~~  452 (605)
                      .+|...|++..|......+...    +..+..++..|...|.+++|+.+++..+.++|.+...|..|+.+|++-  ++..
T Consensus      1258 ~acve~~Ef~LA~~cgl~Iiv~----~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklm 1333 (1630)
T 1xi4_A         1258 FACVDGKEFRLAQMCGLHIVVH----ADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMR 1333 (1630)
T ss_pred             HHHhhhhHHHHHHHHHHhhhcC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHH
Confidence            8899999999999887765433    456678999999999999999999999999999988998888888764  3455


Q ss_pred             HHHHHHH
Q 039695          453 NVHSLRS  459 (605)
Q Consensus       453 ~a~~~~~  459 (605)
                      ++.++|.
T Consensus      1334 Ehlk~f~ 1340 (1630)
T 1xi4_A         1334 EHLELFW 1340 (1630)
T ss_pred             HHHHHHH
Confidence            5555544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.68  E-value=3.8e-15  Score=144.17  Aligned_cols=249  Identities=10%  Similarity=-0.004  Sum_probs=202.1

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHcCCCCCCh--hHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhc
Q 039695          201 IVAHAQNAQGHEALEMFREFNYQSRDRPNQ--HMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC  278 (605)
Q Consensus       201 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~--~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  278 (605)
                      |.-....|++.+|+..+++...   ..|+.  .....+..++...|+++.|...+..    .-+|+......+...|...
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~---~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~   78 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP---SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASH   78 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC---CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHHHHHhccc---CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCC
Confidence            3445678999999999887643   33543  3556678899999999998875543    2466788889999999999


Q ss_pred             CCHHHHHHHHhccC----CCC-cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 039695          279 GSVNYSDKVFNRIS----NPS-VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQH  353 (605)
Q Consensus       279 g~~~~A~~~~~~~~----~~~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~  353 (605)
                      |+.++|.+.++++.    .|+ ...+..+...|.+.|++++|++.+++      +.+...+..+...+.+.|++++|.+.
T Consensus        79 ~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~  152 (291)
T 3mkr_A           79 SRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKE  152 (291)
T ss_dssp             TTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999864    243 45666777899999999999999987      45778888999999999999999999


Q ss_pred             HHHHHHhcCCCCcHH---HHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 039695          354 LDSMYRKYGIIPDAK---HYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       354 ~~~m~~~~~~~p~~~---~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      ++.+.+.   .|+..   ....++..+...|++++|..+|+++. ..|+ ++..|+.+..++...|++++|+..++++++
T Consensus       153 l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~eA~~~l~~al~  228 (291)
T 3mkr_A          153 LKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSP-TLLLLNGQAACHMAQGRWEAAEGVLQEALD  228 (291)
T ss_dssp             HHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999654   46532   22334455566799999999999864 2343 388999999999999999999999999999


Q ss_pred             cCCCCCchHHHHHHHHHhcCChhH-HHHHHHHHHhCCC
Q 039695          430 SNQQVANAYVTLSNTYALAGEWEN-VHSLRSEMKRTGI  466 (605)
Q Consensus       430 ~~p~~~~~~~~l~~~y~~~g~~~~-a~~~~~~m~~~~~  466 (605)
                      .+|+++.++..++.++...|++++ +.++++++.+...
T Consensus       229 ~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          229 KDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             hCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            999999999999999999999976 5789998877554

>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=7.8e-15  Score=144.50  Aligned_cols=218  Identities=10%  Similarity=0.034  Sum_probs=101.9

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChh
Q 039695          135 IKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGH  211 (605)
Q Consensus       135 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~  211 (605)
                      ...+...|++++|..+++.+.+.. +.+...+..+...|.+.|++++|...|+++..   .+..+|..+...|...|+++
T Consensus        28 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~  106 (327)
T 3cv0_A           28 GLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNAN  106 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHH
Confidence            333344444444444444444432 22334444444444455555555554444322   23445555555555666666


Q ss_pred             HHHHHHHHHHHcCCCCCChhHHHhH--------------HH-hhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHH
Q 039695          212 EALEMFREFNYQSRDRPNQHMLASV--------------IN-ACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYA  276 (605)
Q Consensus       212 ~A~~~~~~m~~~~~~~p~~~t~~~l--------------l~-a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  276 (605)
                      +|++.|+++....  +.+...+..+              .. .+...|++++|...+..+.+.. +.+..++..+...|.
T Consensus       107 ~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  183 (327)
T 3cv0_A          107 AALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYN  183 (327)
T ss_dssp             HHHHHHHHHHHTS--TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHH
Confidence            6666666555432  1111111111              11 2455566666666666666554 334455555555555


Q ss_pred             hcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 039695          277 KCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQH  353 (605)
Q Consensus       277 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~  353 (605)
                      +.|++++|.+.|+++.+   .+..+|..+...|...|++++|...|+++.+.. +.+..++..+..++...|++++|.+.
T Consensus       184 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~  262 (327)
T 3cv0_A          184 LSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQ  262 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHH
Confidence            55555555555554431   223344445555555555555555555544431 11334444444444444555555544


Q ss_pred             HHHH
Q 039695          354 LDSM  357 (605)
Q Consensus       354 ~~~m  357 (605)
                      ++.+
T Consensus       263 ~~~a  266 (327)
T 3cv0_A          263 LVRA  266 (327)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=3.9e-14  Score=147.55  Aligned_cols=367  Identities=11%  Similarity=-0.050  Sum_probs=238.5

Q ss_pred             CCchHHHHHHHHHHHcCCChhHHHHHHhcCC-----------CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhC----
Q 039695           59 LSNTFTLNHLINCYVRLKKTQVARQLFDEML-----------EP-NVVSYTSLMAGYINMGQPQIALLLFQKMLGN----  122 (605)
Q Consensus        59 ~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~-----------~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----  122 (605)
                      ......||.|-..|...|+.++|++.|++..           .| ..++|+.+...|...|++++|...|++..+.    
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            3446689999999999999999999998641           22 4578999999999999999999999887542    


Q ss_pred             -C-CCC-ChhhHHHHHHHHhc--cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHH---HhCCCHHHHHHHHhhcCC---
Q 039695          123 -L-VWP-NEFTFATVIKACSM--LADLITGKQIHTHIETFGFQYNLVVCSSLVDMY---GKCNDVDGARRVFDLMGC---  191 (605)
Q Consensus       123 -g-~~p-d~~t~~~ll~a~~~--~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y---~~~g~~~~A~~~~~~m~~---  191 (605)
                       + ..+ ...++.....++..  .+++++|...|+.+++.. +.++..+..+..++   ...++.++|.+.|++..+   
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p  206 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNP  206 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCS
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCC
Confidence             1 112 23455554444443  457899999999999875 34555666655553   456777778887776532   


Q ss_pred             CChhhHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhH
Q 039695          192 RNVVSWTSIIVAHAQ----NAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVV  267 (605)
Q Consensus       192 ~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~  267 (605)
                      .+...+..+...+..    .|++++|.+.+++.....  +.+...+..+...+...|+++.|...+..+.+.. +.+..+
T Consensus       207 ~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~--~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~  283 (472)
T 4g1t_A          207 DNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA--PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYL  283 (472)
T ss_dssp             SCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             cchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC--ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHH
Confidence            455566666555544    467889999999988764  5567778888999999999999999999998875 446667


Q ss_pred             HHHHHHHHHhc-------------------CCHHHHHHHHhccC---CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 039695          268 ASALVDMYAKC-------------------GSVNYSDKVFNRIS---NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISR  325 (605)
Q Consensus       268 ~~~li~~y~~~-------------------g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  325 (605)
                      +..+...|...                   +..+.|...|+...   ..+..+|..+...|...|++++|+..|++..+.
T Consensus       284 ~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~  363 (472)
T 4g1t_A          284 HCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSK  363 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhc
Confidence            77776666432                   23566777776654   356678999999999999999999999999886


Q ss_pred             CCCCCHH--HHHHHHH-HHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCchh
Q 039695          326 GIKPNDV--TFVGVLH-ACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGGP  401 (605)
Q Consensus       326 g~~pd~~--t~~~ll~-a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~  401 (605)
                      ...|...  .+..+.. .....|+.++|+..|.+..   .+.|+........         +.+.++++. +...|+ ++
T Consensus       364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal---~i~~~~~~~~~~~---------~~l~~~~~~~l~~~p~-~~  430 (472)
T 4g1t_A          364 ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGV---KINQKSREKEKMK---------DKLQKIAKMRLSKNGA-DS  430 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHH---HSCCCCHHHHHHH---------HHHHHHHHHHHHHCC--CT
T ss_pred             CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCcccHHHHHHH---------HHHHHHHHHHHHhCCC-CH
Confidence            4444322  2222222 2356799999999999876   4566643322222         223333333 222343 27


Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHH
Q 039695          402 LLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLS  442 (605)
Q Consensus       402 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  442 (605)
                      .+|..|...+...|++++|++.|+++++++|.+|.++..++
T Consensus       431 ~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          431 EALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             THHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            79999999999999999999999999999998887665543

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.58  E-value=8.9e-14  Score=131.77  Aligned_cols=220  Identities=10%  Similarity=0.044  Sum_probs=159.5

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHH
Q 039695          195 VSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDM  274 (605)
Q Consensus       195 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  274 (605)
                      ..|..+...+...|++++|+..|.+.....   .+...+                                   ..+...
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~-----------------------------------~~~~~~   47 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH---KDITYL-----------------------------------NNRAAA   47 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS---CCTHHH-----------------------------------HHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh---ccHHHH-----------------------------------HHHHHH
Confidence            345555556666666666666666555432   334444                                   444444


Q ss_pred             HHhcCCHHHHHHHHhccCC--C----C----cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 039695          275 YAKCGSVNYSDKVFNRISN--P----S----VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHS  344 (605)
Q Consensus       275 y~~~g~~~~A~~~~~~~~~--~----~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~  344 (605)
                      |...|++++|.+.|++..+  |    +    ..+|..+...|...|++++|+..|++....  .|+..       .+...
T Consensus        48 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~-------~~~~~  118 (258)
T 3uq3_A           48 EYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTAD-------ILTKL  118 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHH-------HHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CchhH-------HHHHH
Confidence            5555555555555544432  1    1    356677777788888888888888888773  34432       34556


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHH
Q 039695          345 GLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVE  422 (605)
Q Consensus       345 g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~  422 (605)
                      |++++|...++.+..   ..|+ ...+..+...+...|++++|.+.+++.. ..|+ +..+|..+..++...|++++|..
T Consensus       119 ~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~  194 (258)
T 3uq3_A          119 RNAEKELKKAEAEAY---VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIA  194 (258)
T ss_dssp             HHHHHHHHHHHHHHH---CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHH---cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHH
Confidence            788899999888753   4554 7788888999999999999999998753 2333 27789999999999999999999


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          423 ASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       423 ~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .++++++..|+++.+|..++.+|.+.|++++|.+.+++..+..
T Consensus       195 ~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          195 DCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999887643

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.58  E-value=2.8e-14  Score=131.82  Aligned_cols=195  Identities=15%  Similarity=0.098  Sum_probs=153.5

Q ss_pred             CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHH
Q 039695          262 EFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVL  338 (605)
Q Consensus       262 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll  338 (605)
                      |++...+..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++..+.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45667778888888999999999999988764   355678888889999999999999999988852 22566788888


Q ss_pred             HHHhcc-----------CcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHH
Q 039695          339 HACSHS-----------GLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWG  405 (605)
Q Consensus       339 ~a~~~~-----------g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~  405 (605)
                      .++...           |++++|...++...+   +.|+ ...+..+..+|...|++++|+..|++.. ...+  +..|.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~--~~~~~  155 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAER---VNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDT--PEIRS  155 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC--HHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccc--hHHHH
Confidence            888888           999999999998864   4665 7888999999999999999999998853 2244  88999


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          406 TLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       406 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      .+..++...|++++|+..++++++.+|+++.++..++.+|.+.|++++|.+.+++..
T Consensus       156 ~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          156 ALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999999887653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.54  E-value=1.7e-13  Score=129.87  Aligned_cols=238  Identities=11%  Similarity=0.011  Sum_probs=171.7

Q ss_pred             chhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCCChhHHHhHHH
Q 039695          162 NLVVCSSLVDMYGKCNDVDGARRVFDLMGC--RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSR-DRPNQHMLASVIN  238 (605)
Q Consensus       162 ~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~p~~~t~~~ll~  238 (605)
                      ....+..+...|...|++++|...|++...  .+...|..+...|...|++++|++.|.+.....+ ..|+..       
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~-------   76 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYK-------   76 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHH-------
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchH-------
Confidence            356788899999999999999999987633  6788899999999999999999999999876430 011110       


Q ss_pred             hhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCcchHHHHHHHHHHcCChhHHH
Q 039695          239 ACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--PSVVTYTSMIVGAAKYGLGRFSL  316 (605)
Q Consensus       239 a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~  316 (605)
                                              ....++..+...|.+.|++++|...|++..+  |+       ...+...|++++|.
T Consensus        77 ------------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-------~~~~~~~~~~~~a~  125 (258)
T 3uq3_A           77 ------------------------VISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRT-------ADILTKLRNAEKEL  125 (258)
T ss_dssp             ------------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCch-------hHHHHHHhHHHHHH
Confidence                                    0123444455555555555555555555442  22       23455567778888


Q ss_pred             HHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-
Q 039695          317 DLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-  394 (605)
Q Consensus       317 ~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-  394 (605)
                      ..++++...  .| +...+..+...+...|++++|...++.+....  +.+...+..+...|.+.|++++|.+.+++.. 
T Consensus       126 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  201 (258)
T 3uq3_A          126 KKAEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIE  201 (258)
T ss_dssp             HHHHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            888887764  33 34567777778888888888888888886432  2247788888888999999999999888743 


Q ss_pred             CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC------CCCCchHHHHH
Q 039695          395 VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN------QQVANAYVTLS  442 (605)
Q Consensus       395 ~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~  442 (605)
                      ..|+ +...|..+..++...|++++|...++++++..      |.+...+..+.
T Consensus       202 ~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~  254 (258)
T 3uq3_A          202 KDPN-FVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYY  254 (258)
T ss_dssp             HCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHH
T ss_pred             hCHH-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHH
Confidence            2333 27788899999999999999999999999888      77665555443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.53  E-value=2.6e-13  Score=129.98  Aligned_cols=243  Identities=10%  Similarity=-0.071  Sum_probs=169.4

Q ss_pred             cCChhHHHHHHHHHHHcCCCCC--ChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHH
Q 039695          207 NAQGHEALEMFREFNYQSRDRP--NQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYS  284 (605)
Q Consensus       207 ~g~~~~A~~~~~~m~~~~~~~p--~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A  284 (605)
                      .|++++|+..|+++.......+  +..++..+...+...|++++|...+..+.+.. +.+..++..+...|...|++++|
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            3556666666666655421111  34455555666666666666666666666654 34566777777788888888888


Q ss_pred             HHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc
Q 039695          285 DKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKY  361 (605)
Q Consensus       285 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  361 (605)
                      .+.|++..+   .+...|..+...|.+.|++++|...|+++.+.  .|+.......+..+...|++++|...+.......
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            888877653   35678888888899999999999999998874  4554444445555567789999999998775542


Q ss_pred             CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC---chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCch
Q 039695          362 GIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPD---GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       362 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~---~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  437 (605)
                        +++...+ .++..+...++.++|.+.+++.. ..|.   .+..+|..+...+...|++++|...++++++.+|++...
T Consensus       175 --~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  251 (275)
T 1xnf_A          175 --DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVE  251 (275)
T ss_dssp             --CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHH
T ss_pred             --CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHHH
Confidence              3333333 36777778888899999988754 2221   114688899999999999999999999999999977544


Q ss_pred             HHHHHHHHHhcCChhHHHHHH
Q 039695          438 YVTLSNTYALAGEWENVHSLR  458 (605)
Q Consensus       438 ~~~l~~~y~~~g~~~~a~~~~  458 (605)
                         ...++...|++++|.+.+
T Consensus       252 ---~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          252 ---HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---HHHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHHhhHHHH
Confidence               366788888998887765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.50  E-value=3.5e-12  Score=121.91  Aligned_cols=241  Identities=9%  Similarity=-0.068  Sum_probs=125.8

Q ss_pred             HHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCCh--hHHHhHHHhhcc
Q 039695          168 SLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQ--HMLASVINACAS  242 (605)
Q Consensus       168 ~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~--~t~~~ll~a~~~  242 (605)
                      .....|.+.|++++|...|++..+   .+...|..+...|...|++++|++.|++....+ ..|+.  ..+..+...+..
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~lg~~~~~   86 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKV-NATKAKSADFEYYGKILMK   86 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcc-CchhHHHHHHHHHHHHHHH
Confidence            344455555555555555555422   233355555556666666666666666655422 11111  124444445555


Q ss_pred             cCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHH
Q 039695          243 LGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLF  319 (605)
Q Consensus       243 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~  319 (605)
                      .|++++|...+..+.+.. +.+..++..+...|.+.|++++|...|++..+   .+...|..+...+...+++++|...|
T Consensus        87 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  165 (272)
T 3u4t_A           87 KGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSF  165 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555443 23344555666666666666666666666553   12233333331222233555555555


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCC---HHHHHHHHHhCC--
Q 039695          320 NEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGR---LDEAYKLAKSIQ--  394 (605)
Q Consensus       320 ~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~--  394 (605)
                      ++..+.  .|+                                   +...+..+...+...|+   +++|...+++..  
T Consensus       166 ~~a~~~--~p~-----------------------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          166 VKVLEL--KPN-----------------------------------IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             HHHHHH--STT-----------------------------------CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             HHHHHh--Ccc-----------------------------------chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence            555442  122                                   13333334444444443   333443333321  


Q ss_pred             --CCCCc----hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039695          395 --VDPDG----GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL  447 (605)
Q Consensus       395 --~~p~~----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  447 (605)
                        ..|+.    ...+|..+...+...|+++.|...++++++++|+++.++..+......
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~  267 (272)
T 3u4t_A          209 CAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEH  267 (272)
T ss_dssp             HGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-----
T ss_pred             HhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcc
Confidence              11220    125788888999999999999999999999999998776666554443

>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=99.50  E-value=1e-12  Score=124.13  Aligned_cols=199  Identities=9%  Similarity=-0.016  Sum_probs=156.2

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHAC  341 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  341 (605)
                      ...+..+...|...|++++|.+.|+++.+   .+...|..+...|...|++++|.+.|+++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            45666777777788888888887777652   355677778888888888888888888887753 23567777888888


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHH
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDI  419 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~  419 (605)
                      ...|++++|.++++.+.. .+..|+ ...+..+...|.+.|++++|.+.+++.. ..|+ +...|..+...+...|++++
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHH
Confidence            888899999988888854 234554 6778888888888999999998888743 2332 26788888888999999999


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          420 AVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       420 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      |...++++++..|.+...+..++.+|...|++++|.+.++++.+...
T Consensus       194 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p  240 (252)
T 2ho1_A          194 ARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYP  240 (252)
T ss_dssp             HHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC
Confidence            99999999998888888888889999999999999999988877543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.50  E-value=2.1e-12  Score=119.36  Aligned_cols=200  Identities=9%  Similarity=-0.030  Sum_probs=162.3

Q ss_pred             CcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 039695          263 FNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLH  339 (605)
Q Consensus       263 ~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  339 (605)
                      .+..++..+...|...|++++|.+.|+++.+   .+...|..+...|...|++++|...|++..... +.+..++..+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            3556777788888888888888888887653   446678888888889999999999999888752 335677888888


Q ss_pred             HHhcc-CcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCC
Q 039695          340 ACSHS-GLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGR  416 (605)
Q Consensus       340 a~~~~-g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~  416 (605)
                      .+... |++++|...++.+.+ .+..|+ ...+..+...+.+.|++++|.+.++++. ..|+ +...|..+...+...|+
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCC
Confidence            88899 999999999998865 334454 6778888899999999999999988753 2333 26788889999999999


Q ss_pred             hHHHHHHHHHHHhcCC-CCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          417 VDIAVEASNQLIESNQ-QVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       417 ~~~a~~~~~~~~~~~p-~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +++|...++++++..| .++..+..++..+...|+.++|..+++.+.+..
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            9999999999999999 888888888889999999999999998887654

>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=99.49  E-value=1.2e-12  Score=131.00  Aligned_cols=245  Identities=12%  Similarity=0.092  Sum_probs=183.1

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCc-hhhHHHHHHHHHHhCCCCcHhHHHHHHH
Q 039695          195 VSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGR-LVSGKVAHGVVVRSGCEFNDVVASALVD  273 (605)
Q Consensus       195 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~li~  273 (605)
                      ..|+.+...+.+.|++++|+..|++.....  +-+...|..+..++...|+ +++|...+..+++.. +.+..+|+.+..
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            456666677777777777777777776643  3345566666667777775 777777777777765 446777777888


Q ss_pred             HHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-cCcHHH
Q 039695          274 MYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH-SGLVDE  349 (605)
Q Consensus       274 ~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~-~g~~~~  349 (605)
                      +|.+.|++++|...|+++.+   .+...|..+...+.+.|++++|+..|+++++.... +...|+.+..++.. .|..++
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 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchH
Confidence            88888888888888887763   45678888888888899999999999998885322 56778888888877 565566


Q ss_pred             H-----HHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcC--CHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcC------
Q 039695          350 G-----IQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTG--RLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHG------  415 (605)
Q Consensus       350 a-----~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g------  415 (605)
                      |     ...++..+.   +.|+ ...|..+..+|.+.|  ++++|++.+.++...|+ +...+..+...+...|      
T Consensus       254 A~~~~el~~~~~Al~---l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~-~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          254 AVLEREVQYTLEMIK---LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHS-SPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCC-CHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCC-CHHHHHHHHHHHHHHhcccccc
Confidence            6     477777753   4665 778888888888888  68999999888754444 3678888888888864      


Q ss_pred             ---ChHHHHHHHHHH-HhcCCCCCchHHHHHHHHHh
Q 039695          416 ---RVDIAVEASNQL-IESNQQVANAYVTLSNTYAL  447 (605)
Q Consensus       416 ---~~~~a~~~~~~~-~~~~p~~~~~~~~l~~~y~~  447 (605)
                         ..++|+++++++ ++.+|.....|..++..+..
T Consensus       330 ~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHH
Confidence               258899999999 89999988888877766554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.49  E-value=1.1e-12  Score=135.41  Aligned_cols=371  Identities=7%  Similarity=-0.056  Sum_probs=176.5

Q ss_pred             HHHHcCCChhHHHHHHhcCCC-CChhhHHHHHHHHHhcCCh---hHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC---
Q 039695           70 NCYVRLKKTQVARQLFDEMLE-PNVVSYTSLMAGYINMGQP---QIALLLFQKMLGNLVWPNEFTFATVIKACSMLA---  142 (605)
Q Consensus        70 ~~~~~~g~~~~A~~~f~~m~~-~~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~---  142 (605)
                      ..+.+.|++++|.++|++..+ .++.++..|-..|...|++   ++|+..|++..+.    +...+..+...+...+   
T Consensus        11 ~~~~~~g~~~~A~~~~~~aa~~g~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~~~   86 (452)
T 3e4b_A           11 NEALKRGDTVTAQQNYQQLAELGYSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPGAT   86 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCCTGGGTCC--------------------------------CHHHHHHHHHTC--CC
T ss_pred             HHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCCCC
Confidence            334455566666666655422 2333444444444445555   5666666555432    2233333333222222   


Q ss_pred             --ChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHH---HHHHhhcCC-CChhhHHHHHHHHHHcCChhHHHHH
Q 039695          143 --DLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGA---RRVFDLMGC-RNVVSWTSIIVAHAQNAQGHEALEM  216 (605)
Q Consensus       143 --~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A---~~~~~~m~~-~~~~~~~~li~~~~~~g~~~~A~~~  216 (605)
                        +.++|...++...+.|.   ...+..|..+|...+..+.+   .+.+..... .+...+..+...|...+.++++...
T Consensus        87 ~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~  163 (452)
T 3e4b_A           87 EAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDD  163 (452)
T ss_dssp             HHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHH
T ss_pred             CcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHH
Confidence              45556666666555442   12444455555544432222   222222211 2344555555555555544433333


Q ss_pred             HHHHHHcCCCCCChhHHHhHHHhhcccC---chhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhc----CCHHHHHHHHh
Q 039695          217 FREFNYQSRDRPNQHMLASVINACASLG---RLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC----GSVNYSDKVFN  289 (605)
Q Consensus       217 ~~~m~~~~~~~p~~~t~~~ll~a~~~~~---~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~----g~~~~A~~~~~  289 (605)
                      .......- ...+...+..+...+...|   +.++|...+....+.| +++...+..|..+|...    ++.++|.+.|+
T Consensus       164 a~~~~~~a-~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~  241 (452)
T 3e4b_A          164 VERICKAA-LNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLE  241 (452)
T ss_dssp             HHHHHHHH-TTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHH
T ss_pred             HHHHHHHH-HcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHH
Confidence            22221111 1122224444444454555   5555555555555555 33444444455555443    56677777776


Q ss_pred             ccCCCCcchHHHHHHH-H--HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC-----cHHHHHHHHHHHHHhc
Q 039695          290 RISNPSVVTYTSMIVG-A--AKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSG-----LVDEGIQHLDSMYRKY  361 (605)
Q Consensus       290 ~~~~~~~~~~~~li~~-~--~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g-----~~~~a~~~~~~m~~~~  361 (605)
                      +....+...+..+... |  ...++.++|+..|++..+.|   +...+..|...|. .|     ++++|...|+...   
T Consensus       242 ~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa---  314 (452)
T 3e4b_A          242 KIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV---  314 (452)
T ss_dssp             HHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT---
T ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh---
Confidence            6663344555555555 3  34677777888887777665   4445555555554 34     7777877777552   


Q ss_pred             CCCCcHHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCC
Q 039695          362 GIIPDAKHYTCVVDMLGR----TGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL----HGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       362 ~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~  433 (605)
                        .-+...+..|..+|..    ..++++|.++|++.....+  +.....|...|..    ..+.++|...++++.+.++.
T Consensus       315 --~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~--~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          315 --GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ--NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             --TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC--TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             --CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh--HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence              3345666666666655    3377788888777543333  5566666666653    44777788888777776654


Q ss_pred             CCchHHHHHHHH--HhcCChhHHHHHHHHHH
Q 039695          434 VANAYVTLSNTY--ALAGEWENVHSLRSEMK  462 (605)
Q Consensus       434 ~~~~~~~l~~~y--~~~g~~~~a~~~~~~m~  462 (605)
                      ..  ...+..+.  ...++.++|.++.++-.
T Consensus       391 ~a--~~~l~~l~~~~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          391 EA--NDLATQLEAPLTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             HH--HHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HH--HHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            32  22232222  22234555555555443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.47  E-value=6.6e-13  Score=127.15  Aligned_cols=239  Identities=12%  Similarity=-0.023  Sum_probs=139.0

Q ss_pred             cCChhHHHHHHHHHHhCCCC--C-ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHH
Q 039695          106 MGQPQIALLLFQKMLGNLVW--P-NEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGA  182 (605)
Q Consensus       106 ~g~~~~a~~~~~~m~~~g~~--p-d~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A  182 (605)
                      .|++++|+..|+++.+....  | +..++..+...+...|++++|...++.+++.. +.+..++..+...|...|++++|
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            35556666666666554211  1 23345555555666666666666666666553 33455666666666666666666


Q ss_pred             HHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHh
Q 039695          183 RRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRS  259 (605)
Q Consensus       183 ~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  259 (605)
                      .+.|++...   .+...|..+...|.+.|++++|+..|+++....   |+.......+..+...|++++|...+......
T Consensus        97 ~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           97 YEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD---PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            666665532   345566666666666666666666666666532   43333333444445556667777766665554


Q ss_pred             CCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCC-------cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH
Q 039695          260 GCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPS-------VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDV  332 (605)
Q Consensus       260 g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  332 (605)
                      . +++...+ .++..+...++.++|...+....+.+       ...|..+...|.+.|++++|...|++....  .|+. 
T Consensus       174 ~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~-  248 (275)
T 1xnf_A          174 S-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN-  248 (275)
T ss_dssp             S-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT-
T ss_pred             C-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cchh-
Confidence            3 2233333 35666666677777777777766422       356777778888888888888888888764  3422 


Q ss_pred             HHHHHHHHHhccCcHHHHHHHH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHL  354 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~  354 (605)
                       +.....++...|++++|.+.+
T Consensus       249 -~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 -FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             -CHHHHHHHHHHHHHHHC----
T ss_pred             -HHHHHHHHHHHHHHHhhHHHH
Confidence             112233555667777776655

>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=99.47  E-value=4.7e-12  Score=119.54  Aligned_cols=204  Identities=8%  Similarity=-0.053  Sum_probs=141.1

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHH
Q 039695          194 VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVD  273 (605)
Q Consensus       194 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  273 (605)
                      ...|..+...+...|++++|++.|+++....  +.+..                                   ++..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~-----------------------------------~~~~la~   79 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID--PSSAD-----------------------------------AHAALAV   79 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC--TTCHH-----------------------------------HHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CChHH-----------------------------------HHHHHHH
Confidence            4556666667777777777777777666543  22333                                   4444445


Q ss_pred             HHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHH
Q 039695          274 MYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDE  349 (605)
Q Consensus       274 ~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~  349 (605)
                      .|.+.|++++|.+.|+++.+   .+...|..+...|...|++++|.++|+++...+..| +...+..+..++...|++++
T Consensus        80 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  159 (252)
T 2ho1_A           80 VFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQ  159 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHH
Confidence            55555555555555554431   244556666667777777777777777776633344 44567777778888888888


Q ss_pred             HHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHH
Q 039695          350 GIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQL  427 (605)
Q Consensus       350 a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  427 (605)
                      |...++.+.+.   .| +...+..+...|.+.|++++|.+.++++. ..|+ +...|..+...+...|+.+.|.+.++++
T Consensus       160 A~~~~~~~~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~  235 (252)
T 2ho1_A          160 AKEYFEKSLRL---NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQ-NARSLLLGIRLAKVFEDRDTAASYGLQL  235 (252)
T ss_dssp             HHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            88888887543   34 47778888889999999999999988753 3333 2677888889999999999999999999


Q ss_pred             HhcCCCCCchH
Q 039695          428 IESNQQVANAY  438 (605)
Q Consensus       428 ~~~~p~~~~~~  438 (605)
                      ++..|+++...
T Consensus       236 ~~~~p~~~~~~  246 (252)
T 2ho1_A          236 KRLYPGSLEYQ  246 (252)
T ss_dssp             HHHCTTSHHHH
T ss_pred             HHHCCCCHHHH
Confidence            99999876543

>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=99.46  E-value=2.2e-11  Score=116.66  Aligned_cols=224  Identities=6%  Similarity=-0.076  Sum_probs=149.9

Q ss_pred             ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHH
Q 039695          193 NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALV  272 (605)
Q Consensus       193 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  272 (605)
                      +..++..+...|...|++++|++.|++..+.+    +                                   ...+..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~----~-----------------------------------~~a~~~lg   45 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK----E-----------------------------------NSGCFNLG   45 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----C-----------------------------------HHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC----C-----------------------------------HHHHHHHH
Confidence            44455556666666666666666666655432    2                                   23333444


Q ss_pred             HHHHh----cCCHHHHHHHHhccCC-CCcchHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 039695          273 DMYAK----CGSVNYSDKVFNRISN-PSVVTYTSMIVGAAK----YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH  343 (605)
Q Consensus       273 ~~y~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~  343 (605)
                      ..|..    .|++++|.+.|++..+ .+..++..+...|..    .+++++|+..|++..+.+   +...+..+...+..
T Consensus        46 ~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~  122 (273)
T 1ouv_A           46 VLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHD  122 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHc
Confidence            44444    5555555555554432 244455556666666    677777777777776654   55666666667776


Q ss_pred             ----cCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH--
Q 039695          344 ----SGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGR----TGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL--  413 (605)
Q Consensus       344 ----~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~--  413 (605)
                          .+++++|...|+...+. +   +...+..+...|..    .+++++|.+.+++.....+  +..+..+...+..  
T Consensus       123 ~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~--~~a~~~lg~~~~~g~  196 (273)
T 1ouv_A          123 GKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKD--SPGCFNAGNMYHHGE  196 (273)
T ss_dssp             CSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHTC
T ss_pred             CCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC--HHHHHHHHHHHHcCC
Confidence                77888888888777432 2   45566667777776    7888888888877543334  6777778888888  


Q ss_pred             --cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChhHHHHHHHHHHhCCC
Q 039695          414 --HGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL----AGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       414 --~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~a~~~~~~m~~~~~  466 (605)
                        .+++++|...++++++.+|  +.++..|+.+|.+    .+++++|.+.+++..+.|.
T Consensus       197 ~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          197 GATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             CCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence              8888888888888888766  5677888888888    8888888888888877664

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.46  E-value=8.6e-13  Score=123.75  Aligned_cols=140  Identities=14%  Similarity=0.038  Sum_probs=63.2

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDM  376 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  376 (605)
                      ..|..+...|...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.+..  +.+...+..+...
T Consensus        92 ~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~  168 (243)
T 2q7f_A           92 TAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMC  168 (243)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHH
Confidence            334444444444444555555554444431 1233344444444455555555555555443221  1124444444455


Q ss_pred             HhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHH
Q 039695          377 LGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVT  440 (605)
Q Consensus       377 ~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  440 (605)
                      +.+.|++++|.+.+++.. ..|+ +..+|..+..++...|++++|...++++++..|+++.++..
T Consensus       169 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  232 (243)
T 2q7f_A          169 LANEGMLDEALSQFAAVTEQDPG-HADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHA  232 (243)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHH
Confidence            555555555555544422 1111 13445555555555555555555555555555554444333

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.45  E-value=5.1e-12  Score=130.39  Aligned_cols=343  Identities=9%  Similarity=-0.026  Sum_probs=177.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCCh---HHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 039695           99 LMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADL---ITGKQIHTHIETFGFQYNLVVCSSLVDMYGK  175 (605)
Q Consensus        99 li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~---~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~  175 (605)
                      +...+.+.|++++|+++|++..+.|   +...+..+-..+...|+.   ++|.+.++...+.    ++..+..|..++..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            4455566777777777777776654   233333444444555655   6777777766643    44455555554444


Q ss_pred             CC-----CHHHHHHHHhhcCC-CChhhHHHHHHHHHHcCChh---HHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCch
Q 039695          176 CN-----DVDGARRVFDLMGC-RNVVSWTSIIVAHAQNAQGH---EALEMFREFNYQSRDRPNQHMLASVINACASLGRL  246 (605)
Q Consensus       176 ~g-----~~~~A~~~~~~m~~-~~~~~~~~li~~~~~~g~~~---~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~  246 (605)
                      .|     +.++|...|++... .+...+..|...|...+..+   ++.+.+......|    +......+...+...+.+
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g----~~~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG----YPEAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT----CTTHHHHHHHHHHHHTCG
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCc
Confidence            44     56677777766543 23446666666666655433   3344444444333    233344444445555544


Q ss_pred             hhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcC---CHHHHHHHHhccCC---CCcchHHHHHHHHHHc----CChhHHH
Q 039695          247 VSGKVAHGVVVRSGCEFNDVVASALVDMYAKCG---SVNYSDKVFNRISN---PSVVTYTSMIVGAAKY----GLGRFSL  316 (605)
Q Consensus       247 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g---~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~----g~~~~A~  316 (605)
                      +.+......+.+.-...++..+..|..+|.+.|   +.++|.+.|++..+   ++...+..+...|...    ++.++|+
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            444433333333222233336666777777777   66777777766543   2222234555555433    5677777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHH-H--hccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcC-----CHHHHHH
Q 039695          317 DLFNEMISRGIKPNDVTFVGVLHA-C--SHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTG-----RLDEAYK  388 (605)
Q Consensus       317 ~l~~~m~~~g~~pd~~t~~~ll~a-~--~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g-----~~~~A~~  388 (605)
                      ..|++.. .|   +...+..+... +  ...+++++|.+.|+... +.|   +...+..|..+|. .|     ++++|.+
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa-~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGR-AAD---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-HCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            7777665 22   23333334333 2  34667777777777663 223   4555556666665 44     7777777


Q ss_pred             HHHhCCCCCCchhhHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChhHHHHHHHH
Q 039695          389 LAKSIQVDPDGGPLLWGTLLSASRL----HGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL----AGEWENVHSLRSE  460 (605)
Q Consensus       389 ~~~~m~~~p~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~a~~~~~~  460 (605)
                      .|++.. ..+  +..+..|...|..    ..+.++|...|+++.+.+  ++.+...|+.+|..    ..+.++|...+++
T Consensus       309 ~~~~Aa-~g~--~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g--~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~  383 (452)
T 3e4b_A          309 HFEKAV-GRE--VAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG--QNSADFAIAQLFSQGKGTKPDPLNAYVFSQL  383 (452)
T ss_dssp             HHHTTT-TTC--HHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT--CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHH
T ss_pred             HHHHHh-CCC--HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC--hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHH
Confidence            777665 333  5666666655554    236777777777766543  34566677777764    3466777777777


Q ss_pred             HHhCCC
Q 039695          461 MKRTGI  466 (605)
Q Consensus       461 m~~~~~  466 (605)
                      ..+.|.
T Consensus       384 A~~~g~  389 (452)
T 3e4b_A          384 AKAQDT  389 (452)
T ss_dssp             HHTTCC
T ss_pred             HHHCCC
Confidence            666664

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.45  E-value=2.5e-12  Score=118.64  Aligned_cols=191  Identities=12%  Similarity=-0.025  Sum_probs=97.3

Q ss_pred             CchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHH
Q 039695          161 YNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVI  237 (605)
Q Consensus       161 ~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll  237 (605)
                      ++...+..+...+.+.|++++|...|++...   .+...|..+...+.+.|++++|+..|++.....             
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-------------   69 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-------------   69 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------
Confidence            4444555555555555565555555555432   234455555555555555555555555554432             


Q ss_pred             HhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhc-----------CCHHHHHHHHhccCC--C-CcchHHHHH
Q 039695          238 NACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC-----------GSVNYSDKVFNRISN--P-SVVTYTSMI  303 (605)
Q Consensus       238 ~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~-----------g~~~~A~~~~~~~~~--~-~~~~~~~li  303 (605)
                                              +.+...+..+...|.+.           |++++|...|++..+  | +...|..+.
T Consensus        70 ------------------------P~~~~a~~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg  125 (217)
T 2pl2_A           70 ------------------------PRYLGGYMVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRG  125 (217)
T ss_dssp             ------------------------TTCHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ------------------------CCcHHHHHHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHH
Confidence                                    22333333444444444           555666655555442  2 334555566


Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCC
Q 039695          304 VGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGR  382 (605)
Q Consensus       304 ~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~  382 (605)
                      ..|.+.|++++|+..|++..+..  .+...+..+..++...|++++|...|+...+   +.|+ ...+..+..++.+.|+
T Consensus       126 ~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~la~~~~~~g~  200 (217)
T 2pl2_A          126 LVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALE---QAPKDLDLRVRYASALLLKGK  200 (217)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHTC---
T ss_pred             HHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHccC
Confidence            66666666666666666666654  4556666666666666666666666666643   2343 5556666666666666


Q ss_pred             HHHHHHHHHhC
Q 039695          383 LDEAYKLAKSI  393 (605)
Q Consensus       383 ~~~A~~~~~~m  393 (605)
                      +++|.+.+++.
T Consensus       201 ~~~A~~~~~~~  211 (217)
T 2pl2_A          201 AEEAARAAALE  211 (217)
T ss_dssp             -----------
T ss_pred             HHHHHHHHHHH
Confidence            66666666543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.45  E-value=9.5e-13  Score=123.47  Aligned_cols=199  Identities=10%  Similarity=0.098  Sum_probs=153.8

Q ss_pred             cHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 039695          264 NDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHA  340 (605)
Q Consensus       264 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  340 (605)
                      ....+..+...+.+.|++++|...|+++.+   .+...|..+...|...|++++|+..|++..+.. +.+..++..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            445666777778888888888888887753   356778888889999999999999999998753 3367788889999


Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHH
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDI  419 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~  419 (605)
                      +...|++++|.+.++.+.+..  +.+...+..+...+.+.|++++|.+.++++. ..|+ +...|..+...+...|++++
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAG--MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHT--CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999986542  3357888999999999999999999998853 2332 27789999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          420 AVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       420 a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      |...++++++..|.++.++..++.+|...|++++|.+.++++.+...
T Consensus       178 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p  224 (243)
T 2q7f_A          178 ALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQP  224 (243)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCc
Confidence            99999999999999999999999999999999999999999987543

>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=99.44  E-value=2.6e-11  Score=116.14  Aligned_cols=227  Identities=9%  Similarity=-0.116  Sum_probs=166.1

Q ss_pred             CchhHHHHHHHHHHhCCCHHHHHHHHhhcCC-CChhhHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCChhHHHh
Q 039695          161 YNLVVCSSLVDMYGKCNDVDGARRVFDLMGC-RNVVSWTSIIVAHAQ----NAQGHEALEMFREFNYQSRDRPNQHMLAS  235 (605)
Q Consensus       161 ~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~p~~~t~~~  235 (605)
                      .+...+..+...|...|++++|...|++..+ .+..++..+...|..    .+++++|+..|++..+.+    +...+..
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~   79 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN----YSNGCHL   79 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHHHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC----CHHHHHH
Confidence            3567788899999999999999999998765 456778888888888    899999999998877654    3444444


Q ss_pred             HHHhhcc----cCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHH---
Q 039695          236 VINACAS----LGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAK---  308 (605)
Q Consensus       236 ll~a~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~---  308 (605)
                      +...+..    .+++++|...+....+.+                                  +..++..+...|..   
T Consensus        80 lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----------------------------------~~~a~~~lg~~~~~~~~  125 (273)
T 1ouv_A           80 LGNLYYSGQGVSQNTNKALQYYSKACDLK----------------------------------YAEGCASLGGIYHDGKV  125 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT----------------------------------CHHHHHHHHHHHHHCSS
T ss_pred             HHHHHhCCCCcccCHHHHHHHHHHHHHcC----------------------------------CccHHHHHHHHHHcCCC
Confidence            4444444    455555555554444432                                  33455555556666   


Q ss_pred             -cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhh----
Q 039695          309 -YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSH----SGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGR----  379 (605)
Q Consensus       309 -~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~----~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----  379 (605)
                       .+++++|+..|++..+.+   +...+..+...+..    .+++++|...|+...+.    .+...+..+..+|..    
T Consensus       126 ~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~  198 (273)
T 1ouv_A          126 VTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGA  198 (273)
T ss_dssp             SCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSS
T ss_pred             cccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCC
Confidence             677777777777777754   44556666666666    78888888888887533    245677778888888    


Q ss_pred             cCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCC
Q 039695          380 TGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL----HGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       380 ~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      .+++++|.+.+++.....+  ...+..+...+..    .++.++|...++++++.+|++
T Consensus       199 ~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          199 TKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             CccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            8999999999887543334  6788888888888    899999999999999998865

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.43  E-value=2.9e-12  Score=130.66  Aligned_cols=269  Identities=11%  Similarity=0.010  Sum_probs=167.0

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHhhcCC--C-Ch----hhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHH
Q 039695          165 VCSSLVDMYGKCNDVDGARRVFDLMGC--R-NV----VSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVI  237 (605)
Q Consensus       165 ~~~~Li~~y~~~g~~~~A~~~~~~m~~--~-~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll  237 (605)
                      .+..+...+...|++++|...|++...  | +.    ..|..+...|...|++++|+..|++.........+        
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~--------  121 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMND--------  121 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTC--------
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccC--------
Confidence            344455566666777777666665532  2 21    34556666666666666666666665432100000        


Q ss_pred             HhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---------CCcchHHHHHHHHHH
Q 039695          238 NACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---------PSVVTYTSMIVGAAK  308 (605)
Q Consensus       238 ~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~  308 (605)
                                             .+....++..+...|...|++++|...|++..+         ....+|..+...|..
T Consensus       122 -----------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  178 (411)
T 4a1s_A          122 -----------------------RLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHA  178 (411)
T ss_dssp             -----------------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             -----------------------chHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHH
Confidence                                   011223444445555555555555555544331         112345555566666


Q ss_pred             cCC-----------------hhHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc
Q 039695          309 YGL-----------------GRFSLDLFNEMISR----GIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD  366 (605)
Q Consensus       309 ~g~-----------------~~~A~~l~~~m~~~----g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~  366 (605)
                      .|+                 +++|+..+++..+.    +..| ...++..+...+...|++++|...+++..+...-.++
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                 66666666655431    1112 2246667777788888888888888877543211112


Q ss_pred             ----HHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--
Q 039695          367 ----AKHYTCVVDMLGRTGRLDEAYKLAKSIQ----VDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV--  434 (605)
Q Consensus       367 ----~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--  434 (605)
                          ...+..+...|...|++++|.+.+++..    ...+  ....+|..+...+...|++++|...++++++..+..  
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                3467788888899999999988887642    1111  114578888999999999999999999998764332  


Q ss_pred             ----CchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          435 ----ANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       435 ----~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                          ..++..++.+|.+.|++++|.+.+++..+.
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence                347889999999999999999999988764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.43  E-value=6e-12  Score=127.84  Aligned_cols=269  Identities=12%  Similarity=0.036  Sum_probs=166.0

Q ss_pred             hhHHHHHHHHHHhCCCHHHHHHHHhhcCC--C-C----hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHh
Q 039695          163 LVVCSSLVDMYGKCNDVDGARRVFDLMGC--R-N----VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLAS  235 (605)
Q Consensus       163 ~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~-~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~  235 (605)
                      ...+..+...+.+.|++++|...|++...  | +    ...|..+...|...|++++|+..|++.....           
T Consensus         9 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-----------   77 (406)
T 3sf4_A            9 CLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA-----------   77 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH-----------
Confidence            33444555556666666666666655432  1 1    2345555555556666666666555543211           


Q ss_pred             HHHhhcccCchhhHHHHHHHHHHhCCC-CcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-----CC----cchHHHHHHH
Q 039695          236 VINACASLGRLVSGKVAHGVVVRSGCE-FNDVVASALVDMYAKCGSVNYSDKVFNRISN-----PS----VVTYTSMIVG  305 (605)
Q Consensus       236 ll~a~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~  305 (605)
                                           .+.+.+ ....++..+...|...|++++|...|++..+     ++    ..++..+...
T Consensus        78 ---------------------~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~  136 (406)
T 3sf4_A           78 ---------------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNV  136 (406)
T ss_dssp             ---------------------HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ---------------------HhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHH
Confidence                                 000101 1133444555555566666666655554432     11    2355566666


Q ss_pred             HHHcCC--------------------hhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 039695          306 AAKYGL--------------------GRFSLDLFNEMISR----GIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRK  360 (605)
Q Consensus       306 ~~~~g~--------------------~~~A~~l~~~m~~~----g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  360 (605)
                      |...|+                    +++|+..+.+....    +..|. ..++..+...+...|++++|...+++..+.
T Consensus       137 ~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  216 (406)
T 3sf4_A          137 YHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  216 (406)
T ss_dssp             HHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHH
T ss_pred             HHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            666676                    77777777665431    11121 345667777788888888888888877543


Q ss_pred             cCCCCc----HHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 039695          361 YGIIPD----AKHYTCVVDMLGRTGRLDEAYKLAKSIQ----VDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIES  430 (605)
Q Consensus       361 ~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  430 (605)
                      ..-.++    ...+..+...|...|++++|...+++..    ..++  ....++..+...+...|++++|...++++++.
T Consensus       217 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          217 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            221222    3477788888889999999988887642    1111  11347788888899999999999999998876


Q ss_pred             CCCC------CchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          431 NQQV------ANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       431 ~p~~------~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .+..      ..++..++.+|...|++++|.+.+++..+
T Consensus       297 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          297 AQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4333      44778899999999999999999988765

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.42  E-value=5.1e-12  Score=128.31  Aligned_cols=156  Identities=12%  Similarity=-0.021  Sum_probs=98.6

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcC-CCCC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc----HH
Q 039695          298 TYTSMIVGAAKYGLGRFSLDLFNEMISRG-IKPN----DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD----AK  368 (605)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~pd----~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~  368 (605)
                      +|..+...|...|++++|...|++..+.. -.++    ..++..+...+...|++++|...++.......-.++    ..
T Consensus       189 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  268 (406)
T 3sf4_A          189 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ  268 (406)
T ss_dssp             HHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHH
Confidence            34445555555556666665555554310 0111    235666666777777777777777766432211111    55


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC----CC--CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCC------CCCc
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ----VD--PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQ------QVAN  436 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~----~~--p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p------~~~~  436 (605)
                      ++..+...|.+.|++++|.+.+++..    ..  +.....++..+...+...|++++|...+++++++.+      ....
T Consensus       269 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  348 (406)
T 3sf4_A          269 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELT  348 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhH
Confidence            67777888888888888888877642    11  111244788888999999999999999999887632      2244


Q ss_pred             hHHHHHHHHHhcCChhH
Q 039695          437 AYVTLSNTYALAGEWEN  453 (605)
Q Consensus       437 ~~~~l~~~y~~~g~~~~  453 (605)
                      ++..++.+|...|+...
T Consensus       349 ~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          349 ARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHhhHhHH
Confidence            67788888888877643

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.42  E-value=1.4e-11  Score=113.84  Aligned_cols=209  Identities=11%  Similarity=-0.021  Sum_probs=142.9

Q ss_pred             ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHH
Q 039695          193 NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALV  272 (605)
Q Consensus       193 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  272 (605)
                      +...|..+...+...|++++|++.|+++....  +.+..                                   ++..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~-----------------------------------~~~~l~   49 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD--PKNEL-----------------------------------AWLVRA   49 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHH-----------------------------------HHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC--ccchH-----------------------------------HHHHHH
Confidence            34556666667777777777777777666543  22333                                   444444


Q ss_pred             HHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHc-CChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcH
Q 039695          273 DMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKY-GLGRFSLDLFNEMISRGIKPN-DVTFVGVLHACSHSGLV  347 (605)
Q Consensus       273 ~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~  347 (605)
                      ..|...|++++|.+.|+++.+   .+..+|..+...|... |++++|...|+++.+.+..|+ ...+..+..++...|++
T Consensus        50 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  129 (225)
T 2vq2_A           50 EIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQF  129 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCH
Confidence            555555555555555554431   3445666667777777 777888888877776333333 46677777888888888


Q ss_pred             HHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHH
Q 039695          348 DEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASN  425 (605)
Q Consensus       348 ~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~  425 (605)
                      ++|...++.+.+.   .|+ ...+..+...+.+.|++++|.+.+++.. ..|..+...|..+...+...|+.+.+...++
T Consensus       130 ~~A~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  206 (225)
T 2vq2_A          130 GLAEAYLKRSLAA---QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEA  206 (225)
T ss_dssp             HHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            8888888887543   343 7778888888999999999999888743 2331126677788888899999999999999


Q ss_pred             HHHhcCCCCCchHHHH
Q 039695          426 QLIESNQQVANAYVTL  441 (605)
Q Consensus       426 ~~~~~~p~~~~~~~~l  441 (605)
                      .+.+..|+++.....+
T Consensus       207 ~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          207 QLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHCTTCHHHHHHH
T ss_pred             HHHHhCCCCHHHHHHh
Confidence            9999999887654433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.41  E-value=6.8e-11  Score=112.88  Aligned_cols=194  Identities=9%  Similarity=-0.088  Sum_probs=149.1

Q ss_pred             HHHHHHHHHHHcCCChhHHHHHHhcCC--C-CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCh--hhHHHHHHH
Q 039695           63 FTLNHLINCYVRLKKTQVARQLFDEML--E-PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNE--FTFATVIKA  137 (605)
Q Consensus        63 ~~~~~li~~~~~~g~~~~A~~~f~~m~--~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~--~t~~~ll~a  137 (605)
                      .........|.+.|++++|...|++..  . .+...|..+...|...|++++|+..|++..+.+..|+.  .+|..+...
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            344556677889999999999999873  2 35668999999999999999999999999884422222  237888888


Q ss_pred             HhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHH
Q 039695          138 CSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEAL  214 (605)
Q Consensus       138 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~  214 (605)
                      +...|++++|...++.+.+.. +.+..++..+...|.+.|++++|...|++...   .+...|..+...+...+++++|+
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            999999999999999999875 45678899999999999999999999998865   35566777773444456999999


Q ss_pred             HHHHHHHHcCCCCCChhHHHhHHHhhcccCc---hhhHHHHHHHHHHh
Q 039695          215 EMFREFNYQSRDRPNQHMLASVINACASLGR---LVSGKVAHGVVVRS  259 (605)
Q Consensus       215 ~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~---~~~a~~~~~~~~~~  259 (605)
                      +.|++..+..  +.+...+..+..++...++   .++|...+..+.+.
T Consensus       163 ~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          163 SSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             HHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             HHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence            9999988754  3345666666666666666   66777777666653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.41  E-value=5.7e-12  Score=124.06  Aligned_cols=200  Identities=13%  Similarity=0.074  Sum_probs=138.9

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC-----CC----cchHHHHHHHHHHcCC--------------------hhHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN-----PS----VVTYTSMIVGAAKYGL--------------------GRFS  315 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A  315 (605)
                      ..++..+...|...|++++|...|++..+     ++    ..++..+...|...|+                    +++|
T Consensus        83 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A  162 (338)
T 3ro2_A           83 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAA  162 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHH
Confidence            34555566666666666666666665432     11    2256666667777777                    7777


Q ss_pred             HHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc----HHHHHHHHHHHhhcCCHHHH
Q 039695          316 LDLFNEMISR----GIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD----AKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       316 ~~l~~~m~~~----g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A  386 (605)
                      ...+++....    +..| ...++..+...+...|++++|...++...+...-.++    ...+..+...|...|++++|
T Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  242 (338)
T 3ro2_A          163 VDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  242 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            7777665431    1112 1346667777888889999999888877543211111    44778888899999999999


Q ss_pred             HHHHHhCC----CCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------CchHHHHHHHHHhcCChhHH
Q 039695          387 YKLAKSIQ----VDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV------ANAYVTLSNTYALAGEWENV  454 (605)
Q Consensus       387 ~~~~~~m~----~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~y~~~g~~~~a  454 (605)
                      .+.+++..    ..++  ....++..+...+...|++++|...++++++..|..      ..++..++.+|.+.|++++|
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  322 (338)
T 3ro2_A          243 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQA  322 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHH
Confidence            99887642    1111  114477888899999999999999999998765432      33788899999999999999


Q ss_pred             HHHHHHHHhC
Q 039695          455 HSLRSEMKRT  464 (605)
Q Consensus       455 ~~~~~~m~~~  464 (605)
                      .+.+++..+.
T Consensus       323 ~~~~~~a~~~  332 (338)
T 3ro2_A          323 MHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            9999988764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.40  E-value=1.2e-11  Score=110.69  Aligned_cols=166  Identities=13%  Similarity=0.064  Sum_probs=135.5

Q ss_pred             CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHH
Q 039695          295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCV  373 (605)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~l  373 (605)
                      +...|..+...|.+.|++++|++.|++..+.. +-+..++..+..++...|++++|...+......   .|+ ...+..+
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~   79 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL---DTTSAEAYYIL   79 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CchhHHHHHHH
Confidence            45567778888888888888888888887742 225667788888888889999999888887533   343 6677778


Q ss_pred             HHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChh
Q 039695          374 VDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE  452 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~  452 (605)
                      ...+...+++++|.+.+.+.. ..|+ +...|..+...+...|++++|++.++++++.+|.++.+|..++.+|.+.|+++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHH
Confidence            888888999999999887743 2333 27788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCC
Q 039695          453 NVHSLRSEMKRTG  465 (605)
Q Consensus       453 ~a~~~~~~m~~~~  465 (605)
                      +|.+.+++..+..
T Consensus       159 ~A~~~~~~al~~~  171 (184)
T 3vtx_A          159 EAVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCC
Confidence            9999999887754

>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=99.39  E-value=5.3e-12  Score=126.39  Aligned_cols=228  Identities=11%  Similarity=0.026  Sum_probs=192.2

Q ss_pred             hHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCC-HHHHHHHHhccCC---CCcchHHHHHHHH
Q 039695          231 HMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGS-VNYSDKVFNRISN---PSVVTYTSMIVGA  306 (605)
Q Consensus       231 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~-~~~A~~~~~~~~~---~~~~~~~~li~~~  306 (605)
                      ..+..+..++...|++++|...+..+++.. +.+..+++.+...|.+.|+ +++|...|+++.+   .+...|+.+...|
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            456666777888999999999999999876 5678899999999999997 9999999999874   4667899999999


Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhh-cCCHH
Q 039695          307 AKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGR-TGRLD  384 (605)
Q Consensus       307 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~-~g~~~  384 (605)
                      ...|++++|+..|+++++... -+...|..+..++...|++++|+..++.+++   +.|+ ...|+.+..+|.+ .|..+
T Consensus       177 ~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~---l~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCcch
Confidence            999999999999999998532 2677888999999999999999999999974   4565 8889999999999 67657


Q ss_pred             HH-----HHHHHhC-CCCCCchhhHHHHHHHHHHHcC--ChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC-------
Q 039695          385 EA-----YKLAKSI-QVDPDGGPLLWGTLLSASRLHG--RVDIAVEASNQLIESNQQVANAYVTLSNTYALAG-------  449 (605)
Q Consensus       385 ~A-----~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g-------  449 (605)
                      +|     ++.+++. ...|+ +...|..+...+...|  ++++|++.+.++ +.+|+++.++..|+.+|.+.|       
T Consensus       253 eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            77     4666653 34554 3779999999999888  689999999998 889999999999999999975       


Q ss_pred             --ChhHHHHHHHHH-HhCC
Q 039695          450 --EWENVHSLRSEM-KRTG  465 (605)
Q Consensus       450 --~~~~a~~~~~~m-~~~~  465 (605)
                        ..++|.++++++ .+.+
T Consensus       331 ~~~~~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKD  349 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHhC
Confidence              358999999998 5543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.38  E-value=2.2e-12  Score=133.98  Aligned_cols=209  Identities=8%  Similarity=-0.015  Sum_probs=166.8

Q ss_pred             hhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCH-HHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          247 VSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSV-NYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEM  322 (605)
Q Consensus       247 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~-~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m  322 (605)
                      +.+.+.+....+.. +.+...+..+...|...|++ ++|.+.|++..+   .+...|..+...|.+.|++++|+..|++.
T Consensus        85 ~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  163 (474)
T 4abn_A           85 EKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGA  163 (474)
T ss_dssp             HHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344444333222 34566667777777777777 777777776642   34567888888889999999999999998


Q ss_pred             HHcCCCCCHHHHHHHHHHHhcc---------CcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhc--------CCHH
Q 039695          323 ISRGIKPNDVTFVGVLHACSHS---------GLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRT--------GRLD  384 (605)
Q Consensus       323 ~~~g~~pd~~t~~~ll~a~~~~---------g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~--------g~~~  384 (605)
                      .+.  .|+...+..+..++...         |++++|.+.|++..+   +.|+ ...|..+..+|...        |+++
T Consensus       164 l~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          164 LTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQ---MDVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             Hhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            874  57778888888899998         999999999998864   3554 88889999999988        9999


Q ss_pred             HHHHHHHhCC-CCCC--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          385 EAYKLAKSIQ-VDPD--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       385 ~A~~~~~~m~-~~p~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      +|++.|++.. ..|.  .++..|..+..++...|++++|...++++++++|+++.++..+..++...|++++|.+.+.++
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            9999998854 3451  238899999999999999999999999999999999999999999999999999998765443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.35  E-value=1.2e-10  Score=113.67  Aligned_cols=220  Identities=9%  Similarity=0.048  Sum_probs=136.8

Q ss_pred             hHHHHHHHHHHHcCCCCCChhHHHhHHHhhc-------ccCch-------hhHHHHHHHHHHhCCCCcHhHHHHHHHHHH
Q 039695          211 HEALEMFREFNYQSRDRPNQHMLASVINACA-------SLGRL-------VSGKVAHGVVVRSGCEFNDVVASALVDMYA  276 (605)
Q Consensus       211 ~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~-------~~~~~-------~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  276 (605)
                      ++|+..|++.....  +-+...|......+.       ..|++       ++|..+++..++.-.+.+...+..++..+.
T Consensus        33 ~~a~~~~~~al~~~--p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL--GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            45556666655432  233444444444333       23554       666666666665322345556777777777


Q ss_pred             hcCCHHHHHHHHhccCC--CC-cc-hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH-hccCcHHHHH
Q 039695          277 KCGSVNYSDKVFNRISN--PS-VV-TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHAC-SHSGLVDEGI  351 (605)
Q Consensus       277 ~~g~~~~A~~~~~~~~~--~~-~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~-~~~g~~~~a~  351 (605)
                      +.|++++|.++|++..+  |+ .. .|..+...+.+.|+.++|..+|++..+.. +++...|....... ...|++++|.
T Consensus       111 ~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHH
Confidence            77777777777777653  32 22 67777777777777888888887777642 22333443333222 2357788888


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCC----CCCchhhHHHHHHHHHHHcCChHHHHHHHHHH
Q 039695          352 QHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQV----DPDGGPLLWGTLLSASRLHGRVDIAVEASNQL  427 (605)
Q Consensus       352 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  427 (605)
                      .+|+...+..  +-+...|..++..+.+.|++++|..+|++...    .|+.....|..++......|+.+.|..+++++
T Consensus       190 ~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          190 KIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8887776442  12366777777777777888888887776432    33223557777777777788888888888888


Q ss_pred             HhcCCCCC
Q 039695          428 IESNQQVA  435 (605)
Q Consensus       428 ~~~~p~~~  435 (605)
                      ++..|++.
T Consensus       268 ~~~~p~~~  275 (308)
T 2ond_A          268 FTAFREEY  275 (308)
T ss_dssp             HHHTTTTT
T ss_pred             HHHccccc
Confidence            87777654

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.33  E-value=4.1e-11  Score=117.85  Aligned_cols=135  Identities=13%  Similarity=0.021  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc----HHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISR----GIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD----AKH  369 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~  369 (605)
                      +..+...|...|++++|...+++..+.    +..+ ...++..+...+...|++++|...++.......-.++    ...
T Consensus       186 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  265 (338)
T 3ro2_A          186 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS  265 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHH
Confidence            333444444444455555444444321    1000 1224555556666666666666666655432111111    456


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC------CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQ------VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      +..+...|...|++++|...+++..      ..+.....++..+...+...|++++|...+++++++.+.
T Consensus       266 ~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          266 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            6667777777788777777776532      111111346777888888899999999999888887654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.33  E-value=1.8e-11  Score=124.73  Aligned_cols=276  Identities=12%  Similarity=-0.005  Sum_probs=184.1

Q ss_pred             hhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCch----hHHHHHHHHHHhCCCHHHHHHHHhhcCC---------CChh
Q 039695          129 FTFATVIKACSMLADLITGKQIHTHIETFGFQYNL----VVCSSLVDMYGKCNDVDGARRVFDLMGC---------RNVV  195 (605)
Q Consensus       129 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~----~~~~~Li~~y~~~g~~~~A~~~~~~m~~---------~~~~  195 (605)
                      ..+..+...+...|++++|...++.+++.+. .+.    .++..+...|...|++++|...|++...         ....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            3455566678899999999999999999752 233    4788899999999999999999887632         2345


Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCC---CCC-ChhHHHhHHHhhcccCc----------hhhHHHHHHHHHHhCC
Q 039695          196 SWTSIIVAHAQNAQGHEALEMFREFNYQSR---DRP-NQHMLASVINACASLGR----------LVSGKVAHGVVVRSGC  261 (605)
Q Consensus       196 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~~p-~~~t~~~ll~a~~~~~~----------~~~a~~~~~~~~~~g~  261 (605)
                      +|..+...|...|++++|+..|.+......   ..| ...++..+...+...|+          .+.+...         
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~---------  198 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEA---------  198 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHH---------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHH---------
Confidence            677888889999999999999888764310   001 12233333444444444          0000000         


Q ss_pred             CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---------CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCC-
Q 039695          262 EFNDVVASALVDMYAKCGSVNYSDKVFNRISN---------PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGI-KPN-  330 (605)
Q Consensus       262 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~pd-  330 (605)
                                         +++|.+.|++..+         ....+|..+...|...|++++|+..|++..+... .++ 
T Consensus       199 -------------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  259 (411)
T 4a1s_A          199 -------------------LTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDR  259 (411)
T ss_dssp             -------------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             -------------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCc
Confidence                               4444444433321         1123566666777777777777777777654210 011 


Q ss_pred             ---HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC----cHHHHHHHHHHHhhcCCHHHHHHHHHhCC------CCC
Q 039695          331 ---DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP----DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ------VDP  397 (605)
Q Consensus       331 ---~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~------~~p  397 (605)
                         ..++..+...+...|++++|...+++......-..    ....+..+...|.+.|++++|.+.+++..      ..+
T Consensus       260 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  339 (411)
T 4a1s_A          260 AAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDR  339 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCh
Confidence               23677777888888999999888887754321111    15677888889999999999999887643      011


Q ss_pred             CchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          398 DGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       398 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      .....++..+...+...|++++|...+++++++.+.
T Consensus       340 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  375 (411)
T 4a1s_A          340 IGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXX  375 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhh
Confidence            112347888999999999999999999999987653

>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=99.30  E-value=2e-08  Score=107.25  Aligned_cols=215  Identities=9%  Similarity=0.001  Sum_probs=104.3

Q ss_pred             HHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHH-HHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC
Q 039695          214 LEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGK-VAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS  292 (605)
Q Consensus       214 ~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~-~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~  292 (605)
                      ..+|++....  .+-+...|...+.-+...|+.+.|. .+++..+.. ++.+..++-.++...-+.|+++.|+++|+++.
T Consensus       329 ~~~Ye~aL~~--~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          329 TYVYMQAAQH--VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHH--TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3444444433  2223444444444444455555554 666555543 24445555555555666666666666665543


Q ss_pred             C-------------CC------------cchHHHHHHHHHHcCChhHHHHHHHHHHHc-C-CCCCHHHHHHHHHHHhccC
Q 039695          293 N-------------PS------------VVTYTSMIVGAAKYGLGRFSLDLFNEMISR-G-IKPNDVTFVGVLHACSHSG  345 (605)
Q Consensus       293 ~-------------~~------------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g-~~pd~~t~~~ll~a~~~~g  345 (605)
                      +             |+            ...|-..+....+.|..+.|..+|.+..+. + ..+......+.+.-. ..+
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~-~~~  484 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYH-ISK  484 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHT-TTS
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH-hCC
Confidence            2             11            123555555555555566666666665543 1 111112211222211 123


Q ss_pred             cHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCC--CchhhHHHHHHHHHHHcCChHHHHH
Q 039695          346 LVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDP--DGGPLLWGTLLSASRLHGRVDIAVE  422 (605)
Q Consensus       346 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p--~~~~~~~~~ll~~~~~~g~~~~a~~  422 (605)
                      +.+.|..+|+..++.+.  -+...+...++.....|+.+.|..+|++.. ..|  +.....|...+.--..+|+.+.+..
T Consensus       485 d~e~Ar~ife~~Lk~~p--~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          485 DTKTACKVLELGLKYFA--TDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             CCHHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CHHHHHHHHHHHHHHCC--CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            35666666665554432  123344455555555566666666665532 112  1123456666665566666666666


Q ss_pred             HHHHHHhcCCCC
Q 039695          423 ASNQLIESNQQV  434 (605)
Q Consensus       423 ~~~~~~~~~p~~  434 (605)
                      +.+++.+..|++
T Consensus       563 v~~R~~~~~P~~  574 (679)
T 4e6h_A          563 LEKRFFEKFPEV  574 (679)
T ss_dssp             HHHHHHHHSTTC
T ss_pred             HHHHHHHhCCCC
Confidence            666666666554

>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=99.29  E-value=1e-08  Score=109.51  Aligned_cols=415  Identities=9%  Similarity=-0.010  Sum_probs=278.7

Q ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHcCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCC---hhHHHHHHHHHHhC
Q 039695           49 VHSEILKSGFLSNTFTLNHLINCYVRLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQ---PQIALLLFQKMLGN  122 (605)
Q Consensus        49 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~  122 (605)
                      .++..+... +-|...|..++..+.+.+.++.+..+|+++..   .+...|..-+..-.+.|+   ++.+..+|++.+..
T Consensus        54 ~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~  132 (679)
T 4e6h_A           54 KLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSK  132 (679)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCS
T ss_pred             HHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHh
Confidence            344444444 56899999999999999999999999998843   466778888888888888   99999999999886


Q ss_pred             C-CCCChhhHHHHHHHHhccCCh--------HHHHHHHHHHHHh-CC-CCc-hhHHHHHHHHHHh---------CCCHHH
Q 039695          123 L-VWPNEFTFATVIKACSMLADL--------ITGKQIHTHIETF-GF-QYN-LVVCSSLVDMYGK---------CNDVDG  181 (605)
Q Consensus       123 g-~~pd~~t~~~ll~a~~~~~~~--------~~a~~~~~~~~~~-g~-~~~-~~~~~~Li~~y~~---------~g~~~~  181 (605)
                      . ..|+...|..-+.-....++.        +...++|+.++.. |. .++ ...|...+.....         .++++.
T Consensus       133 ~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~  212 (679)
T 4e6h_A          133 ELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQY  212 (679)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHH
Confidence            4 246777776666544444433        3455788877654 65 453 4678887776543         345788


Q ss_pred             HHHHHhhcCC-CC---hhhHHH---HHHHH----------HHcCChhHHHHHHHHHHHcC-CCC---CC-----------
Q 039695          182 ARRVFDLMGC-RN---VVSWTS---IIVAH----------AQNAQGHEALEMFREFNYQS-RDR---PN-----------  229 (605)
Q Consensus       182 A~~~~~~m~~-~~---~~~~~~---li~~~----------~~~g~~~~A~~~~~~m~~~~-~~~---p~-----------  229 (605)
                      +.++|++... |.   ...|..   +...+          -....++.|...+.++.... .+.   |.           
T Consensus       213 ~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p  292 (679)
T 4e6h_A          213 IRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLP  292 (679)
T ss_dssp             HHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSC
T ss_pred             HHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCC
Confidence            9999998765 31   123322   22111          00122334445554432210 010   10           


Q ss_pred             ------h---hHHHhHHHhhcccC-------chhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHH-HHHhccC
Q 039695          230 ------Q---HMLASVINACASLG-------RLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSD-KVFNRIS  292 (605)
Q Consensus       230 ------~---~t~~~ll~a~~~~~-------~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~-~~~~~~~  292 (605)
                            .   ..|...+.---..+       ..+....+++..+..- +.+..+|-..+..+...|+.++|. ++|++..
T Consensus       293 ~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi  371 (679)
T 4e6h_A          293 KPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQ  371 (679)
T ss_dssp             CTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence                  0   11222222111111       1223455677777653 557788888888888899999996 9998876


Q ss_pred             C--C-CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCC---------CCC------------HHHHHHHHHHHhccCcHH
Q 039695          293 N--P-SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGI---------KPN------------DVTFVGVLHACSHSGLVD  348 (605)
Q Consensus       293 ~--~-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~---------~pd------------~~t~~~ll~a~~~~g~~~  348 (605)
                      .  | +...|-..+...-+.|+.++|.++|+++.....         .|+            ...|...+....+.|..+
T Consensus       372 ~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~  451 (679)
T 4e6h_A          372 QCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLA  451 (679)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHH
T ss_pred             HhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHH
Confidence            3  3 445677788888899999999999999886410         132            235777777777889999


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcC-CHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHH
Q 039695          349 EGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTG-RLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQ  426 (605)
Q Consensus       349 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  426 (605)
                      .|..+|....+..+ .+....|...+.+-.+.| +.+.|.++|+... .-|+ ++..|...+......|+.+.|..+|++
T Consensus       452 ~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~-~~~~w~~y~~fe~~~~~~~~AR~lfer  529 (679)
T 4e6h_A          452 ASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFAT-DGEYINKYLDFLIYVNEESQVKSLFES  529 (679)
T ss_dssp             HHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999865411 122344544444444554 5899999998743 2232 267888889888899999999999999


Q ss_pred             HHhcCCC---CCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          427 LIESNQQ---VANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       427 ~~~~~p~---~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      +++..|+   ....|...+..-.+.|+.+.+.++.+++.+.-..
T Consensus       530 al~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          530 SIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             HTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            9998873   3457888888888999999999999999887653

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.29  E-value=4.2e-11  Score=107.07  Aligned_cols=167  Identities=13%  Similarity=0.086  Sum_probs=140.8

Q ss_pred             cHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 039695          264 NDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHA  340 (605)
Q Consensus       264 ~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a  340 (605)
                      +..+|..|...|.+.|++++|.+.|++..+   .+..+|..+...|.+.|++++|+..+.+..... +-+...+..+...
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            567888899999999999999999998763   456788889999999999999999999988753 2345667777788


Q ss_pred             HhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChH
Q 039695          341 CSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       341 ~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      +...++++.+...+.....   +.|+ ...+..+...|.+.|++++|++.|++.. ..|+ ++.+|..+..++...|+++
T Consensus        83 ~~~~~~~~~a~~~~~~a~~---~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIA---LNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHH---hCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHH
Confidence            8889999999999998864   3454 7888899999999999999999998753 4454 3779999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCC
Q 039695          419 IAVEASNQLIESNQQVA  435 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~~  435 (605)
                      +|+..|+++++.+|+++
T Consensus       159 ~A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          159 EAVKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHHhCCccCH
Confidence            99999999999998753

>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=99.28  E-value=4.2e-11  Score=129.46  Aligned_cols=162  Identities=14%  Similarity=0.223  Sum_probs=137.5

Q ss_pred             cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHH
Q 039695          296 VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCV  373 (605)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~l  373 (605)
                      ..+|+.|...|.+.|++++|++.|++..+.  .| +..++..+..++.+.|++++|++.|++.++   +.|+ ...|..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~---l~P~~~~a~~nL   83 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR---ISPTFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHH
Confidence            356777788888888888888888888774  44 467788888888899999999999988863   4676 7888999


Q ss_pred             HHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChh
Q 039695          374 VDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE  452 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~  452 (605)
                      ..+|.+.|++++|++.|++. ...|+ +...|..+..++...|++++|+..|+++++++|+++.+|..|+.+|...|+|+
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            99999999999999999874 34554 37799999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 039695          453 NVHSLRSEMKR  463 (605)
Q Consensus       453 ~a~~~~~~m~~  463 (605)
                      +|.+.+++..+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998888754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.28  E-value=8.1e-11  Score=114.56  Aligned_cols=240  Identities=13%  Similarity=0.079  Sum_probs=159.0

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHH
Q 039695          195 VSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDM  274 (605)
Q Consensus       195 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  274 (605)
                      .+|..+...|...|++++|+..|+++....                             ........+....++..+...
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-----------------------------~~~~~~~~~~~~~~~~~la~~   78 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDL-----------------------------EKTSGHDHPDVATMLNILALV   78 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-----------------------------HHHHCSSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-----------------------------HHHcCCCCHHHHHHHHHHHHH
Confidence            455666666666666666666666654310                             000000123345567778888


Q ss_pred             HHhcCCHHHHHHHHhccCC-------C----CcchHHHHHHHHHHcCChhHHHHHHHHHHHc------CCCC-CHHHHHH
Q 039695          275 YAKCGSVNYSDKVFNRISN-------P----SVVTYTSMIVGAAKYGLGRFSLDLFNEMISR------GIKP-NDVTFVG  336 (605)
Q Consensus       275 y~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~~p-d~~t~~~  336 (605)
                      |...|++++|...|++..+       +    ...+|..+...|...|++++|...|++..+.      +..| ....+..
T Consensus        79 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~  158 (311)
T 3nf1_A           79 YRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNN  158 (311)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHH
Confidence            8889999988888877642       1    2356888889999999999999999998864      2233 3456778


Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhc-----CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCC----------CCCc-
Q 039695          337 VLHACSHSGLVDEGIQHLDSMYRKY-----GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQV----------DPDG-  399 (605)
Q Consensus       337 ll~a~~~~g~~~~a~~~~~~m~~~~-----~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~----------~p~~-  399 (605)
                      +...+...|++++|.++++.+....     +..|. ...+..+...|.+.|++++|.+.++++..          .+.. 
T Consensus       159 la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  238 (311)
T 3nf1_A          159 LALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENK  238 (311)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------C
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchH
Confidence            8888999999999999999886431     11343 66788899999999999999999987531          1110 


Q ss_pred             ----hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          400 ----GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       400 ----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                          ....+..+...+...+.+..+...+++.....|..+.++..++.+|.+.|++++|.+.+++..+
T Consensus       239 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          239 PIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             CHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                0112233334445566677777788888888888888999999999999999999999998765

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.26  E-value=1.4e-10  Score=116.96  Aligned_cols=91  Identities=9%  Similarity=0.020  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccCC-----CCc----chHHHHHHHHHHcCChhHHHHHHHHHHHc----CC-CCCHH
Q 039695          267 VASALVDMYAKCGSVNYSDKVFNRISN-----PSV----VTYTSMIVGAAKYGLGRFSLDLFNEMISR----GI-KPNDV  332 (605)
Q Consensus       267 ~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~-~pd~~  332 (605)
                      +++.+...|...|++++|...|++..+     ++.    .+++.+...|...|++++|+..|++..+.    +. +....
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            444445555555555555555544331     110    23444455555555555555555544431    12 11233


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      ++..+...+...|++++|...+++.
T Consensus       266 ~~~~l~~~~~~~g~~~~A~~~~~~a  290 (383)
T 3ulq_A          266 AYFLITQIHYKLGKIDKAHEYHSKG  290 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            4444555555555555555555544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.26  E-value=1.6e-11  Score=119.65  Aligned_cols=243  Identities=10%  Similarity=-0.004  Sum_probs=142.0

Q ss_pred             CCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--------C---ChhhHHHHHHHHHHcCChhHHHHHHHHHHHc-----
Q 039695          160 QYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--------R---NVVSWTSIIVAHAQNAQGHEALEMFREFNYQ-----  223 (605)
Q Consensus       160 ~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--------~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----  223 (605)
                      +.+..++..+...|...|++++|...|+++..        .   ...+|..+...|...|++++|+..|++....     
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            33467788999999999999999999988743        1   2356778888889999999999999887653     


Q ss_pred             -CCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHh------CC-CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCC
Q 039695          224 -SRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRS------GC-EFNDVVASALVDMYAKCGSVNYSDKVFNRISNPS  295 (605)
Q Consensus       224 -~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~------g~-~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~  295 (605)
                       +.......++..+...+...|++++|...+..+.+.      +. +...                              
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~------------------------------  153 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVA------------------------------  153 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHH------------------------------
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHH------------------------------
Confidence             201112334455555555666666666665555442      11 1112                              


Q ss_pred             cchHHHHHHHHHHcCChhHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhc------C
Q 039695          296 VVTYTSMIVGAAKYGLGRFSLDLFNEMISR------GIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKY------G  362 (605)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~------~  362 (605)
                       ..|..+...|...|++++|+.+|++....      +..|+ ..++..+...+...|++++|...++.+....      .
T Consensus       154 -~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  232 (311)
T 3nf1_A          154 -KQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGS  232 (311)
T ss_dssp             -HHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC-
T ss_pred             -HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC
Confidence             23444455555555555555555555442      11222 2355566666666777777777766664321      1


Q ss_pred             CCC-------cHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          363 IIP-------DAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       363 ~~p-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      ..+       ....+..+...+...+.+.+|...++...........+|..+..++...|++++|...+++++++.|.
T Consensus       233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          233 VDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             -----CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             CCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            111       12222333344445566666666666654333334668999999999999999999999999988764

>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=99.23  E-value=1.6e-10  Score=102.83  Aligned_cols=132  Identities=16%  Similarity=0.078  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          331 DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       331 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      ..++..+...+...|++++|...++.+.+.  .+.+...+..+...+...|++++|.+.++++. ..|+ +...|..+..
T Consensus        42 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~  118 (186)
T 3as5_A           42 VDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPI-NFNVRFRLGV  118 (186)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcH-hHHHHHHHHH
Confidence            334444444455555555555555554322  11234555556666666666666666665532 1222 2667777777


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .+...|++++|...++++++..|.++.++..++.+|...|++++|.+.+++..+..
T Consensus       119 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  174 (186)
T 3as5_A          119 ALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFKKANELD  174 (186)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            78888888888888888888888877788888888888888888888888776543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.22  E-value=1.3e-09  Score=106.28  Aligned_cols=178  Identities=8%  Similarity=0.035  Sum_probs=92.4

Q ss_pred             hHHHHHHHHHHhCCCCCChhhHHHHHHHHh-------ccCCh-------HHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 039695          110 QIALLLFQKMLGNLVWPNEFTFATVIKACS-------MLADL-------ITGKQIHTHIETFGFQYNLVVCSSLVDMYGK  175 (605)
Q Consensus       110 ~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~-------~~~~~-------~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~  175 (605)
                      ++|+.+|++..... +-+...|......+.       ..|++       ++|..+++.+++.-.+.+...|..++..+.+
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            45556666665532 113334544444443       23554       6677777776662113345566777777777


Q ss_pred             CCCHHHHHHHHhhcCC--C-Chh-hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhc-ccCchhhHH
Q 039695          176 CNDVDGARRVFDLMGC--R-NVV-SWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACA-SLGRLVSGK  250 (605)
Q Consensus       176 ~g~~~~A~~~~~~m~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~-~~~~~~~a~  250 (605)
                      .|++++|.++|++...  | +.. .|..+...+.+.|++++|..+|++..+..  +++...|........ ..|+.+.|.
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--RTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST--TCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHcCCHHHHH
Confidence            7777777777776543  2 232 67777777777777777777777766543  222223322211111 135555555


Q ss_pred             HHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhcc
Q 039695          251 VAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRI  291 (605)
Q Consensus       251 ~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~  291 (605)
                      .+++..++.. +.+...+..++..+.+.|++++|+.+|++.
T Consensus       190 ~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~a  229 (308)
T 2ond_A          190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERV  229 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            5555554432 223444444444444444444444444433

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.21  E-value=1.6e-09  Score=109.22  Aligned_cols=229  Identities=7%  Similarity=-0.098  Sum_probs=133.8

Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCC-----C----ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCC-----hhHHH
Q 039695          169 LVDMYGKCNDVDGARRVFDLMGC-----R----NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPN-----QHMLA  234 (605)
Q Consensus       169 Li~~y~~~g~~~~A~~~~~~m~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-----~~t~~  234 (605)
                      ....+...|++++|...|++...     +    ...+|..+...|...|++++|+..+.+........++     ..++.
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            44455666666666666665532     1    1245666666666677777777666665442101111     23455


Q ss_pred             hHHHhhcccCchhhHHHHHHHHHHh----CCC-CcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-----CC----cchHH
Q 039695          235 SVINACASLGRLVSGKVAHGVVVRS----GCE-FNDVVASALVDMYAKCGSVNYSDKVFNRISN-----PS----VVTYT  300 (605)
Q Consensus       235 ~ll~a~~~~~~~~~a~~~~~~~~~~----g~~-~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~  300 (605)
                      .+...+...|++++|...+....+.    +.. ....++..+...|...|++++|.+.|++..+     .+    ..++.
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            5666666777777777777666543    111 1124677788888888888888888877653     22    24577


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhc
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRT  380 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~  380 (605)
                      .+...|.+.|++++|...+++.......               .++                 ......+..+...|...
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~---------------~~~-----------------~~~~~~~~~l~~~~~~~  316 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQK---------------AGD-----------------VIYLSEFEFLKSLYLSG  316 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHH---------------HTC-----------------HHHHHHHHHHHHHHTSS
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHH---------------cCC-----------------HHHHHHHHHHHHHHhCC
Confidence            7888899999999999999886642000               000                 00011123344444555


Q ss_pred             CC---HHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 039695          381 GR---LDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIES  430 (605)
Q Consensus       381 g~---~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  430 (605)
                      |+   +++|+.++++....|+ ....+..+...+...|+++.|...++++++.
T Consensus       317 ~~~~~~~~al~~~~~~~~~~~-~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          317 PDEEAIQGFFDFLESKMLYAD-LEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHCcCHHH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            55   5556666665532222 1335556666667777777777777766654

>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=99.17  E-value=4.4e-10  Score=104.24  Aligned_cols=164  Identities=10%  Similarity=0.017  Sum_probs=78.5

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHH
Q 039695          298 TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDM  376 (605)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~  376 (605)
                      .|......+...|++++|+..|++..+...+++...+..+..++...|++++|...++...   ...|+ ...+..+...
T Consensus         9 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~l~~~   85 (228)
T 4i17_A            9 QLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAI---KKNYNLANAYIGKSAA   85 (228)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH---HTTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHH---HhCcchHHHHHHHHHH
Confidence            3334444444444444444444444443222344444444444444455555555444443   22332 3444444444


Q ss_pred             HhhcCCHHHHHHHHHhCC-CCCCchh-------hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--CCchHHHHHHHHH
Q 039695          377 LGRTGRLDEAYKLAKSIQ-VDPDGGP-------LLWGTLLSASRLHGRVDIAVEASNQLIESNQQ--VANAYVTLSNTYA  446 (605)
Q Consensus       377 ~~~~g~~~~A~~~~~~m~-~~p~~~~-------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~y~  446 (605)
                      |...|++++|++.+++.. ..|+. .       ..|..+...+...|++++|+..++++++.+|+  ++.++..++.+|.
T Consensus        86 ~~~~~~~~~A~~~~~~al~~~p~~-~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKAVPGN-ATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTC-HHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHCCCc-HHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence            555555555555444421 12220 2       23444444444555555555555555555554  4444555555554


Q ss_pred             hcCC---------------------------hhHHHHHHHHHHhCC
Q 039695          447 LAGE---------------------------WENVHSLRSEMKRTG  465 (605)
Q Consensus       447 ~~g~---------------------------~~~a~~~~~~m~~~~  465 (605)
                      ..|+                           +++|...+++..+..
T Consensus       165 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          165 NNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence            4444                           488998888887754

>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=99.17  E-value=1.5e-09  Score=100.60  Aligned_cols=204  Identities=8%  Similarity=0.014  Sum_probs=142.0

Q ss_pred             CChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--C-CcchHHHHHH
Q 039695          228 PNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--P-SVVTYTSMIV  304 (605)
Q Consensus       228 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~  304 (605)
                      .|+..+......+...|++++|...+...++...+++...+..+...|.+.|++++|.+.|++..+  | +...|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            456677777778888888888888888888876436666666688888888888888888887753  2 3456777888


Q ss_pred             HHHHcCChhHHHHHHHHHHHcCCCC-CH-------HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc---HHHHHHH
Q 039695          305 GAAKYGLGRFSLDLFNEMISRGIKP-ND-------VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD---AKHYTCV  373 (605)
Q Consensus       305 ~~~~~g~~~~A~~l~~~m~~~g~~p-d~-------~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~l  373 (605)
                      .|...|++++|+..|++..+.  .| +.       ..|..+...+...|++++|...|+...   .+.|+   ...+..+
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~~~l  159 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHAT---DVTSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSSCHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHH---hcCCCcccHHHHHHH
Confidence            888888888888888888774  23 33       346666677777888888888888775   45565   4566677


Q ss_pred             HHHHhhcCCH--HHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          374 VDMLGRTGRL--DEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       374 i~~~~~~g~~--~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...|...|+.  ++|..+    . ..+  ...|..+.  ....+.+++|...++++++++|+++.+...+..+.
T Consensus       160 ~~~~~~~~~~~~~~a~~~----~-~~~--~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          160 GVLFYNNGADVLRKATPL----A-SSN--KEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHHHHHHHGGG----T-TTC--HHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhc----c-cCC--HHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            7777655543  222211    1 112  33343333  23455679999999999999999987766665543

>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=99.17  E-value=9.6e-10  Score=97.69  Aligned_cols=169  Identities=14%  Similarity=0.023  Sum_probs=142.8

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHAC  341 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  341 (605)
                      ...+..+...|...|++++|...|+++.+   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+
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            45667788889999999999999999875   356678888999999999999999999998862 34677888888999


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHH
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIA  420 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a  420 (605)
                      ...|++++|.+.++.+...  .+.+...+..+...+.+.|++++|.+.+++.. ..|+ +...|..+...+...|++++|
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999998654  23457888899999999999999999998853 3333 277899999999999999999


Q ss_pred             HHHHHHHHhcCCCCCch
Q 039695          421 VEASNQLIESNQQVANA  437 (605)
Q Consensus       421 ~~~~~~~~~~~p~~~~~  437 (605)
                      ...++++++..|+++..
T Consensus       164 ~~~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          164 LPHFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHHHCCCGG
T ss_pred             HHHHHHHHHcCCCchhh
Confidence            99999999998877643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.16  E-value=1.5e-08  Score=101.64  Aligned_cols=197  Identities=11%  Similarity=0.010  Sum_probs=133.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCC-------C----CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCC--C--CHH
Q 039695          268 ASALVDMYAKCGSVNYSDKVFNRISN-------P----SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIK--P--NDV  332 (605)
Q Consensus       268 ~~~li~~y~~~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~--p--d~~  332 (605)
                      ...+...|...|++++|...+++..+       +    ....+..+...+...|++++|...+++.......  |  ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            44566667777777777776665532       1    1134555667778888888888888887653221  1  234


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHH----HHHHHHhhcCCHHHHHHHHHhCCC-CCCc---hhhH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYT----CVVDMLGRTGRLDEAYKLAKSIQV-DPDG---GPLL  403 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~----~li~~~~~~g~~~~A~~~~~~m~~-~p~~---~~~~  403 (605)
                      ++..+...+...|++++|...++.......-... .....    ..+..+...|++++|...+++... .|..   ....
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            5667777788889999999998887543221111 11111    233457789999999999988642 2210   1225


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------CchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          404 WGTLLSASRLHGRVDIAVEASNQLIESNQQV------ANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       404 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +..+...+...|++++|...++++++..+..      ..++..++.+|...|+.++|...+++..+.
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            6778888999999999999999988754321      136777889999999999999999887653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.15  E-value=4.1e-10  Score=116.85  Aligned_cols=208  Identities=11%  Similarity=-0.002  Sum_probs=149.7

Q ss_pred             hhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCch-hhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHH
Q 039695          210 GHEALEMFREFNYQSRDRPNQHMLASVINACASLGRL-VSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVF  288 (605)
Q Consensus       210 ~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~  288 (605)
                      .++++..+.+.....  +.+...+..+..++...|++ ++|...+..+++.. +.+...+..+...|.+.|++++|.+.|
T Consensus        84 ~~~al~~l~~~~~~~--~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA--QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHTTC--CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC--chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            445555555544332  33556666666677777777 77777777776654 445667777888888888888888888


Q ss_pred             hccCC--CCcchHHHHHHHHHHc---------CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc--------CcHHH
Q 039695          289 NRISN--PSVVTYTSMIVGAAKY---------GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHS--------GLVDE  349 (605)
Q Consensus       289 ~~~~~--~~~~~~~~li~~~~~~---------g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~--------g~~~~  349 (605)
                      ++..+  |+...|..+...|...         |++++|+..|++..+.. +-+...+..+..++...        |++++
T Consensus       161 ~~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          161 SGALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            77653  5666777777777777         88888888888888752 22467777788888777        88888


Q ss_pred             HHHHHHHHHHhcCCCC----cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHH
Q 039695          350 GIQHLDSMYRKYGIIP----DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEAS  424 (605)
Q Consensus       350 a~~~~~~m~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~  424 (605)
                      |...|+...+   +.|    +...|..+..+|.+.|++++|.+.|++.. ..|+ +...|..+..++...|++++|...+
T Consensus       240 A~~~~~~al~---~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          240 ALSAYAQAEK---VDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHH---HCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHH---hCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9888888864   355    57888888888889999999988888743 3444 2667888888888888887777654


Q ss_pred             H
Q 039695          425 N  425 (605)
Q Consensus       425 ~  425 (605)
                      .
T Consensus       316 ~  316 (474)
T 4abn_A          316 G  316 (474)
T ss_dssp             T
T ss_pred             c
Confidence            3

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.13  E-value=1.6e-08  Score=101.59  Aligned_cols=230  Identities=6%  Similarity=-0.050  Sum_probs=131.9

Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHh
Q 039695          169 LVDMYGKCNDVDGARRVFDLMGC-----RN----VVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINA  239 (605)
Q Consensus       169 Li~~y~~~g~~~~A~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a  239 (605)
                      ....+...|++++|...|++...     ++    ..++..+...|...|++++|+..+.+........++..        
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~--------  178 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYS--------  178 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCH--------
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCch--------
Confidence            33445666777777777665532     11    23555666666777777777766666543210011100        


Q ss_pred             hcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-----CC----cchHHHHHHHHHHcC
Q 039695          240 CASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN-----PS----VVTYTSMIVGAAKYG  310 (605)
Q Consensus       240 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g  310 (605)
                                            .....+++.+...|...|++++|.+.|++..+     ++    ..+++.+...|...|
T Consensus       179 ----------------------~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~  236 (378)
T 3q15_A          179 ----------------------IRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSG  236 (378)
T ss_dssp             ----------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT
T ss_pred             ----------------------hhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC
Confidence                                  00122344445555555555555555544331     11    134555666677777


Q ss_pred             ChhHHHHHHHHHHHc----CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCC--CCc-HHHHHHHHHHHhhcCC-
Q 039695          311 LGRFSLDLFNEMISR----GIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGI--IPD-AKHYTCVVDMLGRTGR-  382 (605)
Q Consensus       311 ~~~~A~~l~~~m~~~----g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~--~p~-~~~~~~li~~~~~~g~-  382 (605)
                      ++++|+..|++....    +.+....++..+...+...|++++|...+++......-  .|. ...+..+...|...|+ 
T Consensus       237 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~  316 (378)
T 3q15_A          237 DDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDE  316 (378)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCH
T ss_pred             CHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcH
Confidence            777777777766551    22223566777778888888888888888877544322  122 4455666666777777 


Q ss_pred             --HHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 039695          383 --LDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       383 --~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                        +++|+..+++....|+ ....+..+...+...|+++.|...++++++
T Consensus       317 ~~~~~al~~~~~~~~~~~-~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          317 RKIHDLLSYFEKKNLHAY-IEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCChhH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence              7778887777543222 133555666777777777777777766654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.12  E-value=1.4e-09  Score=109.36  Aligned_cols=222  Identities=7%  Similarity=0.001  Sum_probs=153.9

Q ss_pred             cccCchhhHHHHHHHHHHhC--CC---CcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-----CC-----cchHHHHHHH
Q 039695          241 ASLGRLVSGKVAHGVVVRSG--CE---FNDVVASALVDMYAKCGSVNYSDKVFNRISN-----PS-----VVTYTSMIVG  305 (605)
Q Consensus       241 ~~~~~~~~a~~~~~~~~~~g--~~---~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~~  305 (605)
                      ...|++++|...+..+.+..  .+   ....++..+...|...|+++.|...+++..+     ++     ..+++.+...
T Consensus       112 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          112 FDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            34455555555555544321  01   1234666777778888888877777766542     12     3467888899


Q ss_pred             HHHcCChhHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC--CCCc-HHHHHHHHHHH
Q 039695          306 AAKYGLGRFSLDLFNEMISR----GIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYG--IIPD-AKHYTCVVDML  377 (605)
Q Consensus       306 ~~~~g~~~~A~~l~~~m~~~----g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~--~~p~-~~~~~~li~~~  377 (605)
                      |...|++++|++.|++..+.    +..+ ...++..+..++...|++++|...+++...-..  ..|. ..++..+...|
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~  271 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTL  271 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHH
Confidence            99999999999999987752    1111 134677888899999999999999998864111  2233 77888899999


Q ss_pred             hhcCCHHHHHHHHHhCC----CCCC-chhhHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 039695          378 GRTGRLDEAYKLAKSIQ----VDPD-GGPLLWGTLLSASRLHGR---VDIAVEASNQLIESNQQVANAYVTLSNTYALAG  449 (605)
Q Consensus       378 ~~~g~~~~A~~~~~~m~----~~p~-~~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  449 (605)
                      .+.|++++|.+.+++..    ..++ .....+..+...+...++   +++|...+++. ...|.....+..++..|.+.|
T Consensus       272 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g  350 (378)
T 3q15_A          272 CKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSC  350 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCC
Confidence            99999999999998742    1111 113355666666777777   77777777662 222334457788999999999


Q ss_pred             ChhHHHHHHHHHHh
Q 039695          450 EWENVHSLRSEMKR  463 (605)
Q Consensus       450 ~~~~a~~~~~~m~~  463 (605)
                      ++++|.+.+++..+
T Consensus       351 ~~~~A~~~~~~al~  364 (378)
T 3q15_A          351 HFEQAAAFYRKVLK  364 (378)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999988754

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.10  E-value=5.2e-08  Score=97.59  Aligned_cols=222  Identities=13%  Similarity=-0.021  Sum_probs=111.0

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCChh----hHHHHHHHHhccCChHHHHHHHHHHHHhCC-CCc----hhHHHHHHHH
Q 039695          102 GYINMGQPQIALLLFQKMLGNLVWPNEF----TFATVIKACSMLADLITGKQIHTHIETFGF-QYN----LVVCSSLVDM  172 (605)
Q Consensus       102 ~~~~~g~~~~a~~~~~~m~~~g~~pd~~----t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~-~~~----~~~~~~Li~~  172 (605)
                      .+...|++++|...+++........+..    ++..+...+...|+++.|.+.+++..+... ..+    ..+++.+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            3445666666666666655543111111    233344455556666666666666554310 011    1224455566


Q ss_pred             HHhCCCHHHHHHHHhhcCC-------C----ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCC-CC--ChhHHHhHHH
Q 039695          173 YGKCNDVDGARRVFDLMGC-------R----NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRD-RP--NQHMLASVIN  238 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-~p--~~~t~~~ll~  238 (605)
                      |...|++++|...+++...       +    ....+..+...+...|++++|...+++....... .+  ...++..+..
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            6666777666666655421       1    1223444555666667777777766665543200 01  1123444444


Q ss_pred             hhcccCchhhHHHHHHHHHHhCCCCc---HhHH---HHHHHHHHhcCCHHHHHHHHhccCCCCc-------chHHHHHHH
Q 039695          239 ACASLGRLVSGKVAHGVVVRSGCEFN---DVVA---SALVDMYAKCGSVNYSDKVFNRISNPSV-------VTYTSMIVG  305 (605)
Q Consensus       239 a~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~---~~li~~y~~~g~~~~A~~~~~~~~~~~~-------~~~~~li~~  305 (605)
                      .+...|++++|...+.......-.++   ....   ..++..+...|+.++|...++....++.       ..+..+...
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~  262 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  262 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHH
Confidence            55555666666666655544211111   1111   1233445566777777777666654221       123444555


Q ss_pred             HHHcCChhHHHHHHHHHH
Q 039695          306 AAKYGLGRFSLDLFNEMI  323 (605)
Q Consensus       306 ~~~~g~~~~A~~l~~~m~  323 (605)
                      +...|++++|...+++..
T Consensus       263 ~~~~g~~~~A~~~l~~a~  280 (373)
T 1hz4_A          263 QILLGEFEPAEIVLEELN  280 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH
Confidence            556666666666665554

>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=99.07  E-value=2.3e-09  Score=102.43  Aligned_cols=220  Identities=15%  Similarity=0.118  Sum_probs=149.1

Q ss_pred             cCchhhHHHHHHHHHHh-------CCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-----------CCcchHHHHHH
Q 039695          243 LGRLVSGKVAHGVVVRS-------GCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN-----------PSVVTYTSMIV  304 (605)
Q Consensus       243 ~~~~~~a~~~~~~~~~~-------g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~  304 (605)
                      .|+++.|...+...++.       ..+....++..+...|...|++++|...|++..+           ....+|..+..
T Consensus        14 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~   93 (283)
T 3edt_B           14 LVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAV   93 (283)
T ss_dssp             CSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHH
Confidence            34455555554444431       2233456777888888888888888888876642           12357888889


Q ss_pred             HHHHcCChhHHHHHHHHHHHc------CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhc-----CCCCc-HHHHH
Q 039695          305 GAAKYGLGRFSLDLFNEMISR------GIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKY-----GIIPD-AKHYT  371 (605)
Q Consensus       305 ~~~~~g~~~~A~~l~~~m~~~------g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~-----~~~p~-~~~~~  371 (605)
                      .|...|++++|+..|++....      .-.| ...++..+...+...|++++|..++++.....     +-.|+ ...+.
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  173 (283)
T 3edt_B           94 LYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKN  173 (283)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHH
Confidence            999999999999999998764      1123 35677888889999999999999999886431     11343 67788


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCC----------CCCCchhhHHHHHHHHHHHcCChHHH------HHHHHHHHhcCCCCC
Q 039695          372 CVVDMLGRTGRLDEAYKLAKSIQ----------VDPDGGPLLWGTLLSASRLHGRVDIA------VEASNQLIESNQQVA  435 (605)
Q Consensus       372 ~li~~~~~~g~~~~A~~~~~~m~----------~~p~~~~~~~~~ll~~~~~~g~~~~a------~~~~~~~~~~~p~~~  435 (605)
                      .+...|.+.|++++|.+.+++..          ..+. ....|..+.......+....+      ...++......|...
T Consensus       174 ~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  252 (283)
T 3edt_B          174 NLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGD-NKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVN  252 (283)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSS-CCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchh-HHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHH
Confidence            89999999999999999997643          1122 133555555444443333222      222222222334555


Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          436 NAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .++..++.+|...|++++|.+++++..+
T Consensus       253 ~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          253 TTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6888999999999999999999998765

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.05  E-value=2.8e-09  Score=103.03  Aligned_cols=189  Identities=10%  Similarity=-0.001  Sum_probs=126.2

Q ss_pred             HHHHhcCCHHHHHHHHhccCC-----CC----cchHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCC-CHHHHHHHH
Q 039695          273 DMYAKCGSVNYSDKVFNRISN-----PS----VVTYTSMIVGAAKYGLGRFSLDLFNEMISR----GIKP-NDVTFVGVL  338 (605)
Q Consensus       273 ~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-d~~t~~~ll  338 (605)
                      ..|...|++++|...|.+..+     .+    ..+|+.+...|.+.|++++|+..|++..+.    |-.+ -..++..+.
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345566666666666655432     11    346777777788888888888888776652    1111 134677888


Q ss_pred             HHHhcc-CcHHHHHHHHHHHHHhcCCCCc----HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchh------hHHHH
Q 039695          339 HACSHS-GLVDEGIQHLDSMYRKYGIIPD----AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGP------LLWGT  406 (605)
Q Consensus       339 ~a~~~~-g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~------~~~~~  406 (605)
                      ..|... |++++|...|++..+-..-..+    ..++..+...|.+.|++++|++.|++.. ..|+...      ..|..
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  204 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLK  204 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHH
Confidence            888886 9999999999988643211111    4568889999999999999999998743 2232111      16778


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCch-----HHHHHHHHH--hcCChhHHHHHHHHH
Q 039695          407 LLSASRLHGRVDIAVEASNQLIESNQQVANA-----YVTLSNTYA--LAGEWENVHSLRSEM  461 (605)
Q Consensus       407 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~y~--~~g~~~~a~~~~~~m  461 (605)
                      +..++...|+++.|...+++.++++|.....     +..++..|.  ..+++++|.+.++++
T Consensus       205 lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          205 KGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence            8889999999999999999999999876543     344566664  456787887777544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.05  E-value=8.1e-09  Score=97.87  Aligned_cols=202  Identities=7%  Similarity=-0.026  Sum_probs=114.6

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC--CC----cchHHHHHHHHHHcCChhHHHHHHHHHHHcCC-CCC-HHHHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN--PS----VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGI-KPN-DVTFVG  336 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~pd-~~t~~~  336 (605)
                      ...+..+...+.+.|++++|...|+.+.+  |+    ...+..+...|.+.|++++|+..|++..+... .|+ ...+..
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            34444455555555555555555555542  22    23444455555555555555555555554311 111 223334


Q ss_pred             HHHHHhc--------cCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHH
Q 039695          337 VLHACSH--------SGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTL  407 (605)
Q Consensus       337 ll~a~~~--------~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~l  407 (605)
                      +..++..        .|++++|...|+.+.+.+   |+ ......+.              .+..+.  +. ....+..+
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~a~~--------------~~~~~~--~~-~~~~~~~l  154 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY---PNHELVDDATQ--------------KIRELR--AK-LARKQYEA  154 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC---TTCTTHHHHHH--------------HHHHHH--HH-HHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHC---cCchhHHHHHH--------------HHHHHH--HH-HHHHHHHH
Confidence            4444444        555555555555554321   22 11111100              000000  00 01224667


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhc----------CChhHHHHHHHHHHhCCCccCCceeE
Q 039695          408 LSASRLHGRVDIAVEASNQLIESNQQVA---NAYVTLSNTYALA----------GEWENVHSLRSEMKRTGIHKEPGCSW  474 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~----------g~~~~a~~~~~~m~~~~~~~~~~~s~  474 (605)
                      ...+...|+++.|+..++++++..|+++   .++..++.+|...          |++++|...++++.+...        
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p--------  226 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP--------  226 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT--------
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC--------
Confidence            8889999999999999999999999854   4788999999877          899999999999987543        


Q ss_pred             EEeCCEEeeeeccccCccchHHHHHHHHHHHHHHH
Q 039695          475 VEIRDQTYAFYAGNALFERGSEVLSLLRELERKMK  509 (605)
Q Consensus       475 ~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~  509 (605)
                                     .++...++...+.++...+.
T Consensus       227 ---------------~~~~~~~a~~~l~~~~~~~~  246 (261)
T 3qky_A          227 ---------------DSPLLRTAEELYTRARQRLT  246 (261)
T ss_dssp             ---------------TCTHHHHHHHHHHHHHHHHH
T ss_pred             ---------------CChHHHHHHHHHHHHHHHHH
Confidence                           23445556666666666654

>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=99.00  E-value=1.8e-09  Score=116.69  Aligned_cols=164  Identities=13%  Similarity=0.126  Sum_probs=140.4

Q ss_pred             CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHH
Q 039695          262 EFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGV  337 (605)
Q Consensus       262 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~l  337 (605)
                      +.+...++.|...|.+.|++++|.+.|++..+   .+..+|+.+...|.+.|++++|+..|++..+.  .| +...|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            34567888899999999999999999998763   44678899999999999999999999999884  44 46788999


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcC
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHG  415 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g  415 (605)
                      ..++...|++++|.+.|++.++   +.|+ ...|..+..+|.+.|++++|++.|++. ...|+ +...|..|..++...|
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~---l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g  159 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQ---INPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVC  159 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcc
Confidence            9999999999999999998863   4676 889999999999999999999999874 34555 3778999999999999


Q ss_pred             ChHHHHHHHHHHHhcC
Q 039695          416 RVDIAVEASNQLIESN  431 (605)
Q Consensus       416 ~~~~a~~~~~~~~~~~  431 (605)
                      ++++|.+.+++++++.
T Consensus       160 ~~~~A~~~~~kal~l~  175 (723)
T 4gyw_A          160 DWTDYDERMKKLVSIV  175 (723)
T ss_dssp             CCTTHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhC
Confidence            9999999999988754

>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=98.97  E-value=2.7e-08  Score=94.85  Aligned_cols=99  Identities=11%  Similarity=0.041  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhc------CCCCc-HHHHHHHHHHHhh------cCCHHHHHHHHHhCCCCCC
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKY------GIIPD-AKHYTCVVDMLGR------TGRLDEAYKLAKSIQVDPD  398 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~------~~~p~-~~~~~~li~~~~~------~g~~~~A~~~~~~m~~~p~  398 (605)
                      .++..+...+...|++++|..++++..+..      ...+. ...+..+...+..      ...+.++...++.....+.
T Consensus       170 ~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  249 (283)
T 3edt_B          170 KTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSP  249 (283)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCH
Confidence            445555566666666666666666554321      11121 2222222222222      2334455555555543322


Q ss_pred             chhhHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 039695          399 GGPLLWGTLLSASRLHGRVDIAVEASNQLIES  430 (605)
Q Consensus       399 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  430 (605)
                      ....+|..+...+...|++++|...++++++.
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            23557888899999999999999999988764

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.95  E-value=5.1e-08  Score=90.05  Aligned_cols=183  Identities=8%  Similarity=-0.041  Sum_probs=108.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCC--CCc----chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCH--HHHHHH
Q 039695          266 VVASALVDMYAKCGSVNYSDKVFNRISN--PSV----VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPND--VTFVGV  337 (605)
Q Consensus       266 ~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~--~t~~~l  337 (605)
                      ..+..+...+.+.|++++|...|+++.+  |+.    ..+..+..+|.+.|++++|+..|++..+.......  ..+..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            3444555666677777777777776653  322    34556666777777777777777777663221111  122223


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHH------------
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLW------------  404 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~------------  404 (605)
                      ..++...+.     ..             ...|..+...+...|++++|...|+++. ..|+. ...+            
T Consensus        85 g~~~~~~~~-----~~-------------~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~-~~a~~a~~~l~~~~~~  145 (225)
T 2yhc_A           85 GLTNMALDD-----SA-------------LQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNS-QYTTDATKRLVFLKDR  145 (225)
T ss_dssp             HHHHHHHHC--------------------------------CCHHHHHHHHHHHHHHTTCTTC-TTHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhh-----hh-------------hhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCC-hhHHHHHHHHHHHHHH
Confidence            333322100     00             0000111112223445555555555432 22321 1122            


Q ss_pred             -----HHHHHHHHHcCChHHHHHHHHHHHhcCCCCC---chHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          405 -----GTLLSASRLHGRVDIAVEASNQLIESNQQVA---NAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       405 -----~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                           ..+...+...|+++.|+..++++++..|+++   .++..++.+|.+.|++++|.+.++.+...+..
T Consensus       146 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          146 LAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence                 3456678899999999999999999999876   46889999999999999999999999887653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.91  E-value=8.5e-08  Score=91.11  Aligned_cols=160  Identities=10%  Similarity=-0.018  Sum_probs=73.6

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-----cHHHHHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-----DAKHYTC  372 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-----~~~~~~~  372 (605)
                      +..+..++...|++++|++++.+-+..|..+ +...+..++..+.+.|+++.|.+.++.|.+   ..|     +..+...
T Consensus       103 ~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~---~~~d~~~~~d~~l~~  179 (310)
T 3mv2_B          103 LYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN---AIEDTVSGDNEMILN  179 (310)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCccccccchHHHHH
Confidence            3344444555555555555555544433211 233444445555555555555555555531   233     1222233


Q ss_pred             HHHH--Hhh--cCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhc----------CCCCCchH
Q 039695          373 VVDM--LGR--TGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIES----------NQQVANAY  438 (605)
Q Consensus       373 li~~--~~~--~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~----------~p~~~~~~  438 (605)
                      |..+  ...  .++.++|..+|+++...++. ..+-..|+.++...|++++|++.++.+.+.          +|+++.++
T Consensus       180 Laea~v~l~~g~~~~q~A~~~f~El~~~~p~-~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~L  258 (310)
T 3mv2_B          180 LAESYIKFATNKETATSNFYYYEELSQTFPT-WKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFL  258 (310)
T ss_dssp             HHHHHHHHHHTCSTTTHHHHHHHHHHTTSCS-HHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHH
T ss_pred             HHHHHHHHHhCCccHHHHHHHHHHHHHhCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHH
Confidence            3322  111  22555555555554322210 112222333555556666666655554443          35555555


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          439 VTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      ..++.++...|+  +|.++++++++.
T Consensus       259 aN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          259 ANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            555555555554  555555555553

>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=98.91  E-value=1.4e-08  Score=84.50  Aligned_cols=125  Identities=21%  Similarity=0.253  Sum_probs=71.5

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcC
Q 039695          337 VLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHG  415 (605)
Q Consensus       337 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g  415 (605)
                      +...+...|++++|..+++.+.+..  +.+...+..+...+...|++++|.+.++++. ..|+ +...|..+...+...|
T Consensus         7 l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~   83 (136)
T 2fo7_A            7 LGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQG   83 (136)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHcC--CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHhc
Confidence            3334444444444444444443210  1123444445555555555555555555432 1121 1456666667777777


Q ss_pred             ChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          416 RVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       416 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +++.|...++++++..|.++.++..++.+|.+.|++++|.+.++++.+.
T Consensus        84 ~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           84 DYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            7777777777777777776667777777777777777777777776554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.90  E-value=1.4e-07  Score=89.63  Aligned_cols=239  Identities=8%  Similarity=-0.015  Sum_probs=159.0

Q ss_pred             HhCCCHHHHHHHHhhcCCCCh-hhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHH
Q 039695          174 GKCNDVDGARRVFDLMGCRNV-VSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVA  252 (605)
Q Consensus       174 ~~~g~~~~A~~~~~~m~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~  252 (605)
                      .-.|.+..++.-...+...+. ..---+.++|...|++....         . -.|....+..+..-+ ..+    +...
T Consensus        24 fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~~---------~-~~~~~~a~~~la~~~-~~~----a~~~   88 (310)
T 3mv2_B           24 YYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQD---------P-TSKLGKVLDLYVQFL-DTK----NIEE   88 (310)
T ss_dssp             HTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCCC---------S-SSTTHHHHHHHHHHH-TTT----CCHH
T ss_pred             HHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccCC---------C-CCHHHHHHHHHHHHh-ccc----HHHH
Confidence            345777776665555533221 12222446677777665310         1 233332333322222 211    5556


Q ss_pred             HHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCC-----CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 039695          253 HGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNP-----SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGI  327 (605)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  327 (605)
                      ++..++.+ +++......+...|...|++++|.+++.+....     +...+-.++..|.+.|+.+.|.+.+++|.+  .
T Consensus        89 l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~--~  165 (310)
T 3mv2_B           89 LENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN--A  165 (310)
T ss_dssp             HHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--H
T ss_pred             HHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--c
Confidence            66665554 344555567888899999999999999987432     345677788899999999999999999987  4


Q ss_pred             CC-----CHHHHHHHHHHHhc--cC--cHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCC---
Q 039695          328 KP-----NDVTFVGVLHACSH--SG--LVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQV---  395 (605)
Q Consensus       328 ~p-----d~~t~~~ll~a~~~--~g--~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---  395 (605)
                      .|     +..+...+..++..  .|  +..+|..+|+++..+   .|+......+..++.+.|++++|.+.++.+..   
T Consensus       166 ~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p  242 (310)
T 3mv2_B          166 IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYY  242 (310)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHH
T ss_pred             CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            66     36666677766332  34  899999999998643   45533434455588999999999999986432   


Q ss_pred             --------CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          396 --------DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       396 --------~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                              .|+ ++.+...++......|+  .|.++++++.+..|+++.
T Consensus       243 ~~~~k~~~~p~-~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~  288 (310)
T 3mv2_B          243 SVEQKENAVLY-KPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAF  288 (310)
T ss_dssp             HTTTCHHHHSS-HHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHH
T ss_pred             cccccccCCCC-CHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChH
Confidence                    243 36777677777777787  889999999999999874

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.90  E-value=1.2e-07  Score=91.48  Aligned_cols=67  Identities=9%  Similarity=-0.038  Sum_probs=32.5

Q ss_pred             HHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCCCC-hhHHHhHHHhhcccCchhhHHHHH
Q 039695          179 VDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQ----SRDRPN-QHMLASVINACASLGRLVSGKVAH  253 (605)
Q Consensus       179 ~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~  253 (605)
                      +++|...|++.           ...|...|++++|++.|.+....    | ..++ ..+|..+..++...|++++|...+
T Consensus        33 ~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~-~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           33 FEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAG-NEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhC-CHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            55555555543           33455566666666666554332    1 1111 234444445555555555555554


Q ss_pred             HHHH
Q 039695          254 GVVV  257 (605)
Q Consensus       254 ~~~~  257 (605)
                      ...+
T Consensus       101 ~~Al  104 (292)
T 1qqe_A          101 ENAI  104 (292)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>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=98.88  E-value=1.4e-09  Score=93.42  Aligned_cols=139  Identities=7%  Similarity=-0.072  Sum_probs=91.2

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCH
Q 039695          306 AAKYGLGRFSLDLFNEMISRGIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRL  383 (605)
Q Consensus       306 ~~~~g~~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~  383 (605)
                      +...|+.++|+..+++....  .|+ ...+..+...|...|++++|.+.|+..++   +.|+ ...|..+..+|.+.|++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN---VQERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCch
Confidence            33445566666666655432  222 23444566666777777777777776653   3454 66777777777777777


Q ss_pred             HHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHH-HHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          384 DEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEA-SNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       384 ~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~-~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      ++|+..|++. ...|+ ++..|..+...+...|+.++|.+. ++++++++|+++.+|.....++...|+
T Consensus        82 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            7777777663 23443 266778888888888887665554 578888888888888877777776664

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.87  E-value=4.5e-08  Score=92.64  Aligned_cols=203  Identities=14%  Similarity=0.029  Sum_probs=145.0

Q ss_pred             CChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCc---HhHHHHHHHHHHhcCCHHHHHHHHhccCC--CC----cch
Q 039695          228 PNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFN---DVVASALVDMYAKCGSVNYSDKVFNRISN--PS----VVT  298 (605)
Q Consensus       228 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~----~~~  298 (605)
                      .+...+-.....+...|++++|...+..+++.. +.+   ...+..+...|.+.|++++|...|++..+  |+    ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            456667777788889999999999999999865 223   67888899999999999999999998864  32    235


Q ss_pred             HHHHHHHHHH--------cCChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHH
Q 039695          299 YTSMIVGAAK--------YGLGRFSLDLFNEMISRGIKPND-VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKH  369 (605)
Q Consensus       299 ~~~li~~~~~--------~g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~  369 (605)
                      +..+..++..        .|++++|+..|++....  .|+. .....              ...+..+...     -...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a--------------~~~~~~~~~~-----~~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDA--------------TQKIRELRAK-----LARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHH--------------HHHHHHHHHH-----HHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHH--------------HHHHHHHHHH-----HHHH
Confidence            6677788888        99999999999999885  3432 12111              1111111100     0223


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC-CCCCc--hhhHHHHHHHHHHHc----------CChHHHHHHHHHHHhcCCCCCc
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDG--GPLLWGTLLSASRLH----------GRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~--~~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                      +..+...|.+.|++++|+..|+++. ..|+.  ....+..+..++...          |++++|+..++++++..|+++.
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            5567888999999999999998753 23331  245777788888766          8899999999999999999864


Q ss_pred             ---hHHHHHHHHHhcCChh
Q 039695          437 ---AYVTLSNTYALAGEWE  452 (605)
Q Consensus       437 ---~~~~l~~~y~~~g~~~  452 (605)
                         +...+..++.+.++++
T Consensus       231 ~~~a~~~l~~~~~~~~~~~  249 (261)
T 3qky_A          231 LRTAEELYTRARQRLTELE  249 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence               3334444444444433

>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=98.86  E-value=3.8e-08  Score=81.87  Aligned_cols=132  Identities=17%  Similarity=0.177  Sum_probs=102.4

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 039695          298 TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDML  377 (605)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  377 (605)
                      .|..+...+...|++++|..+|+++.... +.+...+..+...+...|++++|..+++.+....  +.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHHH
Confidence            46677778888888888888888887753 2356677777888888889999998888885431  23467778888888


Q ss_pred             hhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          378 GRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       378 ~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      .+.|++++|.+.++++. ..|+ +..+|..+...+...|+++.|...++++++..|.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            99999999998887753 2232 2678888889999999999999999999988875

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.84  E-value=3.9e-08  Score=94.61  Aligned_cols=162  Identities=10%  Similarity=-0.027  Sum_probs=121.0

Q ss_pred             cchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHH-HHH
Q 039695          296 VVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYT-CVV  374 (605)
Q Consensus       296 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~-~li  374 (605)
                      ...+..+...+.+.|++++|...|++..... +-+...+..+...+...|++++|...++.+..   ..|+..... ...
T Consensus       117 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~~~~  192 (287)
T 3qou_A          117 EELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPL---QDQDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG---GGCSHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCch---hhcchHHHHHHHH
Confidence            3445556666777788888888888877742 22456777778888888888888888887743   345533322 223


Q ss_pred             HHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--CchHHHHHHHHHhcCCh
Q 039695          375 DMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV--ANAYVTLSNTYALAGEW  451 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~y~~~g~~  451 (605)
                      ..+.+.++.++|...+++.. ..|+ +...+..+...+...|++++|+..++++++.+|++  ..++..|+.+|...|+.
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~  271 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTG  271 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTT
T ss_pred             HHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCC
Confidence            33666777777887777643 3454 37789999999999999999999999999999988  77899999999999999


Q ss_pred             hHHHHHHHHHH
Q 039695          452 ENVHSLRSEMK  462 (605)
Q Consensus       452 ~~a~~~~~~m~  462 (605)
                      ++|...+++..
T Consensus       272 ~~a~~~~r~al  282 (287)
T 3qou_A          272 DALASXYRRQL  282 (287)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            99988887654

>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=98.83  E-value=6.4e-09  Score=112.86  Aligned_cols=169  Identities=12%  Similarity=-0.014  Sum_probs=129.3

Q ss_pred             HhcCCHHHHHHHHhccC-----------CCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 039695          276 AKCGSVNYSDKVFNRIS-----------NPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHS  344 (605)
Q Consensus       276 ~~~g~~~~A~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~  344 (605)
                      ...|++++|.+.|++..           ..+...|..+...|.+.|++++|+..|++..+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            66788888888887765           2455677788888888888888888888888742 22556777777888888


Q ss_pred             CcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHH
Q 039695          345 GLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVE  422 (605)
Q Consensus       345 g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~  422 (605)
                      |++++|.+.|++..+   +.|+ ...+..+..+|.+.|++++ ++.|++.. ..|+ +...|..+..++...|++++|+.
T Consensus       481 g~~~~A~~~~~~al~---l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          481 GDYDSATKHFTEVLD---TFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             TCHHHHHHHHHHHHH---HSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHH
Confidence            888888888888763   3554 6778888888888888888 88887743 3444 26688888888888899999999


Q ss_pred             HHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          423 ASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       423 ~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      .++++++++|++..++..++.+|...|+
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            9998888888888888888888877665

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.81  E-value=2.1e-08  Score=85.78  Aligned_cols=104  Identities=9%  Similarity=-0.073  Sum_probs=92.7

Q ss_pred             CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          362 GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       362 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                      .+.|+ ...+..+...+.+.|++++|...|++.. ..|+ ++..|..+..++...|++++|+..|+++++++|+++.+|.
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~  108 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVF  108 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHH
Confidence            56676 7778888899999999999999998854 4453 3789999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          440 TLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       440 ~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      .++.+|.+.|++++|.+.|++..+...
T Consensus       109 ~lg~~~~~lg~~~eA~~~~~~al~l~~  135 (151)
T 3gyz_A          109 HTGQCQLRLKAPLKAKECFELVIQHSN  135 (151)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999999999999999999999987543

>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=98.78  E-value=5.6e-08  Score=103.46  Aligned_cols=160  Identities=10%  Similarity=0.026  Sum_probs=123.4

Q ss_pred             cCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 039695          278 CGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHL  354 (605)
Q Consensus       278 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~  354 (605)
                      .|++++|.+.|++..+   .+...|..+...|.+.|++++|.+.|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4788999999998874   346788889999999999999999999998852 235678888999999999999999999


Q ss_pred             HHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHc---CChHHHHHHHHHHHh
Q 039695          355 DSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLH---GRVDIAVEASNQLIE  429 (605)
Q Consensus       355 ~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~  429 (605)
                      ++..+.   .|+ ...+..+..+|.+.|++++|.+.+++.. ..|+ +...+..+..++...   |+.++|.+.++++++
T Consensus        81 ~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           81 QQASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            998643   454 7889999999999999999999998853 3443 267889999999999   999999999999999


Q ss_pred             cCCCCCchHHHHH
Q 039695          430 SNQQVANAYVTLS  442 (605)
Q Consensus       430 ~~p~~~~~~~~l~  442 (605)
                      .+|.+...|..+.
T Consensus       157 ~~p~~~~~~~~l~  169 (568)
T 2vsy_A          157 QGVGAVEPFAFLS  169 (568)
T ss_dssp             HTCCCSCHHHHTT
T ss_pred             cCCcccChHHHhC
Confidence            9999988887776

>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=98.77  E-value=3.1e-08  Score=84.66  Aligned_cols=103  Identities=12%  Similarity=0.035  Sum_probs=90.3

Q ss_pred             CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          362 GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       362 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                      .+.|+ ...+..+...+.+.|++++|...|++.. ..|+ ++..|..+..++...|++++|+..++++++++|+++.++.
T Consensus        15 ~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~   93 (148)
T 2vgx_A           15 EISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPF   93 (148)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHH
T ss_pred             cCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHH
Confidence            55665 6677788889999999999999998753 3443 3788999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          440 TLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       440 ~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .++.+|...|++++|.+.+++..+..
T Consensus        94 ~lg~~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           94 HAAECLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            99999999999999999999987754

>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=98.77  E-value=1.4e-08  Score=87.16  Aligned_cols=124  Identities=12%  Similarity=0.011  Sum_probs=102.3

Q ss_pred             HHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHc
Q 039695          337 VLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLH  414 (605)
Q Consensus       337 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~  414 (605)
                      |...+...|++++|+..+....   ...|+ ...+..+...|.+.|++++|++.|++. ...|+ ++.+|..+..++...
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELE   78 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             hHHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            3345567789999999988764   44555 556677899999999999999999884 34554 378999999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHH-HHHHHhC
Q 039695          415 GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSL-RSEMKRT  464 (605)
Q Consensus       415 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~-~~~m~~~  464 (605)
                      |++++|+..|+++++++|+++.+|..++.+|.+.|++++|.+. +++..+.
T Consensus        79 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l  129 (150)
T 4ga2_A           79 ENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL  129 (150)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999887765 4776664

>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=98.73  E-value=1.1e-06  Score=84.55  Aligned_cols=162  Identities=10%  Similarity=-0.017  Sum_probs=120.8

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcC-CCCCHH----HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc----HHHHHH
Q 039695          302 MIVGAAKYGLGRFSLDLFNEMISRG-IKPNDV----TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD----AKHYTC  372 (605)
Q Consensus       302 li~~~~~~g~~~~A~~l~~~m~~~g-~~pd~~----t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~  372 (605)
                      .+..+...|++++|..++++..+.. ..|+..    .+..+...+...+++++|...++.......-.++    ...++.
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            3667788899999999998887632 223321    2334666677788999999999988653222223    346888


Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC-------CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------CchHH
Q 039695          373 VVDMLGRTGRLDEAYKLAKSIQ-------VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV------ANAYV  439 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m~-------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~  439 (605)
                      +...|...|++++|.+.+++..       ..+.....+|..+...|...|++++|...+++++++.+..      +.+|.
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            9999999999999998887743       1222123478899999999999999999999999764322      45889


Q ss_pred             HHHHHHHhcCC-hhHHHHHHHHHHh
Q 039695          440 TLSNTYALAGE-WENVHSLRSEMKR  463 (605)
Q Consensus       440 ~l~~~y~~~g~-~~~a~~~~~~m~~  463 (605)
                      .++.+|.+.|+ +++|.+.+++...
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            99999999995 6999999887754

>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=98.73  E-value=1.1e-07  Score=84.01  Aligned_cols=77  Identities=17%  Similarity=0.091  Sum_probs=59.6

Q ss_pred             HHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC--CchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          386 AYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV--ANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       386 A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      |...+++. ...|+ ++..|..+..++...|++++|...++++++.+|+.  +.++..++.+|...|+.++|...+++..
T Consensus        93 a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A           93 ELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            44555442 22343 26788888889999999999999999999988865  4588899999999999999998888764


Q ss_pred             h
Q 039695          463 R  463 (605)
Q Consensus       463 ~  463 (605)
                      .
T Consensus       172 ~  172 (176)
T 2r5s_A          172 Y  172 (176)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.73  E-value=7.6e-07  Score=81.18  Aligned_cols=164  Identities=7%  Similarity=-0.135  Sum_probs=124.3

Q ss_pred             CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC----cHHHHHHHHHHHHHhcCCCCcHHH
Q 039695          294 PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSG----LVDEGIQHLDSMYRKYGIIPDAKH  369 (605)
Q Consensus       294 ~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g----~~~~a~~~~~~m~~~~~~~p~~~~  369 (605)
                      .++.++..+...|...+++++|+..|++..+.|   +...+..|...|.. +    ++++|.++|+...+ .   -+...
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~-~---g~~~a   87 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVE-A---GSKSG   87 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH-T---TCHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH-C---CCHHH
Confidence            345566666667777778888888888877764   45566666666766 6    78889888888743 2   24667


Q ss_pred             HHHHHHHHhh----cCCHHHHHHHHHhCCCCCC--chhhHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          370 YTCVVDMLGR----TGRLDEAYKLAKSIQVDPD--GGPLLWGTLLSASRL----HGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       370 ~~~li~~~~~----~g~~~~A~~~~~~m~~~p~--~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                      +..|..+|..    .+++++|+++|++.....+  ..+..+..|...|..    .++.++|+..++++.+. |.++.++.
T Consensus        88 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~  166 (212)
T 3rjv_A           88 EIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHH
T ss_pred             HHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHH
Confidence            7778888876    7899999999988653222  125788888888888    88999999999999988 66677899


Q ss_pred             HHHHHHHhc-C-----ChhHHHHHHHHHHhCCC
Q 039695          440 TLSNTYALA-G-----EWENVHSLRSEMKRTGI  466 (605)
Q Consensus       440 ~l~~~y~~~-g-----~~~~a~~~~~~m~~~~~  466 (605)
                      .|+.+|... |     ++++|.+.+++..+.|.
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999999865 3     89999999999888765

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.72  E-value=6.4e-08  Score=80.08  Aligned_cols=103  Identities=13%  Similarity=0.196  Sum_probs=81.6

Q ss_pred             CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          362 GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       362 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                      -+.|+ ...+......|.+.|++++|++.|++. ...|+ ++..|..+..++...|++++|+..++++++++|+++.+|.
T Consensus         7 ~inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~   85 (126)
T 4gco_A            7 YINPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYI   85 (126)
T ss_dssp             CCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHH
Confidence            35665 566777788888888888888888774 33443 2678888888888888888888888888888888888888


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          440 TLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       440 ~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .++.+|...|++++|.+.+++..+..
T Consensus        86 ~lg~~~~~~~~~~~A~~~~~~al~l~  111 (126)
T 4gco_A           86 RKAACLVAMREWSKAQRAYEDALQVD  111 (126)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            88888888888888888888877643

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.70  E-value=2.2e-05  Score=81.29  Aligned_cols=81  Identities=11%  Similarity=0.007  Sum_probs=45.0

Q ss_pred             CChhHHHHHHhcCCC--CChhhHHHHHHHHHhcCC-hhHHHHHHHHHHhC-CCCC-ChhhHHHHHHHHh----ccCChHH
Q 039695           76 KKTQVARQLFDEMLE--PNVVSYTSLMAGYINMGQ-PQIALLLFQKMLGN-LVWP-NEFTFATVIKACS----MLADLIT  146 (605)
Q Consensus        76 g~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~-g~~p-d~~t~~~ll~a~~----~~~~~~~  146 (605)
                      |+++.+..+|++...  |++..|..-+.-..+.+. .+....+|+..+.. |..| +...|...+..+.    ..++.+.
T Consensus        28 ~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~  107 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEK  107 (493)
T ss_dssp             TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHH
Confidence            667777777776533  677777777666665553 34455566665543 3333 3334444444332    1345666


Q ss_pred             HHHHHHHHHH
Q 039695          147 GKQIHTHIET  156 (605)
Q Consensus       147 a~~~~~~~~~  156 (605)
                      +..+|+.++.
T Consensus       108 vR~iy~rAL~  117 (493)
T 2uy1_A          108 IRNGYMRALQ  117 (493)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            7777777765

>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=98.70  E-value=2.5e-07  Score=100.42  Aligned_cols=189  Identities=9%  Similarity=-0.036  Sum_probs=143.5

Q ss_pred             cccCchhhHHHHHHHHH--------HhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHc
Q 039695          241 ASLGRLVSGKVAHGVVV--------RSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKY  309 (605)
Q Consensus       241 ~~~~~~~~a~~~~~~~~--------~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  309 (605)
                      ...|++++|.+.+..+.        +. .+.+...+..+...|.+.|++++|.+.|++..+   .+...|..+...|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            66788888888888887        32 245667888888999999999999999998874   4567888889999999


Q ss_pred             CChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHH
Q 039695          310 GLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAY  387 (605)
Q Consensus       310 g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~  387 (605)
                      |++++|+..|++..+.  .| +...+..+..++...|++++ .+.|++..+   +.|+ ...|..+..+|.+.|++++|+
T Consensus       481 g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWS---TNDGVISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             TCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHH---hCCchHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999885  34 56778888889999999999 999998864   3565 788999999999999999999


Q ss_pred             HHHHhCC-CCCCchhhHHHHHHHHHHHcCC-----hHHHHHHHHHHHhcCCCCCch
Q 039695          388 KLAKSIQ-VDPDGGPLLWGTLLSASRLHGR-----VDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       388 ~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~-----~~~a~~~~~~~~~~~p~~~~~  437 (605)
                      +.|++.. ..|+ +...|..+..++...++     .+...++.+.+.+..+..+..
T Consensus       555 ~~~~~al~l~P~-~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~~  609 (681)
T 2pzi_A          555 RTLDEVPPTSRH-FTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPRV  609 (681)
T ss_dssp             HHHHTSCTTSTT-HHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTTH
T ss_pred             HHHHhhcccCcc-cHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHHH
Confidence            9999865 4454 36678888888766555     234444444444555544443

>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=1.7e-07  Score=99.79  Aligned_cols=145  Identities=10%  Similarity=-0.030  Sum_probs=81.4

Q ss_pred             CchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHH
Q 039695          244 GRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFN  320 (605)
Q Consensus       244 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~  320 (605)
                      |++++|...+..+.+.. +.+...+..+...|.+.|++++|.+.|++..+   .+...|..+...|...|++++|.+.|+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~   81 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLLQ   81 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            55666666666665543 33456666677777777777777777766543   234566666667777777777777777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhc---CCHHHHHHHHHhC
Q 039695          321 EMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRT---GRLDEAYKLAKSI  393 (605)
Q Consensus       321 ~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~---g~~~~A~~~~~~m  393 (605)
                      +..+.. +.+...+..+..++...|++++|.+.+++..+.   .|+ ...+..+...+...   |+.++|.+.+++.
T Consensus        82 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           82 QASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL---LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            766642 224556666666677777777777777766432   333 55666666667666   7777777766653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.68  E-value=2.2e-07  Score=84.52  Aligned_cols=128  Identities=9%  Similarity=0.007  Sum_probs=85.8

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhc
Q 039695          302 MIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRT  380 (605)
Q Consensus       302 li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~  380 (605)
                      +...|.+.|++++|+..|++..+.. +-+...+..+..++...|++++|...|++..+   +.|+ ...+..+...|...
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQ---LEADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCCHHHHHHHHHHHHHH
Confidence            6777778888888888888877742 22456777777788888888888888887753   3554 67777777777655


Q ss_pred             CC--HHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 039695          381 GR--LDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       381 g~--~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      |.  .+.+...++... .|++....|..+..++...|++++|+..|++++++.|+.
T Consensus       136 ~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          136 AEQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             hHHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            43  344555565543 344223344555666677788888888888888888863

>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=98.67  E-value=3.3e-07  Score=88.99  Aligned_cols=221  Identities=8%  Similarity=-0.050  Sum_probs=148.8

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHH
Q 039695          207 NAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDK  286 (605)
Q Consensus       207 ~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~  286 (605)
                      .|++++|.+++++..+..  +..      +   +...++++.|...+..+               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~--~~~------~---~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL--KTS------F---MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CCC------S---SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc--ccc------c---cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            456777888877766532  111      0   11135666666655543               445667788888877


Q ss_pred             HHhccCC-----CC----cchHHHHHHHHHHcCChhHHHHHHHHHHHcC---CCCC--HHHHHHHHHHHhccCcHHHHHH
Q 039695          287 VFNRISN-----PS----VVTYTSMIVGAAKYGLGRFSLDLFNEMISRG---IKPN--DVTFVGVLHACSHSGLVDEGIQ  352 (605)
Q Consensus       287 ~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g---~~pd--~~t~~~ll~a~~~~g~~~~a~~  352 (605)
                      .|.+..+     .+    ..+|+.+...|.+.|++++|+..|++..+.-   -.|.  ..++..+...|.. |++++|..
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            7776542     11    3467788888999999999999998876521   1122  3567778888888 99999999


Q ss_pred             HHHHHHHhcCCC---C-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-C---CCC--chhhHHHHHHHHHHHcCChHHHHH
Q 039695          353 HLDSMYRKYGII---P-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-V---DPD--GGPLLWGTLLSASRLHGRVDIAVE  422 (605)
Q Consensus       353 ~~~~m~~~~~~~---p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~---~p~--~~~~~~~~ll~~~~~~g~~~~a~~  422 (605)
                      .|++...-..-.   + ...++..+...|.+.|++++|++.|++.. .   .++  .....+..+..++...|+++.|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999876432111   1 15678889999999999999999998743 1   111  012366777778888899999999


Q ss_pred             HHHHHHhcCCCCCch-----HHHHHHHHHhcCChhHHHH
Q 039695          423 ASNQLIESNQQVANA-----YVTLSNTYALAGEWENVHS  456 (605)
Q Consensus       423 ~~~~~~~~~p~~~~~-----~~~l~~~y~~~g~~~~a~~  456 (605)
                      .+++.+ ..|.....     ...++..| ..|+.+.+.+
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999999 88876543     33455555 5677665555

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.66  E-value=2.6e-07  Score=78.26  Aligned_cols=103  Identities=12%  Similarity=0.046  Sum_probs=88.7

Q ss_pred             CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          362 GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       362 ~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                      .+.|+ ...+..+...+.+.|++++|...|++.. ..|+ +...|..+..++...|++++|+..++++++++|+++.++.
T Consensus        12 ~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~   90 (142)
T 2xcb_A           12 GLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPF   90 (142)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHH
Confidence            45554 5666777888899999999999998753 3443 3788999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          440 TLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       440 ~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .++.+|...|++++|.+.+++..+..
T Consensus        91 ~lg~~~~~~g~~~~A~~~~~~al~~~  116 (142)
T 2xcb_A           91 HAAECHLQLGDLDGAESGFYSARALA  116 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999887653

>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=3.4e-07  Score=88.96  Aligned_cols=199  Identities=9%  Similarity=-0.021  Sum_probs=149.0

Q ss_pred             ccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHH
Q 039695          242 SLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNE  321 (605)
Q Consensus       242 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~  321 (605)
                      ..|++++|.+++....+..-. .         .+...|+++.|...|..           ....|...|++++|...|.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~   61 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQ   61 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHH
Confidence            356788888888877764311 1         12115788888888765           36678899999999999998


Q ss_pred             HHHc----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCC--CCc--HHHHHHHHHHHhhcCCHHHHHHHHHh
Q 039695          322 MISR----GIKPN-DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGI--IPD--AKHYTCVVDMLGRTGRLDEAYKLAKS  392 (605)
Q Consensus       322 m~~~----g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~--~p~--~~~~~~li~~~~~~g~~~~A~~~~~~  392 (605)
                      ..+.    |-.+. ..+|..+...|...|++++|...|++...-+.-  .|.  ..++..+...|.+ |++++|++.+++
T Consensus        62 al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~  140 (307)
T 2ifu_A           62 EAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQ  140 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence            7653    21111 357888888999999999999999887543211  122  5678889999988 999999999887


Q ss_pred             CC-CCC---C--chhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC------chHHHHHHHHHhcCChhHHHHHHHH
Q 039695          393 IQ-VDP---D--GGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA------NAYVTLSNTYALAGEWENVHSLRSE  460 (605)
Q Consensus       393 m~-~~p---~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~------~~~~~l~~~y~~~g~~~~a~~~~~~  460 (605)
                      .. ..|   +  ....++..+...+...|++++|+..+++++++.|.+.      ..+..++.+|...|++++|...+++
T Consensus       141 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          141 AAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            42 111   1  1135788899999999999999999999998765543      2667778888899999999999998


Q ss_pred             HH
Q 039695          461 MK  462 (605)
Q Consensus       461 m~  462 (605)
                      ..
T Consensus       221 al  222 (307)
T 2ifu_A          221 SY  222 (307)
T ss_dssp             HT
T ss_pred             Hh
Confidence            87

>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=4.6e-07  Score=82.46  Aligned_cols=127  Identities=9%  Similarity=0.003  Sum_probs=101.4

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHH
Q 039695          334 FVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASR  412 (605)
Q Consensus       334 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~  412 (605)
                      +..+...+...|++++|...|+..     +.|+...+..+...|.+.|++++|++.+++.. ..|+ +...|..+..++.
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~lg~~~~   82 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHH
Confidence            444555666778888888877755     35677778888888888888888888887643 2333 2678888999999


Q ss_pred             HcCChHHHHHHHHHHHhcCCCCC----------------chHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          413 LHGRVDIAVEASNQLIESNQQVA----------------NAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       413 ~~g~~~~a~~~~~~~~~~~p~~~----------------~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..|++++|+..++++++..|.+.                .++..++.+|.+.|++++|.+.+++..+...
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            99999999999999999888777                7899999999999999999999999887544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.62  E-value=1.2e-05  Score=83.33  Aligned_cols=344  Identities=10%  Similarity=-0.011  Sum_probs=193.4

Q ss_pred             cCC-ChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCC-hHHHHHHH
Q 039695           74 RLK-KTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLAD-LITGKQIH  151 (605)
Q Consensus        74 ~~g-~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~-~~~a~~~~  151 (605)
                      +.| +++.|+.+|+.+..           .+-. |+++.+..+|++.+..  .|+...|..-++-..+.++ .+....+|
T Consensus         6 ~~~~~i~~aR~vyer~l~-----------~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~f   71 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARR-----------LYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVY   71 (493)
T ss_dssp             ------CCHHHHHHHHHH-----------HHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHH
T ss_pred             HcCcchHHHHHHHHHHHH-----------HCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHH
Confidence            345 37777777776522           2211 7899999999999884  4788888887776665553 45577788


Q ss_pred             HHHHHh-CCC-CchhHHHHHHHHHHh----CCCHHHHHHHHhhcCC-CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 039695          152 THIETF-GFQ-YNLVVCSSLVDMYGK----CNDVDGARRVFDLMGC-RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQS  224 (605)
Q Consensus       152 ~~~~~~-g~~-~~~~~~~~Li~~y~~----~g~~~~A~~~~~~m~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  224 (605)
                      +.++.. |.. .+..+|...+..+..    .|+++.+.++|++... |. ..+..+-..|             ..+....
T Consensus        72 e~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~-~~~~~lw~~Y-------------~~fE~~~  137 (493)
T 2uy1_A           72 EFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPM-GSLSELWKDF-------------ENFELEL  137 (493)
T ss_dssp             HHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCC-TTHHHHHHHH-------------HHHHHHH
T ss_pred             HHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChh-hhHHHHHHHH-------------HHHHHHh
Confidence            887765 433 366777777776542    4678889999988744 21 1111111111             1111110


Q ss_pred             CCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhc--CC-----HHHHHHHHhccCC---C
Q 039695          225 RDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC--GS-----VNYSDKVFNRISN---P  294 (605)
Q Consensus       225 ~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~--g~-----~~~A~~~~~~~~~---~  294 (605)
                          +..+...++...  .+.+..|+.++..+...--..+...|...++.--..  |-     .+.+..+|+++..   .
T Consensus       138 ----~~~~~~~~~~~~--~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~p~  211 (493)
T 2uy1_A          138 ----NKITGKKIVGDT--LPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSFYY  211 (493)
T ss_dssp             ----CHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTT
T ss_pred             ----ccccHHHHHHHH--hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcCCC
Confidence                111111111111  012233333333332210001223444444432221  10     2345556666543   3


Q ss_pred             CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC--------CCC-
Q 039695          295 SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYG--------IIP-  365 (605)
Q Consensus       295 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~--------~~p-  365 (605)
                      +...|-..+.-+.+.|+.++|..+|++....   |+...+.....-+...+   +   +++.+...+-        ..+ 
T Consensus       212 ~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~~y~~~~e~~---~---~~~~l~~~~~~~~~~~~~~~~~  282 (493)
T 2uy1_A          212 AEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSLYYGLVMDEE---A---VYGDLKRKYSMGEAESAEKVFS  282 (493)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHTTCT---H---HHHHHHHHTC----------CH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHHHHHhhcchh---H---HHHHHHHHHHhhccchhhhhcc
Confidence            4566777777778889999999999998886   44332221111111111   1   1222222110        011 


Q ss_pred             --cHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH-cCChHHHHHHHHHHHhcCCCCCchHHHHH
Q 039695          366 --DAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL-HGRVDIAVEASNQLIESNQQVANAYVTLS  442 (605)
Q Consensus       366 --~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~-~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  442 (605)
                        ....|...+..+.+.+.++.|..+|++. ..|.....+|......-.. .++.+.|..+|+.+++..|+++..+...+
T Consensus       283 ~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yi  361 (493)
T 2uy1_A          283 KELDLLRINHLNYVLKKRGLELFRKLFIEL-GNEGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFF  361 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCCCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence              1356777777777888999999999987 3343224455433322222 33699999999999998888887777788


Q ss_pred             HHHHhcCChhHHHHHHHHH
Q 039695          443 NTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       443 ~~y~~~g~~~~a~~~~~~m  461 (605)
                      +...+.|+.+.|..+|++.
T Consensus       362 d~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          362 LFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHH
Confidence            8888999999999999886

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.59  E-value=7.9e-07  Score=80.80  Aligned_cols=136  Identities=11%  Similarity=-0.043  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHh
Q 039695          267 VASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACS  342 (605)
Q Consensus       267 ~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~  342 (605)
                      ..+.+...|.+.|++++|...|++..+   .+...|..+...|...|++++|+..|++..+.  .| +..++..+..++.
T Consensus        56 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~  133 (208)
T 3urz_A           56 LATELALAYKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYY  133 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHH
Confidence            344567777778888888877777653   34567777777788888888888888887774  33 4556666666665


Q ss_pred             ccCc--HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCchhhHHHHHHH
Q 039695          343 HSGL--VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKS-IQVDPDGGPLLWGTLLS  409 (605)
Q Consensus       343 ~~g~--~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~-m~~~p~~~~~~~~~ll~  409 (605)
                      ..|.  .+.+...+....   ...|....+..+...+...|++++|...|++ +...|+  ......+..
T Consensus       134 ~~~~~~~~~~~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~--~~~~~~l~~  198 (208)
T 3urz_A          134 LTAEQEKKKLETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS--TEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHHHHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC--HHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC--HHHHHHHHH
Confidence            4443  333444444332   2223233334455566667888888888877 345566  555444443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.59  E-value=5.2e-06  Score=79.55  Aligned_cols=149  Identities=17%  Similarity=0.165  Sum_probs=84.5

Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHH--HHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCC----
Q 039695          310 GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVD--EGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGR----  382 (605)
Q Consensus       310 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~--~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~----  382 (605)
                      +++++++++++++.+...+ |...|..-.-...+.|.++  ++.++++.+.+.   .| |-..|+.-..++.+.|+    
T Consensus       124 ~~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~---d~~N~sAW~~R~~ll~~l~~~~~~  199 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT---DLKNNSAWSHRFFLLFSKKHLATD  199 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHSSGGGCCH
T ss_pred             CCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccccchh
Confidence            4556666666666554222 4444444444444445544  566666666432   22 34444444444444444    


Q ss_pred             --HHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHH-HHHHHHHHHhcC---CCCCchHHHHHHHHHhcCChhHHH
Q 039695          383 --LDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDI-AVEASNQLIESN---QQVANAYVTLSNTYALAGEWENVH  455 (605)
Q Consensus       383 --~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~-a~~~~~~~~~~~---p~~~~~~~~l~~~y~~~g~~~~a~  455 (605)
                        ++++++.++++. ..|+ +...|+-+...+...|+... ...+.+++.+++   |.++.++..++.+|.+.|+.++|.
T Consensus       200 ~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~  278 (306)
T 3dra_A          200 NTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESR  278 (306)
T ss_dssp             HHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHH
Confidence              666666665532 3333 26677777766766666433 444556555554   666667777777777777777777


Q ss_pred             HHHHHHHh
Q 039695          456 SLRSEMKR  463 (605)
Q Consensus       456 ~~~~~m~~  463 (605)
                      ++++.+.+
T Consensus       279 ~~~~~l~~  286 (306)
T 3dra_A          279 TVYDLLKS  286 (306)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77777654

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.58  E-value=1.9e-06  Score=82.70  Aligned_cols=163  Identities=10%  Similarity=-0.055  Sum_probs=84.5

Q ss_pred             CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHH-HH
Q 039695          262 EFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFV-GV  337 (605)
Q Consensus       262 ~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~-~l  337 (605)
                      +.+......+...+.+.|++++|...|++..+   .+...+..+...|.+.|++++|...+++....  .|+..... ..
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            33344444455555555555555555555432   23344555555555555555555555555442  23322211 11


Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCc-hhhHHHHHHHHHHHc
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDG-GPLLWGTLLSASRLH  414 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~-~~~~~~~ll~~~~~~  414 (605)
                      ...+...+..++|...+++....   .|+ ...+..+...|...|++++|++.++++. ..|+. +...+..|+..+...
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~---~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAE---NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccCccHHHHHHHHhc---CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence            12233444555555555555422   343 5556666666666666666666665532 23331 144666677777777


Q ss_pred             CChHHHHHHHHHHHh
Q 039695          415 GRVDIAVEASNQLIE  429 (605)
Q Consensus       415 g~~~~a~~~~~~~~~  429 (605)
                      |+.+.|...+++.+.
T Consensus       269 g~~~~a~~~~r~al~  283 (287)
T 3qou_A          269 GTGDALASXYRRQLY  283 (287)
T ss_dssp             CTTCHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHH
Confidence            777777666666543

>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=98.57  E-value=9.2e-07  Score=77.89  Aligned_cols=156  Identities=10%  Similarity=-0.015  Sum_probs=117.3

Q ss_pred             HHHHHHHHHHcCCChhHHHHHHhcCCC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH-Hh
Q 039695           64 TLNHLINCYVRLKKTQVARQLFDEMLE---PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKA-CS  139 (605)
Q Consensus        64 ~~~~li~~~~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a-~~  139 (605)
                      ....+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|+..|++.....  |+...+...... +.
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            344566778899999999999999864   467789999999999999999999999887643  343332222111 12


Q ss_pred             ccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC--CC---hhhHHHHHHHHHHcCChhHHH
Q 039695          140 MLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC--RN---VVSWTSIIVAHAQNAQGHEAL  214 (605)
Q Consensus       140 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--~~---~~~~~~li~~~~~~g~~~~A~  214 (605)
                      ..+....+...++.+++.. +.+...+..+...|.+.|++++|...|+++..  |+   ...|..+...+...|+.++|.
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            2223334678888888764 44678888899999999999999999988754  32   457888899999999999999


Q ss_pred             HHHHHHHH
Q 039695          215 EMFREFNY  222 (605)
Q Consensus       215 ~~~~~m~~  222 (605)
                      ..|++...
T Consensus       165 ~~y~~al~  172 (176)
T 2r5s_A          165 SKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98887643

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.56  E-value=4e-07  Score=75.24  Aligned_cols=114  Identities=12%  Similarity=0.026  Sum_probs=89.6

Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhH
Q 039695          327 IKPND-VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLL  403 (605)
Q Consensus       327 ~~pd~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~  403 (605)
                      +.|+. ..+......+.+.|++++|.+.|++.++   +.|+ ...|..+..+|.+.|++++|++.+++.. ..|+ +...
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a   83 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVK---RDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKG   83 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHH
Confidence            34442 4556667778888888888888887753   3454 7788888888888999999988888743 3444 2778


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039695          404 WGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNT  444 (605)
Q Consensus       404 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  444 (605)
                      |..+..++...|++++|++.|+++++++|++..++..|.++
T Consensus        84 ~~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           84 YIRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            99999999999999999999999999999998887777654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.54  E-value=1.2e-06  Score=84.41  Aligned_cols=166  Identities=11%  Similarity=-0.036  Sum_probs=118.8

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC-H----HHHHHHHHHHhccCcHHHHHHHHHHHHHhcC--CCCc--HH
Q 039695          298 TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN-D----VTFVGVLHACSHSGLVDEGIQHLDSMYRKYG--IIPD--AK  368 (605)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd-~----~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~--~~p~--~~  368 (605)
                      .+...+..+...|++++|.+.+.+..+.....+ .    ..+..+...+...|++++|...++.......  ..+.  ..
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            334456677788888888888887776422211 1    2233455566778899999999888753221  1122  45


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC----CCCCc---hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC------CC
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ----VDPDG---GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ------VA  435 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~----~~p~~---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~  435 (605)
                      .|+.+...|...|++++|...+++..    ..|+.   ...++..+...|...|++++|...++++++..+.      ..
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            78889999999999999999887642    12221   1258889999999999999999999999876422      14


Q ss_pred             chHHHHHHHHHhcCChhHH-HHHHHHHHh
Q 039695          436 NAYVTLSNTYALAGEWENV-HSLRSEMKR  463 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a-~~~~~~m~~  463 (605)
                      .+|..++.+|.+.|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            5788999999999999999 777776654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.53  E-value=2.1e-05  Score=75.29  Aligned_cols=225  Identities=10%  Similarity=0.016  Sum_probs=156.9

Q ss_pred             CChhHHHHHHHHHHHcCCCCCCh-hHHHhHHHhhcccC--chhhHHHHHHHHHHhCCCCcHhHHHHHHHHH----Hhc--
Q 039695          208 AQGHEALEMFREFNYQSRDRPNQ-HMLASVINACASLG--RLVSGKVAHGVVVRSGCEFNDVVASALVDMY----AKC--  278 (605)
Q Consensus       208 g~~~~A~~~~~~m~~~~~~~p~~-~t~~~ll~a~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y----~~~--  278 (605)
                      ...++|++++..+....   |+. ..++.--.++...+  .++++...++.++... +.+..+++.--..+    .+.  
T Consensus        47 e~s~~aL~~t~~~L~~n---P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~  122 (306)
T 3dra_A           47 EYSERALHITELGINEL---ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNN  122 (306)
T ss_dssp             CCSHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTT
T ss_pred             CCCHHHHHHHHHHHHHC---cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccc
Confidence            34456777777776643   433 33444444555555  7777777777777655 33344444333333    334  


Q ss_pred             -CCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChh--HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc------
Q 039695          279 -GSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGR--FSLDLFNEMISRGIKPNDVTFVGVLHACSHSGL------  346 (605)
Q Consensus       279 -g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~------  346 (605)
                       ++++++..+++.+.+   +|..+|+--.-.+.+.|.++  ++++.++++.+.... |...|+.-.....+.+.      
T Consensus       123 ~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          123 DFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhh
Confidence             678888888888864   56667777777777888888  999999999987544 66677666556666665      


Q ss_pred             HHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHH-HHHHHHhCCC-----CCCchhhHHHHHHHHHHHcCChHH
Q 039695          347 VDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDE-AYKLAKSIQV-----DPDGGPLLWGTLLSASRLHGRVDI  419 (605)
Q Consensus       347 ~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~-----~p~~~~~~~~~ll~~~~~~g~~~~  419 (605)
                      ++++.+.++.++..   .| |...|+.+...+.+.|+..+ +.++..++..     ..+  +..+..+...+.+.|+.++
T Consensus       202 ~~eEl~~~~~aI~~---~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s--~~al~~la~~~~~~~~~~~  276 (306)
T 3dra_A          202 IDEELNYVKDKIVK---CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTS--SFALETLAKIYTQQKKYNE  276 (306)
T ss_dssp             HHHHHHHHHHHHHH---CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESC--HHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHh---CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCC--HHHHHHHHHHHHccCCHHH
Confidence            88899998888643   55 48888888888888888554 5556666431     123  7789999999999999999


Q ss_pred             HHHHHHHHHh-cCCCCCchHHHHH
Q 039695          420 AVEASNQLIE-SNQQVANAYVTLS  442 (605)
Q Consensus       420 a~~~~~~~~~-~~p~~~~~~~~l~  442 (605)
                      |.++++.+.+ .+|.....|...+
T Consensus       277 A~~~~~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          277 SRTVYDLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHHHHhccChHHHHHHHHHH
Confidence            9999999997 7998776666543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.53  E-value=3.4e-06  Score=77.62  Aligned_cols=187  Identities=12%  Similarity=0.021  Sum_probs=124.8

Q ss_pred             ChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCC--cHhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCcc----hHH
Q 039695          229 NQHMLASVINACASLGRLVSGKVAHGVVVRSGCEF--NDVVASALVDMYAKCGSVNYSDKVFNRISN--PSVV----TYT  300 (605)
Q Consensus       229 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~----~~~  300 (605)
                      +...+......+...|++++|...+..+++.....  ....+..+...|.+.|++++|...|++..+  |+..    .+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            34455566677889999999999999999864221  245778889999999999999999999863  4332    344


Q ss_pred             HHHHHHHH------------------cCChhHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHHHHhc
Q 039695          301 SMIVGAAK------------------YGLGRFSLDLFNEMISRGIKPNDV-TFVGVLHACSHSGLVDEGIQHLDSMYRKY  361 (605)
Q Consensus       301 ~li~~~~~------------------~g~~~~A~~l~~~m~~~g~~pd~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  361 (605)
                      .+..++.+                  .|+.++|+..|++.++.  .|+.. .......          ...+...+    
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRL----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHH----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHH----
Confidence            44555544                  34566666666666553  23221 1111000          00000000    


Q ss_pred             CCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCch--hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          362 GIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGG--PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       362 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                           ......+...|.+.|++++|+..|+++. ..|+..  ...+..+..++...|+.++|.+.++.+....|++..
T Consensus       147 -----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~  219 (225)
T 2yhc_A          147 -----AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLE  219 (225)
T ss_dssp             -----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCC
T ss_pred             -----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchh
Confidence                 0112346778889999999999998854 334421  257888999999999999999999999998887653

>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=98.52  E-value=3.6e-06  Score=76.60  Aligned_cols=173  Identities=8%  Similarity=-0.111  Sum_probs=128.8

Q ss_pred             HHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC-CCcchHHHHHHHHHHcC----ChhHHHHHHHHHH
Q 039695          249 GKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN-PSVVTYTSMIVGAAKYG----LGRFSLDLFNEMI  323 (605)
Q Consensus       249 a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g----~~~~A~~l~~~m~  323 (605)
                      |.+.+....+.|   ++..+..|..+|...+++++|.+.|++..+ .++..+..|...|.. +    +.++|+.+|++..
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            445555555544   556677777777778888888888887664 455667777777776 6    8889999999887


Q ss_pred             HcCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHHHHhcCCCCc---HHHHHHHHHHHhh----cCCHHHHHHHHHh
Q 039695          324 SRGIKPNDVTFVGVLHACSH----SGLVDEGIQHLDSMYRKYGIIPD---AKHYTCVVDMLGR----TGRLDEAYKLAKS  392 (605)
Q Consensus       324 ~~g~~pd~~t~~~ll~a~~~----~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~----~g~~~~A~~~~~~  392 (605)
                      +.|   +...+..|...+..    .+++++|..+|+...   ...|.   ...+..|..+|..    .+++++|...|++
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---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAA---RDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHT---SSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHH---HcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            764   45666777777776    789999999999874   33443   7788888888888    7899999999988


Q ss_pred             CCCC-CCchhhHHHHHHHHHHHc-C-----ChHHHHHHHHHHHhcCCC
Q 039695          393 IQVD-PDGGPLLWGTLLSASRLH-G-----RVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       393 m~~~-p~~~~~~~~~ll~~~~~~-g-----~~~~a~~~~~~~~~~~p~  433 (605)
                      .... ++  +..+..|...|... |     +.++|...++++.+.+..
T Consensus       155 A~~~~~~--~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          155 SSSLSRT--GYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHTSCT--THHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHcCCC--HHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            6433 34  66777888887653 3     899999999999988653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.52  E-value=9.3e-07  Score=73.27  Aligned_cols=117  Identities=12%  Similarity=0.059  Sum_probs=82.2

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHH
Q 039695          330 NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTL  407 (605)
Q Consensus       330 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~l  407 (605)
                      +...+..+...+...|++++|...|+...   ...| +...+..+...|...|++++|.+.+++.. ..|+ +...|..+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al---~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l   90 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAI---KRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRK   90 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHH---TTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHH
Confidence            34455566666666667777766666664   2334 35666667777777777777777776532 2232 26678888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          408 LSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      ..++...|++++|...++++++..|.+...+..+..+|.+.|+
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            8888888899999999999888888888888888888877654

>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=98.52  E-value=8.2e-07  Score=76.94  Aligned_cols=128  Identities=10%  Similarity=0.001  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      ..+..+...+...|++++|...|+.....   .| +...+..+...+...|++++|.+.+++.. ..|+ +...|..+..
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~   89 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            34555666677778888888877777543   33 46777778888888888888888887643 2333 2678889999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHH--HHHhcCChhHHHHHHHHHHh
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSN--TYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~--~y~~~g~~~~a~~~~~~m~~  463 (605)
                      ++...|++++|...++++++..|.+...+..+..  .+.+.|++++|.+.++....
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            9999999999999999999999998887754444  48888999999999887654

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.50  E-value=8.8e-07  Score=72.31  Aligned_cols=116  Identities=22%  Similarity=0.228  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          331 DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       331 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      ...+..+...+...|++++|.+.++.+....  +.+...+..+...+.+.|++++|...++++. ..|+ +..+|..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHH
Confidence            3455566666667777777777777664331  2235666777777777788888877776643 2232 2677888888


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAG  449 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  449 (605)
                      .+...|+++.|...++++++..|.++.++..+..++...|
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            8888899999999999998888888888888777776544

>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=98.48  E-value=1.1e-05  Score=73.15  Aligned_cols=91  Identities=12%  Similarity=-0.033  Sum_probs=65.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcH
Q 039695          268 ASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLV  347 (605)
Q Consensus       268 ~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~  347 (605)
                      +..+...|...|++++|...|++...++...|..+...|.+.|++++|+..|++..... +.+...+..+..++...|++
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            44556667777888888888887777777777777777788888888888887777642 23456666777777777777


Q ss_pred             HHHHHHHHHHHH
Q 039695          348 DEGIQHLDSMYR  359 (605)
Q Consensus       348 ~~a~~~~~~m~~  359 (605)
                      ++|.+.|+...+
T Consensus        88 ~~A~~~~~~al~   99 (213)
T 1hh8_A           88 DLAIKDLKEALI   99 (213)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            777777777653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.48  E-value=1e-06  Score=72.67  Aligned_cols=118  Identities=11%  Similarity=0.009  Sum_probs=90.0

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHH
Q 039695          331 DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLL  408 (605)
Q Consensus       331 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll  408 (605)
                      ...+..+...+...|++++|...++.....   .| +...+..+...+...|++++|.+.+++.. ..|+ +...|..+.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~   87 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL---NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMG   87 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHH
Confidence            445666666777777788887777777543   33 46677777888888888888888877643 2333 267888888


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChh
Q 039695          409 SASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE  452 (605)
Q Consensus       409 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~  452 (605)
                      ..+...|+++.|...++++++..|.++.++..++.++.+.|+++
T Consensus        88 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           88 LALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcCC
Confidence            89999999999999999999999998888888999888888753

>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=98.47  E-value=5e-07  Score=88.93  Aligned_cols=95  Identities=8%  Similarity=-0.067  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...|..+..+|.+.|++++|+..+++.. ..|+ +...|..+..++...|++++|+..|+++++++|++..++..+..+|
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~  274 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQ  274 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            4678888999999999999999998743 3443 3789999999999999999999999999999999999999999999


Q ss_pred             HhcCChhHH-HHHHHHHH
Q 039695          446 ALAGEWENV-HSLRSEMK  462 (605)
Q Consensus       446 ~~~g~~~~a-~~~~~~m~  462 (605)
                      .+.|++++| .+.++.|.
T Consensus       275 ~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          275 QRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999998 44566664

>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=98.45  E-value=1.8e-07  Score=89.63  Aligned_cols=188  Identities=10%  Similarity=0.035  Sum_probs=114.4

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHAC  341 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  341 (605)
                      ...+..+...|.+.|++++|...|++..+   .+...|..+...|.+.|++++|+..+++..+.. +-+...+..+..++
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34555566666677777777777766542   345566667777777777777777777776531 22455666677777


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCcH-HHHHHHHH---HHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCCh
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIPDA-KHYTCVVD---MLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRV  417 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~---~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~  417 (605)
                      ...|++++|...|....+.   .|+. ..+...+.   ...+...+..    .......++  ......+ ..+ ..|+.
T Consensus        83 ~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~--~~i~~~l-~~l-~~~~~  151 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS----IEERRIHQE--SELHSYL-TRL-IAAER  151 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH----HHHTCCCCC--CHHHHHH-HHH-HHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH----HHHHHHhhh--HHHHHHH-HHH-HHHHH
Confidence            7777777777777766432   2210 00111111   1122212222    122222333  3333333 222 26888


Q ss_pred             HHHHHHHHHHHhcCCCCCchHHHHHHHHHhc-CChhHHHHHHHHHHhC
Q 039695          418 DIAVEASNQLIESNQQVANAYVTLSNTYALA-GEWENVHSLRSEMKRT  464 (605)
Q Consensus       418 ~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~-g~~~~a~~~~~~m~~~  464 (605)
                      ++|.+.++++++.+|++......+...+.+. +++++|.++|.+..+.
T Consensus       152 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          152 ERELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            9999999999999998876667777777776 7789999999888653

>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=98.43  E-value=4.6e-07  Score=79.86  Aligned_cols=121  Identities=7%  Similarity=0.095  Sum_probs=89.2

Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHH-HHHcCCh-
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSA-SRLHGRV-  417 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~-~~~~g~~-  417 (605)
                      ...|++++|...++.....   .| +...+..+...|...|++++|...+++.. ..|+ +...|..+..+ +...|++ 
T Consensus        21 ~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA---NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             C-----CCCCHHHHHHHHH---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCC
T ss_pred             hhccCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcc
Confidence            3456677777777766533   33 46677777788888888888888877643 2333 26677778877 7788888 


Q ss_pred             -HHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          418 -DIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       418 -~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                       ++|...++++++.+|.++.++..++.+|...|++++|...+++..+...
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence             9999999999999998888889999999999999999999988877544

>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=98.43  E-value=1.2e-06  Score=72.25  Aligned_cols=98  Identities=12%  Similarity=0.063  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...+..+...+.+.|++++|++.|++.. ..|+ +...|..+..++...|++++|+..++++++.+|+++.+|..++.+|
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            4556677788888999999999988743 3443 2788999999999999999999999999999999999999999999


Q ss_pred             HhcCChhHHHHHHHHHHhCC
Q 039695          446 ALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       446 ~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...|++++|.+.+++..+..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhC
Confidence            99999999999999887754

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.42  E-value=8.3e-07  Score=70.92  Aligned_cols=99  Identities=15%  Similarity=0.133  Sum_probs=82.1

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC--CCchHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQ--VANAYVTLSN  443 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~  443 (605)
                      ...+..+...+.+.|++++|...+++.. ..|+ +...|..+...+...|++++|...++++++..|.  +..++..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            4556667778888888888888887643 2333 2678888999999999999999999999999999  8889999999


Q ss_pred             HHHhc-CChhHHHHHHHHHHhCCC
Q 039695          444 TYALA-GEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       444 ~y~~~-g~~~~a~~~~~~m~~~~~  466 (605)
                      +|.+. |++++|.+.+++..+...
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhccc
Confidence            99999 999999999998887654

>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=98.41  E-value=2.1e-05  Score=75.52  Aligned_cols=152  Identities=8%  Similarity=-0.060  Sum_probs=67.3

Q ss_pred             HHHHHcCCChhHHHHHHhcCCC-----CC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC-CCh----hhHHHH
Q 039695           69 INCYVRLKKTQVARQLFDEMLE-----PN----VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVW-PNE----FTFATV  134 (605)
Q Consensus        69 i~~~~~~g~~~~A~~~f~~m~~-----~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-pd~----~t~~~l  134 (605)
                      +..+.+.|++++|.+.+++...     |+    ...+..+...+...|++++|+..|++....... ++.    .+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            3444555555555555555421     11    011222333444445555555555555542211 111    134555


Q ss_pred             HHHHhccCChHHHHHHHHHHHHh-----CCCCc-hhHHHHHHHHHHhCCCHHHHHHHHhhcCC--------C-ChhhHHH
Q 039695          135 IKACSMLADLITGKQIHTHIETF-----GFQYN-LVVCSSLVDMYGKCNDVDGARRVFDLMGC--------R-NVVSWTS  199 (605)
Q Consensus       135 l~a~~~~~~~~~a~~~~~~~~~~-----g~~~~-~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--------~-~~~~~~~  199 (605)
                      ...+...|++++|...++.+++.     +..+. ..++..+...|.+.|++++|...+++..+        . -..+|..
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~  241 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQ  241 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            55555555555555555555431     11111 12444555555555555555555544321        0 0234444


Q ss_pred             HHHHHHHcCC-hhHHHHHHHHH
Q 039695          200 IIVAHAQNAQ-GHEALEMFREF  220 (605)
Q Consensus       200 li~~~~~~g~-~~~A~~~~~~m  220 (605)
                      +...|.+.|+ +++|++.|++.
T Consensus       242 lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          242 RGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCcHHHHHHHHHHH
Confidence            4455555552 35555544443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.41  E-value=4.2e-06  Score=75.21  Aligned_cols=132  Identities=11%  Similarity=-0.015  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhc---CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC----CCC-C--ch
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKY---GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ----VDP-D--GG  400 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~---~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~p-~--~~  400 (605)
                      .++..+...+...|++++|...+++.....   +..|. ...+..+...|...|++++|.+.+++..    ..+ +  ..
T Consensus        27 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  106 (203)
T 3gw4_A           27 GARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAA  106 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHH
Confidence            344444444455555555555554443211   11121 3445556666666666666666655421    112 1  11


Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCC--CCC----chHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQ--QVA----NAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p--~~~----~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      ...+..+...+...|++++|...+++.++..+  .++    .++..++.+|...|++++|.+.+++..+
T Consensus       107 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          107 SANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            34567777778888888888888888776431  121    2456788888889999999888887755

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.38  E-value=9e-07  Score=72.48  Aligned_cols=95  Identities=11%  Similarity=-0.027  Sum_probs=82.0

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALA  448 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~  448 (605)
                      +..+...+.+.|++++|+..+++.. ..|+ +...|..+..++...|++++|+..++++++++|+++.++..++.+|.+.
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            4556777888999999999998753 3453 3788999999999999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHHHhCC
Q 039695          449 GEWENVHSLRSEMKRTG  465 (605)
Q Consensus       449 g~~~~a~~~~~~m~~~~  465 (605)
                      |++++|...+++..+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999887654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.37  E-value=8.3e-07  Score=83.19  Aligned_cols=136  Identities=11%  Similarity=-0.044  Sum_probs=87.0

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHh
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD--AKHYTCVVDMLG  378 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~  378 (605)
                      .....+...|++++|.++|..+...  .|+......+...+.+.+++++|+..|+... ... .|.  ...+..+..++.
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~-~~~-d~~~~~~a~~~LG~al~  182 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAG-KWP-DKFLAGAAGVAHGVAAA  182 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGG-GCS-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhh-ccC-CcccHHHHHHHHHHHHH
Confidence            3455666777777777777766653  3444344444456677778888887776442 111 121  235666777788


Q ss_pred             hcCCHHHHHHHHHhCCCC---CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHH
Q 039695          379 RTGRLDEAYKLAKSIQVD---PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTL  441 (605)
Q Consensus       379 ~~g~~~~A~~~~~~m~~~---p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  441 (605)
                      +.|++++|++.|++....   |......+..+..++...|+.++|...|+++...+|+ ..++..|
T Consensus       183 ~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL  247 (282)
T 4f3v_A          183 NLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAAL  247 (282)
T ss_dssp             HTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHH
T ss_pred             HCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHH
Confidence            888888888888775312   2212446667777788888888888888888888887 5444433

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.37  E-value=6.7e-05  Score=71.94  Aligned_cols=166  Identities=9%  Similarity=-0.070  Sum_probs=121.7

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCC--CCc-------chHHHHHHHHHHcCChhHHHHHHHHHHHcCC---CCC--
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISN--PSV-------VTYTSMIVGAAKYGLGRFSLDLFNEMISRGI---KPN--  330 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~-------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~---~pd--  330 (605)
                      ...+...+..+...|++++|.+.+....+  +..       ..+..+...+...|++++|+..|++......   .+.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34555677888999999999998876542  111       1233455667788999999999999876321   122  


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-----HHHHHHHHHHHhhcCCHHHHHHHHHhCC------CCCCc
Q 039695          331 DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-----AKHYTCVVDMLGRTGRLDEAYKLAKSIQ------VDPDG  399 (605)
Q Consensus       331 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~------~~p~~  399 (605)
                      ..+++.+...|...|++++|..+|++........|+     ..++..+...|.+.|++++|++.+++..      ..+..
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            347888899999999999999999988632222222     2588899999999999999999988642      11111


Q ss_pred             hhhHHHHHHHHHHHcCChHHH-HHHHHHHHhc
Q 039695          400 GPLLWGTLLSASRLHGRVDIA-VEASNQLIES  430 (605)
Q Consensus       400 ~~~~~~~ll~~~~~~g~~~~a-~~~~~~~~~~  430 (605)
                      ...+|..+..++...|++++| ...+++++++
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            256788999999999999999 7778887754

>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=98.35  E-value=2.9e-06  Score=70.87  Aligned_cols=100  Identities=11%  Similarity=-0.006  Sum_probs=85.5

Q ss_pred             CcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHH
Q 039695          365 PDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSN  443 (605)
Q Consensus       365 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  443 (605)
                      .+...+..+...+...|++++|...|++.. ..|+ +...|..+..++...|+++.|...++++++.+|+++.++..++.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   85 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   85 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHH
Confidence            347778888888888999999998888743 3343 27789999999999999999999999999999999999999999


Q ss_pred             HHHhcCChhHHHHHHHHHHhCC
Q 039695          444 TYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       444 ~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +|...|++++|...+++..+..
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHHC
Confidence            9999999999999999887654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.34  E-value=7e-06  Score=76.91  Aligned_cols=185  Identities=13%  Similarity=-0.017  Sum_probs=135.5

Q ss_pred             hcCCHHHHHHHHhccCC--C-CcchHHHH-------HHHHHHcCChhHHHHHHHHHHHcCCCCCH---------------
Q 039695          277 KCGSVNYSDKVFNRISN--P-SVVTYTSM-------IVGAAKYGLGRFSLDLFNEMISRGIKPND---------------  331 (605)
Q Consensus       277 ~~g~~~~A~~~~~~~~~--~-~~~~~~~l-------i~~~~~~g~~~~A~~l~~~m~~~g~~pd~---------------  331 (605)
                      ..++...|.+.|.++..  | ....|+.+       ...+...++..+++..+..-..  +.|+.               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            46888888888888764  3 33567766       4555555555666555554443  33321               


Q ss_pred             -------HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCch--hh
Q 039695          332 -------VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGG--PL  402 (605)
Q Consensus       332 -------~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~--~~  402 (605)
                             .....+...+...|++++|.+.|+.+.   ...|+......+...+.+.+++++|+..|+.....|++.  ..
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~---~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAP---VAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSC---CTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                   223345567788999999999999874   235654366677778999999999999998765445411  23


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC--CC-CCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIESN--QQ-VANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      .+..+..++...|++++|+..|+++....  |. .+.....++.++.+.|+.++|..+|+++.....
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            78889999999999999999999998543  44 345778899999999999999999999987543

>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=98.34  E-value=3.2e-07  Score=82.67  Aligned_cols=172  Identities=9%  Similarity=-0.046  Sum_probs=99.3

Q ss_pred             HHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHH
Q 039695          272 VDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVD  348 (605)
Q Consensus       272 i~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~  348 (605)
                      +......|++++|.+.++.-.+   .....|..+...+...|++++|+..|++....  .|+...+...        ...
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~--------~~~   80 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ--------ILL   80 (198)
T ss_dssp             -----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH--------HHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh--------hHH
Confidence            3344445555555555553322   12334555566666667777777777666652  1111000000        000


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHH
Q 039695          349 EGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQL  427 (605)
Q Consensus       349 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  427 (605)
                      .-   ...+        ....+..+..+|.+.|++++|+..+++.. ..|+ +...|..+..++...|+++.|+..++++
T Consensus        81 ~~---~~~~--------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~a  148 (198)
T 2fbn_A           81 DK---KKNI--------EISCNLNLATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKA  148 (198)
T ss_dssp             HH---HHHH--------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HH---HHHH--------HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            00   0000        13567778888889999999999888743 3343 2778999999999999999999999999


Q ss_pred             HhcCCCCCchHHHHHHHHHhcCChhHHH-HHHHHHHhCC
Q 039695          428 IESNQQVANAYVTLSNTYALAGEWENVH-SLRSEMKRTG  465 (605)
Q Consensus       428 ~~~~p~~~~~~~~l~~~y~~~g~~~~a~-~~~~~m~~~~  465 (605)
                      +++.|.++.++..+..++...++.+++. ..+..|..++
T Consensus       149 l~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          149 ASLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHSTTCHHHHHHHHHHHHHHHHHHC-------------
T ss_pred             HHHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            9999999999999999999988888777 5555554443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.34  E-value=2.1e-06  Score=74.47  Aligned_cols=97  Identities=10%  Similarity=0.100  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...+..+...+.+.|++++|++.|++.. ..|+ +...|..+..++...|++++|+..++++++++|.++.+|..++.+|
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4455556666666666666666666532 2332 2556666667777777777777777777777777766777777777


Q ss_pred             HhcCChhHHHHHHHHHHhC
Q 039695          446 ALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       446 ~~~g~~~~a~~~~~~m~~~  464 (605)
                      ...|++++|.+.+++..+.
T Consensus        90 ~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHh
Confidence            7777777777777666554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.32  E-value=3.1e-06  Score=68.94  Aligned_cols=98  Identities=21%  Similarity=0.304  Sum_probs=87.4

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...+..+...+.+.|++++|.+.++++. ..|+ +..+|..+...+...|++++|...++++++..|.++.++..++.+|
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            5678888999999999999999998854 2333 2778999999999999999999999999999999999999999999


Q ss_pred             HhcCChhHHHHHHHHHHhCC
Q 039695          446 ALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       446 ~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...|++++|...++++.+..
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhC
Confidence            99999999999999987754

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.32  E-value=1.6e-06  Score=73.99  Aligned_cols=100  Identities=7%  Similarity=-0.115  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      ..+..+...+.+.|++++|...|+....   +.|+ ...|..+..+|.+.|++++|++.|++.. ..|+ ++..|..+..
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~  112 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCI---YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHH
Confidence            4566667777788888888888887763   3554 7778888888888888888888887743 3444 3678889999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      ++...|++++|+..|++++++.|+.+
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            99999999999999999999988753

>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=98.31  E-value=4e-06  Score=67.53  Aligned_cols=97  Identities=13%  Similarity=0.169  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...+..+...+...|++++|.+.+++.. ..|+ +...|..+...+...|++++|...++++++..|.++..+..++.+|
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            3445556666666777777777666532 2232 1556667777777777777777777777777777777777777777


Q ss_pred             HhcCChhHHHHHHHHHHhC
Q 039695          446 ALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       446 ~~~g~~~~a~~~~~~m~~~  464 (605)
                      ...|++++|.+.+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            7777777777777766654

>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=98.30  E-value=3e-06  Score=74.48  Aligned_cols=127  Identities=10%  Similarity=0.056  Sum_probs=99.0

Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHH-HhhcCCH-
Q 039695          307 AKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDM-LGRTGRL-  383 (605)
Q Consensus       307 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~-~~~~g~~-  383 (605)
                      ...|++++|+..|++..... +.+...+..+...+...|++++|...|+...+.   .| +...+..+..+ +...|++ 
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL---RGENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HCSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhcCCcc
Confidence            45678888999998887752 336678888888999999999999999988643   34 47778888888 7788998 


Q ss_pred             -HHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchH
Q 039695          384 -DEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       384 -~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                       ++|...+++.. ..|+ +...|..+...+...|+++.|...++++++..|+++...
T Consensus        97 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  152 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRT  152 (177)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHH
T ss_pred             hHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHH
Confidence             99999998753 3343 267888999999999999999999999999999886543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.29  E-value=4.5e-06  Score=68.98  Aligned_cols=99  Identities=9%  Similarity=0.064  Sum_probs=88.8

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039695          366 DAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNT  444 (605)
Q Consensus       366 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  444 (605)
                      +...+..+...+.+.|++++|.+.+++. ...|+ +...|..+...+...|++++|...++++++..|.++.++..++.+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            4778888999999999999999999884 34443 277899999999999999999999999999999999999999999


Q ss_pred             HHhcCChhHHHHHHHHHHhCC
Q 039695          445 YALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       445 y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      |.+.|++++|.+.+++..+..
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhHHHHHHHHHHHHHhC
Confidence            999999999999999987753

>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=98.28  E-value=1.7e-06  Score=73.66  Aligned_cols=104  Identities=11%  Similarity=-0.011  Sum_probs=83.3

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHH
Q 039695          331 DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLL  408 (605)
Q Consensus       331 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll  408 (605)
                      ...+..+...+...|++++|...|+....   ..| +...|..+..+|.+.|++++|++.|++.. ..|+ ++..|..+.
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg   96 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCV---LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAA   96 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHH---cCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHH
Confidence            34566677778888999999988888764   345 47778888888999999999999988743 3443 267888999


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCCchH
Q 039695          409 SASRLHGRVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       409 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                      .++...|++++|+..|++++++.|+++...
T Consensus        97 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  126 (148)
T 2vgx_A           97 ECLLQXGELAEAESGLFLAQELIANXPEFX  126 (148)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCcCCCcch
Confidence            999999999999999999999999877653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.26  E-value=1.1e-05  Score=68.00  Aligned_cols=111  Identities=14%  Similarity=-0.051  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc----HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHH
Q 039695          331 DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD----AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWG  405 (605)
Q Consensus       331 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~  405 (605)
                      ...+..+...+...|++++|...|+...   ...|+    ...+..+...|...|++++|.+.+++.. ..|+ +...|.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  103 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQAL---GLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALY  103 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHH---TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHH---HHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHH
Confidence            4445555555666666666666666554   33444    4556666666777777777777766532 2332 256777


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          406 TLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       406 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      .+..++...|++++|...++++++..|++..++..+..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  143 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNIS  143 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHH
Confidence            7777788888888888888888888887766655554443

>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=98.24  E-value=7.8e-06  Score=65.73  Aligned_cols=109  Identities=14%  Similarity=0.129  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      ..+..+...+...|++++|...++.....   .| +...+..+...+.+.|++++|...+++.. ..|+ +...|..+..
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~   80 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHH
Confidence            44555666666677777777777766532   33 46667777777777788888887776642 2332 2667888888


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNT  444 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  444 (605)
                      ++...|++++|...++++++..|+++..+..+..+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            88899999999999999999888887766666554

>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=98.23  E-value=3.8e-06  Score=69.38  Aligned_cols=96  Identities=8%  Similarity=0.035  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc-------hH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN-------AY  438 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~  438 (605)
                      ...+..+...+.+.|++++|++.|++. ...|+ +...|..+..++...|++++|+..++++++++|++..       +|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            345666788888889999998888774 34454 3778888999999999999999999999988876653       56


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          439 VTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      ..++.+|...|++++|.+.+++..+
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6788888899999999999988765

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.22  E-value=6e-06  Score=74.15  Aligned_cols=148  Identities=11%  Similarity=-0.016  Sum_probs=91.1

Q ss_pred             cCCChhHHHH---HHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhC----CCCC-ChhhHHHHHHHHhccCChH
Q 039695           74 RLKKTQVARQ---LFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGN----LVWP-NEFTFATVIKACSMLADLI  145 (605)
Q Consensus        74 ~~g~~~~A~~---~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-d~~t~~~ll~a~~~~~~~~  145 (605)
                      ..|++++|.+   ++..-+.....+|+.+...+...|++++|+..|++....    +..| ...++..+...+...|+++
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            4678888888   655544445667778888888888888888888776551    1111 2335566666777777888


Q ss_pred             HHHHHHHHHHHh----CCC--CchhHHHHHHHHHHhCCCHHHHHHHHhhcCC-----CC----hhhHHHHHHHHHHcCCh
Q 039695          146 TGKQIHTHIETF----GFQ--YNLVVCSSLVDMYGKCNDVDGARRVFDLMGC-----RN----VVSWTSIIVAHAQNAQG  210 (605)
Q Consensus       146 ~a~~~~~~~~~~----g~~--~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~-----~~----~~~~~~li~~~~~~g~~  210 (605)
                      +|...++...+.    +-.  .....+..+...|...|++++|...|++...     .+    ..++..+...+...|++
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            777777766654    101  1234566667777777777777777665431     11    12345556666667777


Q ss_pred             hHHHHHHHHHH
Q 039695          211 HEALEMFREFN  221 (605)
Q Consensus       211 ~~A~~~~~~m~  221 (605)
                      ++|.+.+++..
T Consensus       164 ~~A~~~~~~al  174 (203)
T 3gw4_A          164 LEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77766666554

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.22  E-value=7.4e-06  Score=70.99  Aligned_cols=109  Identities=16%  Similarity=0.067  Sum_probs=86.7

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHH
Q 039695          330 NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTL  407 (605)
Q Consensus       330 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~l  407 (605)
                      +...+..+...+...|++++|...|+..++.   .| +...|..+..+|.+.|++++|+..+++.. ..|+ +...|..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l   85 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            3456666777778888888888888877543   44 47788888888889999999998888743 3443 37789999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHH
Q 039695          408 LSASRLHGRVDIAVEASNQLIESNQQVANAYVTLS  442 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  442 (605)
                      ..++...|++++|+..++++++++|++...+....
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            99999999999999999999999999988665443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.21  E-value=4.7e-06  Score=70.31  Aligned_cols=106  Identities=10%  Similarity=-0.031  Sum_probs=81.8

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      ..+..+...+...|++++|...|+.....   .| +...|..+..+|.+.|++++|+..|++.. ..|+ ++..|..+..
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   94 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCML---DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHH
Confidence            34555666777888888888888877643   45 47777888888888899999988888743 3343 2678888999


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCchHHHH
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVANAYVTL  441 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  441 (605)
                      ++...|++++|...++++++..|+++......
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  126 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARALAAAQPAHEALA  126 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCcchHHHH
Confidence            99999999999999999999999887655443

>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=98.20  E-value=6.8e-06  Score=67.55  Aligned_cols=110  Identities=12%  Similarity=0.010  Sum_probs=77.6

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      ..+..+...+...|++++|...|+...+.   .| +...|..+..+|.+.|++++|++.+++.. ..|+ +...|..+..
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR---APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHH
Confidence            34555556666777777777777766532   34 36677777777888888888888777642 3343 2668888888


Q ss_pred             HHHHcCChHHHHHHHHHHHhcC------CCCCchHHHHHHHH
Q 039695          410 ASRLHGRVDIAVEASNQLIESN------QQVANAYVTLSNTY  445 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~y  445 (605)
                      ++...|++++|...++++++++      |.+..+...+..+.
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~  122 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKAS  122 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHH
Confidence            8888999999999999998888      77666655555443

>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=98.19  E-value=8.5e-06  Score=77.79  Aligned_cols=95  Identities=8%  Similarity=-0.146  Sum_probs=68.2

Q ss_pred             hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHH
Q 039695          128 EFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAH  204 (605)
Q Consensus       128 ~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~  204 (605)
                      ...+..+...+...|++++|...++.+++.. +.+...+..+..+|.+.|++++|...|++...   .+...|..+..+|
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            3455556666667777777777777777654 34667777777888888888888888877654   3456777777888


Q ss_pred             HHcCChhHHHHHHHHHHHc
Q 039695          205 AQNAQGHEALEMFREFNYQ  223 (605)
Q Consensus       205 ~~~g~~~~A~~~~~~m~~~  223 (605)
                      .+.|++++|+..|.+....
T Consensus        83 ~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            8888888888888777653

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.19  E-value=7.7e-06  Score=67.17  Aligned_cols=99  Identities=10%  Similarity=0.079  Sum_probs=87.9

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039695          366 DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNT  444 (605)
Q Consensus       366 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  444 (605)
                      +...+..+...+...|++++|.+.+++.. ..|+ +...|..+...+...|++++|...++++++..|.++.++..++.+
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            36677888899999999999999998753 3343 277899999999999999999999999999999999999999999


Q ss_pred             HHhcCChhHHHHHHHHHHhCC
Q 039695          445 YALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       445 y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      |...|++++|.+.+++..+..
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~  110 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD  110 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHhCCHHHHHHHHHHHHhcC
Confidence            999999999999999987754

>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=98.18  E-value=2.7e-05  Score=67.15  Aligned_cols=127  Identities=9%  Similarity=-0.033  Sum_probs=75.6

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHH
Q 039695          298 TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDM  376 (605)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~  376 (605)
                      .|..+...+...|++++|...|++..... +.+..++..+..++...|++++|...++.....   .| +...+..+...
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~a~~   90 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL---DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHHHHHH
Confidence            34455556666666666666666666532 224556666666666777777777777766432   23 35666667777


Q ss_pred             HhhcCCHHHHHHHHHhCC-CCCCchhhHHH--HHHHHHHHcCChHHHHHHHHHHHh
Q 039695          377 LGRTGRLDEAYKLAKSIQ-VDPDGGPLLWG--TLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       377 ~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~--~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      +.+.|++++|.+.+++.. ..|+ +...+.  .+...+...|++++|...+++..+
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            777777777777776632 2232 133442  333335666777777777776654

>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=98.18  E-value=0.00055  Score=66.31  Aligned_cols=174  Identities=11%  Similarity=0.007  Sum_probs=98.5

Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccC-chhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhc-C
Q 039695          202 VAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLG-RLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC-G  279 (605)
Q Consensus       202 ~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~-g  279 (605)
                      ....+.+..++|++++.++....  +-+...++.--..+...+ .++++..+++.+++.. +.+..+++.-...+.+. +
T Consensus        62 ~~~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~  138 (349)
T 3q7a_A           62 AIAAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISP  138 (349)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcC
Confidence            33344555667888888777643  223333444444444555 4777777777777655 44555666555555554 5


Q ss_pred             -CHHHHHHHHhccCCC---CcchHHHHHHHHHHcCChh--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc-
Q 039695          280 -SVNYSDKVFNRISNP---SVVTYTSMIVGAAKYGLGR--------FSLDLFNEMISRGIKPNDVTFVGVLHACSHSGL-  346 (605)
Q Consensus       280 -~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~--------~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~-  346 (605)
                       +.+++.++++.+.+.   |..+|+--.-.+.+.|.++        ++++.++++.+..+. |...|+.......+.+. 
T Consensus       139 ~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          139 QDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             SCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTC
T ss_pred             CChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccc
Confidence             677777777777753   3345554444444444444        777777777775333 55566655555555554 


Q ss_pred             ------HHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCC
Q 039695          347 ------VDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGR  382 (605)
Q Consensus       347 ------~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~  382 (605)
                            ++++.+.++.++.   ..|+ ...|+.+-..+.+.|+
T Consensus       218 ~~~~~~~~eELe~~~~aI~---~~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIH---LIPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTC
T ss_pred             ccchHHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhcCC
Confidence                  4566666665542   2343 5555555555554444

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.18  E-value=1.8e-05  Score=66.69  Aligned_cols=100  Identities=12%  Similarity=0.012  Sum_probs=88.6

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCc--hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHH
Q 039695          366 DAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDG--GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLS  442 (605)
Q Consensus       366 ~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  442 (605)
                      +...+..+...+.+.|++++|.+.|++. ...|+.  ....|..+..++...|++++|+..++++++..|.++.++..++
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            4778888999999999999999999885 345551  1568888999999999999999999999999999999999999


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCC
Q 039695          443 NTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       443 ~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      .+|...|++++|.+.+++..+..
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcC
Confidence            99999999999999999987754

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.16  E-value=1.4e-05  Score=65.71  Aligned_cols=93  Identities=15%  Similarity=0.058  Sum_probs=72.2

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCC-CCCCchh---hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC---CchHHHHHHH
Q 039695          372 CVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGP---LLWGTLLSASRLHGRVDIAVEASNQLIESNQQV---ANAYVTLSNT  444 (605)
Q Consensus       372 ~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~  444 (605)
                      .+...+.+.|++++|.+.|++.. ..|+. .   ..|..+..++...|++++|...++++++..|++   +.++..++.+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNG-VYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSS-TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            34566777888888888877643 23331 2   477778888888899999999999999888888   6668888889


Q ss_pred             HHhcCChhHHHHHHHHHHhCC
Q 039695          445 YALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       445 y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      |.+.|++++|...++++.+..
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHcCCHHHHHHHHHHHHHHC
Confidence            999999999999988887654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.15  E-value=1.9e-05  Score=68.24  Aligned_cols=65  Identities=12%  Similarity=0.084  Sum_probs=59.2

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...|..+..++...|+++.|+..++++++++|.++.+|..++.+|...|++++|...+++..+..
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            46888899999999999999999999999999999999999999999999999999999887753

>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=98.12  E-value=0.0019  Score=62.49  Aligned_cols=179  Identities=10%  Similarity=-0.038  Sum_probs=119.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChh-hHHHHHHHHhccC-ChHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 039695           96 YTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEF-TFATVIKACSMLA-DLITGKQIHTHIETFGFQYNLVVCSSLVDMY  173 (605)
Q Consensus        96 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~-t~~~ll~a~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y  173 (605)
                      ++.+-....+.+..++|++++++++..  .|+.. .|+.--..+...+ .++++.++++.+++.. +.+..+|+.--..+
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL  133 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            333333444556667899999999884  34443 4565555555667 5889999999888765 55677777776666


Q ss_pred             HhC-C-CHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChh--------HHHHHHHHHHHcCCCCCChhHHHhHHHhh
Q 039695          174 GKC-N-DVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGH--------EALEMFREFNYQSRDRPNQHMLASVINAC  240 (605)
Q Consensus       174 ~~~-g-~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~~~~~p~~~t~~~ll~a~  240 (605)
                      .+. + +.++++++++.+.+   +|-.+|+--.-.+.+.|.++        ++++.+.++.+..  .-|...++.....+
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d--p~N~SAW~~R~~lL  211 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD--GRNNSAWGWRWYLR  211 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHH
Confidence            665 6 78889999988876   45566665555555555555        8888888888764  44666666666666


Q ss_pred             cccCc-------hhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCC
Q 039695          241 ASLGR-------LVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGS  280 (605)
Q Consensus       241 ~~~~~-------~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~  280 (605)
                      .+.+.       ++++.+....++... +.|...++-+-..+.+.|+
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            66554       456666666666654 4566666666555555554

>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=98.12  E-value=1.6e-05  Score=81.60  Aligned_cols=96  Identities=14%  Similarity=0.036  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...|..+..+|.+.|++++|+..+++.. ..|+ +...|..+..++...|++++|+..|+++++++|++..++..+..++
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~  395 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQ  395 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            5678889999999999999999998743 3443 3778999999999999999999999999999999999999999999


Q ss_pred             HhcCChhHHHH-HHHHHHh
Q 039695          446 ALAGEWENVHS-LRSEMKR  463 (605)
Q Consensus       446 ~~~g~~~~a~~-~~~~m~~  463 (605)
                      .+.|+++++.+ .++.|..
T Consensus       396 ~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          396 KKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHHh
Confidence            99999988774 4555543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.11  E-value=2.7e-06  Score=69.07  Aligned_cols=84  Identities=14%  Similarity=-0.022  Sum_probs=60.7

Q ss_pred             cCCHHHHHHHHHhCCCC----CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHH
Q 039695          380 TGRLDEAYKLAKSIQVD----PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVH  455 (605)
Q Consensus       380 ~g~~~~A~~~~~~m~~~----p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~  455 (605)
                      .|++++|+..|++....    |+ +...|..+..++...|++++|+..++++++.+|+++.++..++.+|.+.|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKD-LAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCcc-HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            46677777777664322    32 35577778888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHhC
Q 039695          456 SLRSEMKRT  464 (605)
Q Consensus       456 ~~~~~m~~~  464 (605)
                      ..+++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            888877654

>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=98.11  E-value=1.6e-05  Score=82.08  Aligned_cols=115  Identities=10%  Similarity=0.011  Sum_probs=56.7

Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHH
Q 039695          306 AAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLD  384 (605)
Q Consensus       306 ~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~  384 (605)
                      +.+.|++++|++.|++..+.. +-+..++..+..++...|++++|.+.+++..+   +.|+ ...+..+..+|.+.|+++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIE---LDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---SCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHH
Confidence            344555555666655555531 11345555555556666666666666665542   2333 555555666666666666


Q ss_pred             HHHHHHHhCC-CCCCchhhHHHHHHHH--HHHcCChHHHHHHHH
Q 039695          385 EAYKLAKSIQ-VDPDGGPLLWGTLLSA--SRLHGRVDIAVEASN  425 (605)
Q Consensus       385 ~A~~~~~~m~-~~p~~~~~~~~~ll~~--~~~~g~~~~a~~~~~  425 (605)
                      +|.+.+++.. ..|+ +...+..+..+  +...|++++|++.++
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            6666655532 2222 13344444433  555566666666665

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.09  E-value=5e-05  Score=77.28  Aligned_cols=165  Identities=5%  Similarity=-0.169  Sum_probs=116.6

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHc-CCCCCHH----HHHHHHHHHhccCcHHHHHHHHHHHHHh---cCCCCc-HHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISR-GIKPNDV----TFVGVLHACSHSGLVDEGIQHLDSMYRK---YGIIPD-AKH  369 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~pd~~----t~~~ll~a~~~~g~~~~a~~~~~~m~~~---~~~~p~-~~~  369 (605)
                      +..+...|...|++++|.+++.++... +..++..    +.+.+-..+...|..+++..++......   .+..+. ..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            567788888899999999888877652 1122221    2223333445678899998888776432   233333 667


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC----C--CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC---CCC----Cc
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQ----V--DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN---QQV----AN  436 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~----~--~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---p~~----~~  436 (605)
                      +..+...|...|++++|..++++..    .  .......++..++..|...|+++.|...+++++...   +..    ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            8889999999999999999987642    1  111124578889999999999999999999988653   222    13


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          437 AYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       437 ~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .+..++..|...|++++|.+.+.+..+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            566777888889999999988776654

>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=98.09  E-value=1.2e-05  Score=66.95  Aligned_cols=100  Identities=10%  Similarity=-0.076  Sum_probs=75.6

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHH
Q 039695          330 NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTL  407 (605)
Q Consensus       330 d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~l  407 (605)
                      +...+..+...+...|++++|...|......   .|+ ...+..+..+|...|++++|...+++.. ..|+ +...|..+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l   83 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFL   83 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHH
Confidence            4566677777777778888888877777533   343 6777778888888888888888877643 3343 26788888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCC
Q 039695          408 LSASRLHGRVDIAVEASNQLIESNQQ  433 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~~~p~  433 (605)
                      ..++...|+++.|+..++++++..|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHChh
Confidence            89999999999999999999988776

>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=98.09  E-value=1.5e-05  Score=67.31  Aligned_cols=94  Identities=12%  Similarity=0.047  Sum_probs=73.3

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCCCC-------c----hhhHHHHHHHHHHHcCChHHHHHHHHHHHhc-------C
Q 039695          371 TCVVDMLGRTGRLDEAYKLAKSI-QVDPD-------G----GPLLWGTLLSASRLHGRVDIAVEASNQLIES-------N  431 (605)
Q Consensus       371 ~~li~~~~~~g~~~~A~~~~~~m-~~~p~-------~----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-------~  431 (605)
                      ......+.+.|++++|++.|++. ...|+       .    +...|..+..++...|++++|+..+++++++       +
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            34455556666666666666552 12222       0    1338999999999999999999999999999       9


Q ss_pred             CCCCchH----HHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          432 QQVANAY----VTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       432 p~~~~~~----~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      |++..+|    ...+.++...|++++|...|++..+.
T Consensus        95 pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           95 QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            9999999    99999999999999999999988764

>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=98.08  E-value=6.6e-06  Score=84.98  Aligned_cols=119  Identities=11%  Similarity=0.003  Sum_probs=99.1

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcC
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHG  415 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g  415 (605)
                      ...+...|++++|.+.+++..+.   .|+ ...|..+..+|.+.|++++|++.+++.. ..|+ +...|..+..++...|
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcC
Confidence            34566789999999999998643   565 8899999999999999999999998743 4454 3778999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCCchHHHHHHH--HHhcCChhHHHHHHHH
Q 039695          416 RVDIAVEASNQLIESNQQVANAYVTLSNT--YALAGEWENVHSLRSE  460 (605)
Q Consensus       416 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~--y~~~g~~~~a~~~~~~  460 (605)
                      ++++|++.++++++..|++..++..+..+  +.+.|++++|.+.+++
T Consensus        89 ~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           89 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             CHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            99999999999999999999999988888  8899999999999873

>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=98.04  E-value=1.3e-05  Score=65.91  Aligned_cols=98  Identities=15%  Similarity=0.142  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------CchH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV-------ANAY  438 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~  438 (605)
                      ...+..+...+...|++++|...+++.. ..|+ +...|..+...+...|+++.|...++++++..|.+       +.++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4566777888888899999988887743 2332 27788889999999999999999999999987766       6788


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          439 VTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ..++.+|...|++++|.+.+++..+..
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            999999999999999999999987743

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.99  E-value=3.6e-05  Score=65.77  Aligned_cols=95  Identities=15%  Similarity=0.100  Sum_probs=62.2

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC----C--CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCC------CCCc
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ----V--DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQ------QVAN  436 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~----~--~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p------~~~~  436 (605)
                      .+..+...+...|++++|.+.+++..    .  .+.....++..+...+...|++++|...++++++..+      ....
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            44555555666666666666555421    0  1111134566777778888888888888888776431      1134


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          437 AYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       437 ~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      ++..++.+|...|++++|.+.+++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            677888889999999999998887654

>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=4.5e-05  Score=74.80  Aligned_cols=129  Identities=9%  Similarity=-0.041  Sum_probs=90.3

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcC
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPN--------------DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYG  362 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd--------------~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~  362 (605)
                      ..|..+...|.+.|++++|+..|++.........              ...+..+..++...|++++|...++..++   
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~---  224 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE---  224 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---
Confidence            3455555566666666666666666665321111              36777788888888888888888888864   


Q ss_pred             CCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHH-HHHHHHHHh
Q 039695          363 IIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIA-VEASNQLIE  429 (605)
Q Consensus       363 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a-~~~~~~~~~  429 (605)
                      +.| +...|..+..+|...|++++|+..|++.. ..|+ +...+..+..++...|+.++| ...++++++
T Consensus       225 ~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          225 LDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345 47788888888889999999988887743 3443 266888888888888888888 445666553

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.97  E-value=2.5e-05  Score=61.97  Aligned_cols=100  Identities=16%  Similarity=0.048  Sum_probs=58.3

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCC-chhhHHHHHHHHH
Q 039695          334 FVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPD-GGPLLWGTLLSAS  411 (605)
Q Consensus       334 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~-~~~~~~~~ll~~~  411 (605)
                      +..+...+...|++++|...++...+..  +.+...+..+...+.+.|++++|.+.+++.. ..|+ .+...|..+..++
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHH
Confidence            3444445555555555555555554321  1234555566666666666666666665532 1221 0256677777777


Q ss_pred             HHc-CChHHHHHHHHHHHhcCCCCC
Q 039695          412 RLH-GRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       412 ~~~-g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      ... |++++|.+.++++++..|+++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHhCCHHHHHHHHHHHhhcccCCC
Confidence            777 777777777777777777653

>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=97.97  E-value=3.3e-05  Score=76.72  Aligned_cols=90  Identities=8%  Similarity=-0.081  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...|..+..+|.+.|++++|++.+++. ...|+ +...|..+..++...|++++|+..+++++++.|++..++..+..++
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            678888999999999999999999874 34454 3778999999999999999999999999999999999999999999


Q ss_pred             HhcCChhHHHHH
Q 039695          446 ALAGEWENVHSL  457 (605)
Q Consensus       446 ~~~g~~~~a~~~  457 (605)
                      ...++.+++.+.
T Consensus       352 ~~~~~~~~a~k~  363 (370)
T 1ihg_A          352 QKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            988888777653

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.94  E-value=1.2e-05  Score=79.01  Aligned_cols=148  Identities=10%  Similarity=-0.037  Sum_probs=78.1

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDM  376 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  376 (605)
                      ..|..+...+.+.|++++|+..|++....  .|+...       +...+..+++...+.           ...|..+..+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~  239 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHH
Confidence            44566666777778888888888877663  344332       223334443332211           1367788888


Q ss_pred             HhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHH-hcCChhHH
Q 039695          377 LGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYA-LAGEWENV  454 (605)
Q Consensus       377 ~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~-~~g~~~~a  454 (605)
                      |.+.|++++|+..+++.. ..|+ +...|..+..++...|++++|+..|+++++++|++..++..|..+.. ..+..+.+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999988743 3443 27788899999999999999999999999999998888888887743 45667778


Q ss_pred             HHHHHHHHhCC
Q 039695          455 HSLRSEMKRTG  465 (605)
Q Consensus       455 ~~~~~~m~~~~  465 (605)
                      .+.+++|....
T Consensus       319 ~~~~~~~l~~~  329 (338)
T 2if4_A          319 KEMYKGIFKGK  329 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHhhCCC
Confidence            88888776544

>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=97.91  E-value=0.0013  Score=63.36  Aligned_cols=188  Identities=11%  Similarity=0.027  Sum_probs=93.0

Q ss_pred             hhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcC--CHHHHHHHHhccCC---CCcchHHHHHHHHHHcCC-hhHHHHHH
Q 039695          246 LVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCG--SVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGL-GRFSLDLF  319 (605)
Q Consensus       246 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g--~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~-~~~A~~l~  319 (605)
                      ++++..++..++... +.+..+|+.-.-.+.+.|  .++++..+++.+.+   .|..+|+--.-.+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            345555555555543 345555555544555555  35666666666653   444556555555556666 46777777


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhcc--------------CcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhc----
Q 039695          320 NEMISRGIKPNDVTFVGVLHACSHS--------------GLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRT----  380 (605)
Q Consensus       320 ~~m~~~g~~pd~~t~~~ll~a~~~~--------------g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~----  380 (605)
                      .++++..+. |...|+.......+.              +.++++.+++...+.   ..|+ ...|+-+--.+.+.    
T Consensus       169 ~~~I~~~p~-N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~---~~P~d~SaW~Y~r~ll~~~~~~~  244 (331)
T 3dss_A          169 DSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFF---TDPNDQSAWFYHRWLLGAGSGRC  244 (331)
T ss_dssp             HHHHHHCSC-CHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHSSSCGG
T ss_pred             HHHHHHCCC-CHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhccCcc
Confidence            777765332 444444433333222              345556666655542   2343 45554444444433    


Q ss_pred             -------CCHHHHHHHHHhCC-CCCCchhhHHHHHHHHH-----HHcCChHHHHHHHHHHHhcCCCCCchHHHH
Q 039695          381 -------GRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSAS-----RLHGRVDIAVEASNQLIESNQQVANAYVTL  441 (605)
Q Consensus       381 -------g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~-----~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  441 (605)
                             +.++++++.++++. ..|+  . .|..+..+.     ...|..++....+.++++++|...+-|.-+
T Consensus       245 ~~~~~~~~~l~~el~~~~elle~~pd--~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~  315 (331)
T 3dss_A          245 ELSVEKSTVLQSELESCKELQELEPE--N-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  315 (331)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHHHHCTT--C-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHHhhCcc--c-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHH
Confidence                   33555555555432 3344  1 232211111     123445555666666666666554444433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.90  E-value=7e-05  Score=63.88  Aligned_cols=133  Identities=11%  Similarity=0.008  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc----HHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIK-PN----DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD----AKH  369 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-pd----~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~  369 (605)
                      +..+...|...|++++|+..+++..+.... ++    ..++..+...+...|++++|...++.......-.++    ...
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            334444455555555555555554431000 11    134555666666677777777766665432211111    445


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC----C--CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQ----V--DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN  431 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~----~--~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  431 (605)
                      +..+...+...|++++|.+.+++..    .  .+.....++..+...+...|++++|.+.+++.++..
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            6667777777888888877776532    1  111113467778888888999999999988887654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.90  E-value=2.7e-05  Score=63.52  Aligned_cols=96  Identities=9%  Similarity=0.039  Sum_probs=60.4

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHH
Q 039695          336 GVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRL  413 (605)
Q Consensus       336 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~  413 (605)
                      .+...+...|++++|...|+..++   ..| +...+..+..++.+.|++++|+..+++.. ..|+ +...|..+..++..
T Consensus        22 ~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~   97 (121)
T 1hxi_A           22 EEGLSMLKLANLAEAALAFEAVCQ---KEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            344455666777777777766653   244 36666667777777777777777776632 3443 25677777778888


Q ss_pred             cCChHHHHHHHHHHHhcCCCCC
Q 039695          414 HGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       414 ~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      .|++++|+..++++++.+|.+.
T Consensus        98 ~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHC------
T ss_pred             cCCHHHHHHHHHHHHHhCcCCC
Confidence            8888888888888888777653

>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=97.89  E-value=2.6e-05  Score=65.88  Aligned_cols=70  Identities=19%  Similarity=0.143  Sum_probs=54.6

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CC-------CCCchhhHH----HHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSI-QV-------DPDGGPLLW----GTLLSASRLHGRVDIAVEASNQLIESNQQVAN  436 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m-~~-------~p~~~~~~~----~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  436 (605)
                      .|..+..++.+.|++++|+..+++. ..       .|+ +...|    .....++...|++++|+..|++++++.|.+..
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~  137 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKG  137 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHH
Confidence            6666666777777777776666552 23       665 46688    99999999999999999999999999998876


Q ss_pred             hHH
Q 039695          437 AYV  439 (605)
Q Consensus       437 ~~~  439 (605)
                      .+.
T Consensus       138 ~~~  140 (159)
T 2hr2_A          138 ETP  140 (159)
T ss_dssp             CCT
T ss_pred             HHH
Confidence            544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.89  E-value=1.4e-05  Score=64.67  Aligned_cols=93  Identities=15%  Similarity=0.046  Sum_probs=64.0

Q ss_pred             cCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHH
Q 039695          344 SGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAV  421 (605)
Q Consensus       344 ~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~  421 (605)
                      .|++++|...|++.++...-.|+ ...+..+..+|.+.|++++|++.+++.. ..|+ ++..+..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHH
Confidence            46666777777766421000243 5667777788888888888888887743 3444 2678888888889999999999


Q ss_pred             HHHHHHHhcCCCCCch
Q 039695          422 EASNQLIESNQQVANA  437 (605)
Q Consensus       422 ~~~~~~~~~~p~~~~~  437 (605)
                      ..++++++..|+++..
T Consensus        82 ~~~~~al~~~p~~~~~   97 (117)
T 3k9i_A           82 ELLLKIIAETSDDETI   97 (117)
T ss_dssp             HHHHHHHHHHCCCHHH
T ss_pred             HHHHHHHHhCCCcHHH
Confidence            9999999888887654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.87  E-value=9.8e-05  Score=75.77  Aligned_cols=126  Identities=9%  Similarity=0.013  Sum_probs=97.8

Q ss_pred             HHhccCcHHHHHHHHHHHHHhcC--C---CCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC---------CCCCchhhHH
Q 039695          340 ACSHSGLVDEGIQHLDSMYRKYG--I---IPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ---------VDPDGGPLLW  404 (605)
Q Consensus       340 a~~~~g~~~~a~~~~~~m~~~~~--~---~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~---------~~p~~~~~~~  404 (605)
                      .+...|++++|..++++......  +   .|+ ..+++.|..+|...|++++|..++++..         ..|+ ...++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~-~a~~l  396 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQ-LGMAV  396 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHH-HHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHH-HHHHH
Confidence            45577888888888877654432  1   233 6778889999999999999988877632         2233 24579


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHh-----cCCCCCc---hHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          405 GTLLSASRLHGRVDIAVEASNQLIE-----SNQQVAN---AYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       405 ~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~---~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +.|...|...|++++|+.+++++++     ++|+++.   ....|..++...|++++|..++.+++++-.
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~  466 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAAL  466 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999986     4677765   456788889999999999999999987543

>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=97.87  E-value=3.7e-05  Score=63.00  Aligned_cols=109  Identities=8%  Similarity=0.023  Sum_probs=60.4

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCC---Cch---hhHHHH
Q 039695          334 FVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDP---DGG---PLLWGT  406 (605)
Q Consensus       334 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p---~~~---~~~~~~  406 (605)
                      +..+...+...|++++|...|+......  +.+...+..+...|.+.|++++|...+++.. ..|   +..   ..+|..
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            3444444455555555555555543221  1234455555555555666666665555432 111   100   346677


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       407 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      +..++...|+++.|...++++++..| ++.....+..++
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  122 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHH
Confidence            77778888888888888888888777 455555554443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.87  E-value=0.0002  Score=58.59  Aligned_cols=102  Identities=14%  Similarity=-0.035  Sum_probs=61.5

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCc--hhhHHHHHHHHHHH
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDG--GPLLWGTLLSASRL  413 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~--~~~~~~~ll~~~~~  413 (605)
                      ...+...|++++|...|+.+.+...-.|. ...+..+...+.+.|++++|...+++.. ..|+.  .+..+..+..++..
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~   88 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYG   88 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHH
Confidence            33444556666666666655433211111 1355556666677777777777766532 22331  13456777778888


Q ss_pred             cCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          414 HGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       414 ~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                      .|+++.|...++++++..|+++.+..
T Consensus        89 ~g~~~~A~~~~~~~~~~~p~~~~~~~  114 (129)
T 2xev_A           89 EGKNTEAQQTLQQVATQYPGSDAARV  114 (129)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTSHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHCCCChHHHH
Confidence            88888888888888888887654433

>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=97.85  E-value=8.5e-05  Score=66.45  Aligned_cols=99  Identities=10%  Similarity=-0.036  Sum_probs=81.0

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCch---------------hhHHHHHHHHHHHcCChHHHHHHHHHHHhc
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGG---------------PLLWGTLLSASRLHGRVDIAVEASNQLIES  430 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~---------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  430 (605)
                      ...+..+...+.+.|++++|.+.|++.. ..|+..               ...|..+..++...|++++|+..++++++.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            4445566677777788888887777632 222211               268889999999999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          431 NQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       431 ~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +|+++.++..++.+|...|++++|.+.+++..+..
T Consensus       118 ~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~  152 (198)
T 2fbn_A          118 DKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  152 (198)
T ss_dssp             STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             CcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence            99999999999999999999999999999987753

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.83  E-value=3.8e-05  Score=66.25  Aligned_cols=76  Identities=14%  Similarity=0.045  Sum_probs=61.9

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC-chHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA-NAYVTLSN  443 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~-~~~~~l~~  443 (605)
                      ...|..+..+|.+.|++++|+..+++.. ..|+ +...|..+..++...|++++|...++++++++|+++ .+...+..
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~  140 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKI  140 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            5678888899999999999999988743 3444 377899999999999999999999999999999987 33444433

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.81  E-value=3.2e-05  Score=61.53  Aligned_cols=94  Identities=13%  Similarity=0.049  Sum_probs=74.8

Q ss_pred             CcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC------Cch
Q 039695          365 PDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV------ANA  437 (605)
Q Consensus       365 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~  437 (605)
                      ++...+..+...+.+.|++++|++.+++.. ..|+ ++..|..+..++...|++++|+..++++++..|++      ..+
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~   80 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKL   80 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHH
Confidence            345667778888889999999999888743 3443 27789999999999999999999999999999998      667


Q ss_pred             HHHHHHHHHhcCChhHHHHHHH
Q 039695          438 YVTLSNTYALAGEWENVHSLRS  459 (605)
Q Consensus       438 ~~~l~~~y~~~g~~~~a~~~~~  459 (605)
                      +..++.++...|++++|.+.++
T Consensus        81 ~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           81 QYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHHhHhhhHhHHH
Confidence            7778888888777776655443

>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=97.81  E-value=0.00027  Score=57.94  Aligned_cols=58  Identities=10%  Similarity=-0.075  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      +..+...+.+.|++++|+..|++.++.. +-+...|..+..++...|++++|++.++..
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~a   68 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKA   68 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHH
Confidence            3344444555555555555555544421 112334444444455555555555544444

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.78  E-value=5.6e-05  Score=74.17  Aligned_cols=152  Identities=11%  Similarity=-0.010  Sum_probs=80.9

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 039695          265 DVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHS  344 (605)
Q Consensus       265 ~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~  344 (605)
                      ...+..+...|.+.|++++|...|++....+....     .+...|+.+++...+.          ...|..+..++.+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-----~~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~  243 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-----MFQLYGKYQDMALAVK----------NPCHLNIAACLIKL  243 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-----HHTCCHHHHHHHHHHH----------THHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-----hhhhcccHHHHHHHHH----------HHHHHHHHHHHHHc
Confidence            45677888999999999999999998653221111     1222333333332221          13677788888999


Q ss_pred             CcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHH-HHHcCChHHHH
Q 039695          345 GLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSA-SRLHGRVDIAV  421 (605)
Q Consensus       345 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~-~~~~g~~~~a~  421 (605)
                      |++++|...++..++   +.| +...|..+..+|...|++++|...|++.. ..|+ +...+..|... ....+..+.+.
T Consensus       244 g~~~~A~~~~~~al~---~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          244 KRYDEAIGHCNIVLT---EEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             TCCHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             CCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999998864   345 47888999999999999999999998864 4454 25566666655 34556778888


Q ss_pred             HHHHHHHhcCCCCC
Q 039695          422 EASNQLIESNQQVA  435 (605)
Q Consensus       422 ~~~~~~~~~~p~~~  435 (605)
                      ..|+++++..|.++
T Consensus       320 ~~~~~~l~~~p~~~  333 (338)
T 2if4_A          320 EMYKGIFKGKDEGG  333 (338)
T ss_dssp             --------------
T ss_pred             HHHHHhhCCCCCCC
Confidence            99999999888765

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.77  E-value=0.00011  Score=57.29  Aligned_cols=64  Identities=14%  Similarity=0.178  Sum_probs=60.6

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +..|..+..++...|++++|+..++++++.+|+++.+|..++.+|...|++++|.+.+++..+.
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            7789999999999999999999999999999999999999999999999999999999988764

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.77  E-value=0.00045  Score=70.15  Aligned_cols=159  Identities=7%  Similarity=-0.030  Sum_probs=116.0

Q ss_pred             HHHHHcCChhHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcH
Q 039695          304 VGAAKYGLGRFSLDLFNEMISRGIKPN----------------DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDA  367 (605)
Q Consensus       304 ~~~~~~g~~~~A~~l~~~m~~~g~~pd----------------~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~  367 (605)
                      ..+.+.|++++|++.|.+..+......                ...+..+...|...|++++|.+++..+....+-.++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            345667888888888888776422211                1246778899999999999999999886544433332


Q ss_pred             ----HHHHHHHHHHhhcCCHHHHHHHHHhCC-------CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC-----
Q 039695          368 ----KHYTCVVDMLGRTGRLDEAYKLAKSIQ-------VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN-----  431 (605)
Q Consensus       368 ----~~~~~li~~~~~~g~~~~A~~~~~~m~-------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----  431 (605)
                          .+.+.+...+...|.+++|.++++...       ..+. ...++..|...+...|++++|...++++....     
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFL-KHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSS-HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHH-HHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence                233444455566789999998876532       1221 24578889999999999999999999988631     


Q ss_pred             -CCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          432 -QQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       432 -p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                       |....+|..++.+|...|++++|..++++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence             22234788999999999999999999988764

>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=97.77  E-value=0.0011  Score=63.84  Aligned_cols=181  Identities=12%  Similarity=0.008  Sum_probs=126.4

Q ss_pred             HHHHHHHHhccCC---CCcchHHHHHHHHHHcCC--hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc-HHHHHHHH
Q 039695          281 VNYSDKVFNRISN---PSVVTYTSMIVGAAKYGL--GRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGL-VDEGIQHL  354 (605)
Q Consensus       281 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~--~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~-~~~a~~~~  354 (605)
                      ++++..+++.+..   .+..+|+.-.-.+.+.|+  +++++.+++++.+...+ |...|+.---.....|. ++++.+.+
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            4667777776653   566778877777777774  78999999999986433 66677666666667777 68999999


Q ss_pred             HHHHHhcCCCC-cHHHHHHHHHHHhhc--------------CCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHc----
Q 039695          355 DSMYRKYGIIP-DAKHYTCVVDMLGRT--------------GRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLH----  414 (605)
Q Consensus       355 ~~m~~~~~~~p-~~~~~~~li~~~~~~--------------g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~----  414 (605)
                      +.+++.   .| |...|+....++.+.              +.++++++.+.+.. ..|+ +...|+-+-..+...    
T Consensus       169 ~~~I~~---~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~  244 (331)
T 3dss_A          169 DSLITR---NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRC  244 (331)
T ss_dssp             HHHHHH---CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGG
T ss_pred             HHHHHH---CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCcc
Confidence            998754   34 466676666665554              56888999887743 4454 377787555555444    


Q ss_pred             -------CChHHHHHHHHHHHhcCCCCCchHHHHHHH---HHhcCChhHHHHHHHHHHhCCC
Q 039695          415 -------GRVDIAVEASNQLIESNQQVANAYVTLSNT---YALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       415 -------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~---y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                             +.++++++.++++++..|++.-.+..++..   ....|..+++...+.++.+.++
T Consensus       245 ~~~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp  306 (331)
T 3dss_A          245 ELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  306 (331)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCG
T ss_pred             ccchHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCc
Confidence                   457899999999999999884333333222   2245777888888888877544

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.74  E-value=9.7e-05  Score=56.12  Aligned_cols=82  Identities=24%  Similarity=0.285  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ...+..+...+.+.|++++|...+++.. ..|+ +...|..+..++...|++++|...++++++.+|.++.++..++.++
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~   87 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence            5566777778888888888888887642 2333 2678888888999999999999999999999998888888888887


Q ss_pred             HhcC
Q 039695          446 ALAG  449 (605)
Q Consensus       446 ~~~g  449 (605)
                      .+.|
T Consensus        88 ~~~g   91 (91)
T 1na3_A           88 QKQG   91 (91)
T ss_dssp             HHHC
T ss_pred             HhcC
Confidence            6654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.73  E-value=6.5e-05  Score=60.37  Aligned_cols=79  Identities=15%  Similarity=0.078  Sum_probs=65.6

Q ss_pred             HHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          385 EAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       385 ~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      +|++.+++. ...|+ +...|..+...+...|++++|+..++++++.+|.++.+|..++.+|...|++++|...+++..+
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345555543 33443 3778899999999999999999999999999999999999999999999999999999998876


Q ss_pred             C
Q 039695          464 T  464 (605)
Q Consensus       464 ~  464 (605)
                      .
T Consensus        82 ~   82 (115)
T 2kat_A           82 A   82 (115)
T ss_dssp             H
T ss_pred             h
Confidence            4

>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=97.73  E-value=0.0008  Score=70.69  Aligned_cols=169  Identities=7%  Similarity=-0.082  Sum_probs=131.3

Q ss_pred             CHHHHHHHHhccCC---CCcchHHHHHHHHHHcCC----------hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC-
Q 039695          280 SVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGL----------GRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSG-  345 (605)
Q Consensus       280 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~----------~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g-  345 (605)
                      .-++|.+.++.+..   .+...|+.--..+...|+          ++++++.++++.+...+ +..+|..-.-++.+.+ 
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            34677888877764   334567666566666666          89999999999986433 5667777777777888 


Q ss_pred             -cHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHhhcC-CHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHc-------
Q 039695          346 -LVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLGRTG-RLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLH-------  414 (605)
Q Consensus       346 -~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g-~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~-------  414 (605)
                       +++++.+.++.+.+.   .| +...|+.-..++.+.| .++++++.++++. ..|+ +...|+.....+...       
T Consensus       123 ~~~~~el~~~~k~l~~---d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          123 PNWARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             CCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccHHHHHHHHHHHHhh---ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccccc
Confidence             679999999999753   45 4777888888888888 8999999998865 3443 477888888777663       


Q ss_pred             -------CChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhH
Q 039695          415 -------GRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWEN  453 (605)
Q Consensus       415 -------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  453 (605)
                             +.++++.+.+.++++.+|++..+|..+...+.+.++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                   457899999999999999999999999999999988655

>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=97.71  E-value=0.0002  Score=71.05  Aligned_cols=65  Identities=8%  Similarity=-0.035  Sum_probs=61.4

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ..+|..+..++...|++++|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+..
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~  337 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  337 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            67899999999999999999999999999999999999999999999999999999999987754

>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=97.58  E-value=0.00026  Score=72.57  Aligned_cols=100  Identities=11%  Similarity=-0.059  Sum_probs=79.6

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCch--------------hhHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 039695          367 AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGG--------------PLLWGTLLSASRLHGRVDIAVEASNQLIESN  431 (605)
Q Consensus       367 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~--------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  431 (605)
                      ...+..+...|.+.|++++|+..|++.. ..|+..              ...|..+..++.+.|++++|+..++++++++
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            3445556666666666666666665532 223311              4688999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          432 QQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       432 p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      |+++.+|..++.+|...|++++|...|++..+...
T Consensus       348 p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P  382 (457)
T 1kt0_A          348 SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP  382 (457)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999987643

>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=97.56  E-value=4.1e-05  Score=64.54  Aligned_cols=88  Identities=8%  Similarity=0.002  Sum_probs=68.2

Q ss_pred             hhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCC----------hHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039695          378 GRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGR----------VDIAVEASNQLIESNQQVANAYVTLSNTYA  446 (605)
Q Consensus       378 ~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  446 (605)
                      .|.+++++|.+.++... ..|+ +...|..+..++...++          +++|+..|+++++++|++..+|..++++|.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence            34556677777766532 3443 26677777777776665          469999999999999999999999999999


Q ss_pred             hcC-----------ChhHHHHHHHHHHhCCC
Q 039695          447 LAG-----------EWENVHSLRSEMKRTGI  466 (605)
Q Consensus       447 ~~g-----------~~~~a~~~~~~m~~~~~  466 (605)
                      ..|           ++++|.+.|++..+...
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHhCC
Confidence            875           89999999999988654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.48  E-value=0.00067  Score=51.88  Aligned_cols=67  Identities=6%  Similarity=-0.066  Sum_probs=60.6

Q ss_pred             hhHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          401 PLLWGTLLSASRLHGR---VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      +..|..+..++...++   .++|..+++++++.+|+++.+...++..+.+.|++++|...|+++.+....
T Consensus         6 ~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            6 ATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             HHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            7788888888876665   799999999999999999999999999999999999999999999887653

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.39  E-value=0.00062  Score=51.46  Aligned_cols=66  Identities=21%  Similarity=0.285  Sum_probs=61.3

Q ss_pred             hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          400 GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       400 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ....|..+...+...|++++|+..++++++..|.++.++..++.+|.+.|++++|.+.+++..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   73 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD   73 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            366888899999999999999999999999999999999999999999999999999999987754

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.39  E-value=0.00064  Score=53.66  Aligned_cols=66  Identities=17%  Similarity=0.034  Sum_probs=61.9

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ...|..+...+...|++++|+..++++++..|.++.++..++.+|.+.|++++|.+.+++..+...
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   69 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS   69 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            678889999999999999999999999999999999999999999999999999999999887543

>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=97.38  E-value=0.0025  Score=52.97  Aligned_cols=90  Identities=6%  Similarity=-0.147  Sum_probs=51.6

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH----cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh-
Q 039695          373 VVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL----HGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL-  447 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~-  447 (605)
                      |..+|...+..++|.+.|++.....+  +..+..|...|..    .++.++|...++++.+.  .++.++..|+.+|.. 
T Consensus        31 lg~~y~~g~~~~~A~~~~~~Aa~~g~--~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~a~~~Lg~~y~~G  106 (138)
T 1klx_A           31 LSLVSNSQINKQKLFQYLSKACELNS--GNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL--NDQDGCLILGYKQYAG  106 (138)
T ss_dssp             HHHHTCTTSCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT--TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHcCCC--HHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcC--CCHHHHHHHHHHHHCC
Confidence            44444444445555555554332233  5555555555555    55666666666666655  234566666666666 


Q ss_pred             ---cCChhHHHHHHHHHHhCCC
Q 039695          448 ---AGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       448 ---~g~~~~a~~~~~~m~~~~~  466 (605)
                         .+++++|.+.+++..+.|.
T Consensus       107 ~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A          107 KGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTTC
T ss_pred             CCCCcCHHHHHHHHHHHHHCCC
Confidence               6667777777766666554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.33  E-value=0.00079  Score=69.05  Aligned_cols=116  Identities=13%  Similarity=0.050  Sum_probs=85.4

Q ss_pred             HHHhhcCCHHHHHHHHHhCC------CCCCc--hhhHHHHHHHHHHHcCChHHHHHHHHHHHh-----cCCCCCc---hH
Q 039695          375 DMLGRTGRLDEAYKLAKSIQ------VDPDG--GPLLWGTLLSASRLHGRVDIAVEASNQLIE-----SNQQVAN---AY  438 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~------~~p~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~---~~  438 (605)
                      ..+...|++++|+.++++..      ..|+.  ...+++.|..+|...|++++|+.+++++++     ++|+++.   ++
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            34567899999999887632      12221  245899999999999999999999999986     4566544   78


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCccCCceeEEEeCCEEeeeeccccCccchHHHHHHHHHHHHHH
Q 039695          439 VTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKM  508 (605)
Q Consensus       439 ~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m  508 (605)
                      +.|+.+|...|++++|..++++..+--..                  .-...||...++...+.+...++
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~~------------------~lG~~Hp~~~~~~~~l~~~~~e~  448 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILLV------------------THGPSHPITKDLEAMRMQTEMEL  448 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHH------------------HTCTTSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHH------------------HhCCCChHHHHHHHHHHHHHHHH
Confidence            89999999999999999999988652110                  11236888887776665555444

>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=97.29  E-value=0.00016  Score=60.96  Aligned_cols=86  Identities=17%  Similarity=0.135  Sum_probs=51.7

Q ss_pred             cHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCC----------HHHHHHHHHhC-CCCCCchhhHHHHHHHHHHH
Q 039695          346 LVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGR----------LDEAYKLAKSI-QVDPDGGPLLWGTLLSASRL  413 (605)
Q Consensus       346 ~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~----------~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~  413 (605)
                      .+++|.+.++...+   +.|+ ...|..+..++...++          +++|+..|++. ...|+ ....|..+..+|..
T Consensus        17 ~feeA~~~~~~Ai~---l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           17 LFEQIRQDAENTYK---SNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHH
Confidence            34444444444432   2332 4444444444444433          34666666652 34444 25567777777766


Q ss_pred             c-----------CChHHHHHHHHHHHhcCCCCC
Q 039695          414 H-----------GRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       414 ~-----------g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      .           |++++|++.|+++++++|++.
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHhCCCCH
Confidence            5           589999999999999999875

>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=97.23  E-value=0.0018  Score=65.25  Aligned_cols=118  Identities=8%  Similarity=0.021  Sum_probs=87.3

Q ss_pred             HHHHhhcCCHHHHHHHHHhCC------CCCCc--hhhHHHHHHHHHHHcCChHHHHHHHHHHHh-----cCCCCCc---h
Q 039695          374 VDMLGRTGRLDEAYKLAKSIQ------VDPDG--GPLLWGTLLSASRLHGRVDIAVEASNQLIE-----SNQQVAN---A  437 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~m~------~~p~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~---~  437 (605)
                      +..+.+.|++++|++++++..      ..|+.  ...+++.|..+|...|++++|+.+++++++     ++|+++.   .
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            445667788999988887631      12221  234788999999999999999999999885     3455544   7


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCccCCceeEEEeCCEEeeeeccccCccchHHHHHHHHHHHHHHH
Q 039695          438 YVTLSNTYALAGEWENVHSLRSEMKRTGIHKEPGCSWVEIRDQTYAFYAGNALFERGSEVLSLLRELERKMK  509 (605)
Q Consensus       438 ~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~l~~~m~  509 (605)
                      +..|+.+|...|++++|..++++..+--.                  ..-...||...+++..|.+...+|+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~------------------~~lG~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMR------------------VTHGREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHH------------------HHTCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHH------------------HhcCCCChHHHHHHHHHHHHHHHHh
Confidence            88999999999999999999998865211                  0112478999888888877776664

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.16  E-value=0.0011  Score=52.82  Aligned_cols=81  Identities=16%  Similarity=0.096  Sum_probs=57.9

Q ss_pred             HHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHH
Q 039695          350 GIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQL  427 (605)
Q Consensus       350 a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~  427 (605)
                      +...|+...   ...|+ ...+..+...|.+.|++++|+..+++.. ..|+ +...|..+..++...|++++|...++++
T Consensus         4 a~~~~~~al---~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            4 ITERLEAML---AQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             HHHHHHHHH---TTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHH---HhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455555554   34453 6677777888888888888888877643 3343 2667888888888888999999888888


Q ss_pred             HhcCCCC
Q 039695          428 IESNQQV  434 (605)
Q Consensus       428 ~~~~p~~  434 (605)
                      ++..|..
T Consensus        80 l~~~~~~   86 (115)
T 2kat_A           80 LAAAQSR   86 (115)
T ss_dssp             HHHHHHH
T ss_pred             HHhcccc
Confidence            8877643

>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=97.09  E-value=0.0039  Score=51.75  Aligned_cols=113  Identities=8%  Similarity=-0.126  Sum_probs=91.2

Q ss_pred             cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhh----cCCHH
Q 039695          309 YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGR----TGRLD  384 (605)
Q Consensus       309 ~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~  384 (605)
                      .++.++|++.|++..+.| .|+..    +-..|...+.+++|.++|+...+.    -+...+..|..+|..    .++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             ccCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHH
Confidence            346789999999999887 33433    666677778889999999988542    356777888888887    88999


Q ss_pred             HHHHHHHhCCCCCCchhhHHHHHHHHHHH----cCChHHHHHHHHHHHhcCC
Q 039695          385 EAYKLAKSIQVDPDGGPLLWGTLLSASRL----HGRVDIAVEASNQLIESNQ  432 (605)
Q Consensus       385 ~A~~~~~~m~~~p~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p  432 (605)
                      +|.++|++.....+  +..+..|...|..    .++.++|...++++.+.+.
T Consensus        79 ~A~~~~~~Aa~~g~--~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           79 KAAQYYSKACGLND--QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHTTC--HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCCC--HHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999998654455  8888899999988    8999999999999998864

>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=97.07  E-value=0.0059  Score=64.09  Aligned_cols=150  Identities=14%  Similarity=0.078  Sum_probs=117.3

Q ss_pred             CChhHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCc----------HHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHH
Q 039695          310 GLGRFSLDLFNEMISRGIKPND-VTFVGVLHACSHSGL----------VDEGIQHLDSMYRKYGIIPD-AKHYTCVVDML  377 (605)
Q Consensus       310 g~~~~A~~l~~~m~~~g~~pd~-~t~~~ll~a~~~~g~----------~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~  377 (605)
                      ...++|++.++++...  .|+. ..|+.--.++...|+          ++++.++++.+.+.   .|. ...|..-..++
T Consensus        43 ~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~---~pK~y~aW~hR~w~l  117 (567)
T 1dce_A           43 ELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV---NPKSYGTWHHRCWLL  117 (567)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHH
Confidence            3456889999999984  5554 445554445555555          89999999999754   454 77888888888


Q ss_pred             hhcC--CHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcC-ChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhc-----
Q 039695          378 GRTG--RLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHG-RVDIAVEASNQLIESNQQVANAYVTLSNTYALA-----  448 (605)
Q Consensus       378 ~~~g--~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~-----  448 (605)
                      .+.|  ++++|++.++++. ..|. +...|+.-..+....| ..+++.+.++++++.+|.+..+|.....++.+.     
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccc
Confidence            8999  7799999999864 3332 3789999888888889 899999999999999999999999999888874     


Q ss_pred             ---------CChhHHHHHHHHHHhCC
Q 039695          449 ---------GEWENVHSLRSEMKRTG  465 (605)
Q Consensus       449 ---------g~~~~a~~~~~~m~~~~  465 (605)
                               ++++++.+.+++.....
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~  222 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTD  222 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhC
Confidence                     55788888877776543

>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=97.06  E-value=0.00096  Score=67.23  Aligned_cols=85  Identities=8%  Similarity=-0.012  Sum_probs=65.0

Q ss_pred             hcCCHHHHHHHHHhCC------CCCCc--hhhHHHHHHHHHHHcCChHHHHHHHHHHHh-----cCCCCCc---hHHHHH
Q 039695          379 RTGRLDEAYKLAKSIQ------VDPDG--GPLLWGTLLSASRLHGRVDIAVEASNQLIE-----SNQQVAN---AYVTLS  442 (605)
Q Consensus       379 ~~g~~~~A~~~~~~m~------~~p~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~---~~~~l~  442 (605)
                      ..|++++|+.++++..      ..|+.  ...+++.|..+|...|++++|+.+++++++     ++|+++.   .|+.|+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            3467777777776521      12221  234788999999999999999999999885     3555544   788999


Q ss_pred             HHHHhcCChhHHHHHHHHHHh
Q 039695          443 NTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       443 ~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .+|..+|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999998865

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.83  E-value=0.0029  Score=48.69  Aligned_cols=62  Identities=19%  Similarity=0.183  Sum_probs=29.5

Q ss_pred             HHHhhcCCHHHHHHHHHhCC-CCCCchhh-HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCch
Q 039695          375 DMLGRTGRLDEAYKLAKSIQ-VDPDGGPL-LWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~-~~p~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  437 (605)
                      ..+.+.|++++|.+.+++.. ..|+ +.. .|..+..++...|++++|+..++++++.+|+++.+
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~   71 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPAL   71 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHH
Confidence            34444555555555554422 2222 133 44555555555555555555555555555554443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.76  E-value=0.0053  Score=47.16  Aligned_cols=52  Identities=15%  Similarity=0.267  Sum_probs=31.3

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HH-HHHHHHHHHhhcCCHHHHHHHHHh
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AK-HYTCVVDMLGRTGRLDEAYKLAKS  392 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~-~~~~li~~~~~~g~~~~A~~~~~~  392 (605)
                      ...+...|++++|...++...+.   .|+ .. .+..+..+|.+.|++++|.+.|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~   60 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQT---EPVGKDEAYYLMGNAYRKLGDWQKALNNYQS   60 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH---CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34455566666666666666432   343 44 566666666666666666666665

>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=96.63  E-value=0.013  Score=56.71  Aligned_cols=65  Identities=15%  Similarity=0.161  Sum_probs=55.1

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +.+|.++...+...|+++.|...++++++++|. ...|..++.++.-.|++++|.+.+++....+.
T Consensus       277 a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          277 SIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            778888877777789999999999999999864 56778889999999999999999988877654

>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=96.62  E-value=0.0082  Score=60.42  Aligned_cols=94  Identities=11%  Similarity=-0.037  Sum_probs=70.9

Q ss_pred             ccCcHHHHHHHHHHHHHhcC--CC---Cc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC---------CCCCchhhHHHHH
Q 039695          343 HSGLVDEGIQHLDSMYRKYG--II---PD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ---------VDPDGGPLLWGTL  407 (605)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~~~--~~---p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~---------~~p~~~~~~~~~l  407 (605)
                      +.|++++|..++++......  +.   |+ ..+++.|..+|...|++++|+.++++..         ..|+ ...+++.|
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~-~a~~l~nL  388 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLN-VASMWLKL  388 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHH-HHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChH-HHHHHHHH
Confidence            45788888888877654321  22   33 6778889999999999999999887642         2333 24579999


Q ss_pred             HHHHHHcCChHHHHHHHHHHHh-----cCCCCCch
Q 039695          408 LSASRLHGRVDIAVEASNQLIE-----SNQQVANA  437 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~  437 (605)
                      ...|...|++++|+.+++++++     ++|+++.+
T Consensus       389 a~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~  423 (433)
T 3qww_A          389 GRLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYI  423 (433)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHH
Confidence            9999999999999999999986     46777643

>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=96.61  E-value=0.06  Score=52.06  Aligned_cols=139  Identities=12%  Similarity=-0.005  Sum_probs=92.7

Q ss_pred             CCCcchHHHHHHHHHH--cCC---hhHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhc----cC----cHHHHHHHHHHHH
Q 039695          293 NPSVVTYTSMIVGAAK--YGL---GRFSLDLFNEMISRGIKPN-DVTFVGVLHACSH----SG----LVDEGIQHLDSMY  358 (605)
Q Consensus       293 ~~~~~~~~~li~~~~~--~g~---~~~A~~l~~~m~~~g~~pd-~~t~~~ll~a~~~----~g----~~~~a~~~~~~m~  358 (605)
                      ..+...|...+.+...  .++   ..+|..+|++.++.  .|+ ...+..+.-++..    .+    ........+....
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            3567788887766543  333   47899999999884  555 3344433333321    00    1111111222211


Q ss_pred             HhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          359 RKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       359 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      .......+...|..+...+...|++++|...+++.. ..|+  ...|..+...+...|+.++|.+.+++++.++|..+
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s--~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS--WLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            111224458888888887888899999999999854 4566  77888889999999999999999999999999764

>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=96.59  E-value=0.93  Score=47.55  Aligned_cols=254  Identities=12%  Similarity=0.042  Sum_probs=120.9

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccC
Q 039695          165 VCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLG  244 (605)
Q Consensus       165 ~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~  244 (605)
                      .-+.-+..+++.+++......+.. +..+...--....+....|+..+|......+-..|..  .......++....+.|
T Consensus        74 Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~--~p~~c~~l~~~~~~~g  150 (618)
T 1qsa_A           74 LQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS--QPNACDKLFSVWRASG  150 (618)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC--CCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCC--CcHHHHHHHHHHHHCC
Confidence            334445566667777777776555 3223332233455566667766676666666555522  2333444444444333


Q ss_pred             chhh--HHHHHHHHHHhC-----------CCCc-HhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcch---HHHHHHHHH
Q 039695          245 RLVS--GKVAHGVVVRSG-----------CEFN-DVVASALVDMYAKCGSVNYSDKVFNRISNPSVVT---YTSMIVGAA  307 (605)
Q Consensus       245 ~~~~--a~~~~~~~~~~g-----------~~~~-~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~  307 (605)
                      .+..  ..+-+..+...|           ++++ ......++..+.+-..+   ....... .++...   +..-+.-++
T Consensus       151 ~lt~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~~---~~~~~~~-~~~~~~~~~~~~~~~rla  226 (618)
T 1qsa_A          151 KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTV---LTFARTT-GATDFTRQMAAVAFASVA  226 (618)
T ss_dssp             CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGH---HHHHHHS-CCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHhH---HHHHhcc-CCChhhHHHHHHHHHHHH
Confidence            3221  111111111111           1111 11223333333222222   1121111 111111   111122233


Q ss_pred             HcCChhHHHHHHHHHHHcC-CCCCHH--HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHH
Q 039695          308 KYGLGRFSLDLFNEMISRG-IKPNDV--TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLD  384 (605)
Q Consensus       308 ~~g~~~~A~~l~~~m~~~g-~~pd~~--t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~  384 (605)
                      + .+.+.|..+|......+ ..+...  ....+.......+...++...+......   .++.....-.+....+.|+++
T Consensus       227 r-~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~  302 (618)
T 1qsa_A          227 R-QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRR  302 (618)
T ss_dssp             H-HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHH
T ss_pred             h-cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHH
Confidence            3 37788888888876543 222221  2222333334445345555666654321   233323333444445779999


Q ss_pred             HHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHh
Q 039695          385 EAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIE  429 (605)
Q Consensus       385 ~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  429 (605)
                      .|...|+.|+..+.......-=+..+....|+.++|..+|+++.+
T Consensus       303 ~a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          303 GLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            999999998754321122112244566778999999999988875

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.59  E-value=0.0072  Score=46.72  Aligned_cols=60  Identities=15%  Similarity=0.087  Sum_probs=29.5

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHH
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSM  357 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m  357 (605)
                      ..|..+...|.+.|++++|+..|++..+... .+...|..+..++...|++++|.+.|++.
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444445555555555555555555554321 12334445555555555555555555544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.58  E-value=0.0086  Score=49.80  Aligned_cols=64  Identities=8%  Similarity=-0.057  Sum_probs=41.9

Q ss_pred             hhHHHHHHHHHHHcC---ChHHHHHHHHHHHhcC-C-CCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          401 PLLWGTLLSASRLHG---RVDIAVEASNQLIESN-Q-QVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      ..+.-.+..++.+.+   ++++|+.+++++++.+ | .+...+..|+-+|.+.|++++|.+.++.+.+.
T Consensus        32 ~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i  100 (152)
T 1pc2_A           32 KSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            555555666666655   4557777777777666 5 34556667777777777777777777777653

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.49  E-value=0.00013  Score=71.91  Aligned_cols=239  Identities=10%  Similarity=0.009  Sum_probs=168.5

Q ss_pred             chHHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 039695           61 NTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSM  140 (605)
Q Consensus        61 ~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~  140 (605)
                      .+.+|..|-.++.+.|++.+|++-|-  ...|+..|..+|.+..+.|.+++-+..+...++..-  ++..=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyI--kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~k--e~~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYI--KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKAR--ESYVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSC--CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCC--STTTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHH--hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhc--ccccHHHHHHHHHh
Confidence            45678888888888888888877663  446777888999999999999988888765555433  33444578888998


Q ss_pred             cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCC------------------------CChhh
Q 039695          141 LADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGC------------------------RNVVS  196 (605)
Q Consensus       141 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~------------------------~~~~~  196 (605)
                      .+++.+-++++.       .||..-...+.+-|...|.++.|.-+|..+..                        .++.+
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            888766554432       46666667777888888888888888877632                        46789


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHH
Q 039695          197 WTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYA  276 (605)
Q Consensus       197 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  276 (605)
                      |-.+-.+|...+.+.-|.-.--.+.    +.||  ....++.-|...|.+++-..+++.-+.. -.....+++-|.-.|+
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniI----vhad--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYs  274 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIV----VHAD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYS  274 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHH----CCSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhc----ccHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHH
Confidence            9999999999998887755444433    3333  3446777788889888888887766532 2456778888888888


Q ss_pred             hcCCHHHHHHHHhccC----C-------CCcchHHHHHHHHHHcCChhHHHHH
Q 039695          277 KCGSVNYSDKVFNRIS----N-------PSVVTYTSMIVGAAKYGLGRFSLDL  318 (605)
Q Consensus       277 ~~g~~~~A~~~~~~~~----~-------~~~~~~~~li~~~~~~g~~~~A~~l  318 (605)
                      |-. .++..+.++.-.    -       .....|.-++-.|.+..+++.|...
T Consensus       275 KY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~lt  326 (624)
T 3lvg_A          275 KFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT  326 (624)
T ss_dssp             SSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHT
T ss_pred             hcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHH
Confidence            753 334433333222    1       3445788888888888888866543

>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=96.45  E-value=0.013  Score=59.04  Aligned_cols=100  Identities=10%  Similarity=0.022  Sum_probs=72.4

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcC--CCCc----HHHHHHHHHHHhhcCCHHHHHHHHHhCC---------CCCCchhh
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYG--IIPD----AKHYTCVVDMLGRTGRLDEAYKLAKSIQ---------VDPDGGPL  402 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~--~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~---------~~p~~~~~  402 (605)
                      +..+...|++++|..++++......  +.|+    ..+++.|..+|...|++++|+.++++..         ..|+ ...
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~-~a~  372 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPV-RGV  372 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHH-HHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChH-HHH
Confidence            4445567788888888877754321  2222    5678888888888999999888877632         2233 244


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHh-----cCCCCCchH
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIE-----SNQQVANAY  438 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~  438 (605)
                      +++.|...|...|++++|+.+++++++     ++|+++.+-
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  413 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIE  413 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHH
Confidence            789999999999999999999999986     478776543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.25  E-value=0.18  Score=55.47  Aligned_cols=150  Identities=13%  Similarity=0.073  Sum_probs=84.4

Q ss_pred             HhcCChhHHHH-HHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHH
Q 039695          104 INMGQPQIALL-LFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGA  182 (605)
Q Consensus       104 ~~~g~~~~a~~-~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A  182 (605)
                      ...+++++|.+ ++..     + |+......++..+.+.|..+.|.++.+.         .   ..-.......|++++|
T Consensus       610 ~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~---~~~f~~~l~~~~~~~A  671 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPD---------Q---DQKFELALKVGQLTLA  671 (814)
T ss_dssp             HHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCC---------H---HHHHHHHHHHTCHHHH
T ss_pred             HHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCC---------c---chheehhhhcCCHHHH
Confidence            44666666655 3311     1 1122235566666667777776655421         1   1113345667888888


Q ss_pred             HHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCC
Q 039695          183 RRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE  262 (605)
Q Consensus       183 ~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~  262 (605)
                      .++.+.+.  +...|..+...+.+.++++.|.+.|.++..          |..+...+...++.+...++-......|. 
T Consensus       672 ~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~-  738 (814)
T 3mkq_A          672 RDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAETTGK-  738 (814)
T ss_dssp             HHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC-
T ss_pred             HHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc-
Confidence            88877764  456788888888888888888888887642          22333333335555554444444444331 


Q ss_pred             CcHhHHHHHHHHHHhcCCHHHHHHHHh
Q 039695          263 FNDVVASALVDMYAKCGSVNYSDKVFN  289 (605)
Q Consensus       263 ~~~~~~~~li~~y~~~g~~~~A~~~~~  289 (605)
                           ++.-...|.++|++++|.+++.
T Consensus       739 -----~~~A~~~~~~~g~~~~a~~~~~  760 (814)
T 3mkq_A          739 -----FNLAFNAYWIAGDIQGAKDLLI  760 (814)
T ss_dssp             -----HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             -----hHHHHHHHHHcCCHHHHHHHHH
Confidence                 1223334555666666655543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.02  E-value=0.45  Score=38.11  Aligned_cols=139  Identities=15%  Similarity=0.117  Sum_probs=96.0

Q ss_pred             HcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHH
Q 039695          308 KYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAY  387 (605)
Q Consensus       308 ~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  387 (605)
                      -.|..++..++..+....   .+..-++.++--....-+-+-..+.++.+-+-+    |          ...||++....
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiF----D----------is~C~NlKrVi   81 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYF----D----------LDKCQNLKSVV   81 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGS----C----------GGGCSCTHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhc----C----------cHhhhcHHHHH
Confidence            356677777777776653   133344444443334444455555555552222    2          23567777777


Q ss_pred             HHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          388 KLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       388 ~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      .-+-.+.  .+  ..-....++.....|.-+.-.++...++..+|.++....-++++|.+.|+..+|.+++.+.-++|++
T Consensus        82 ~C~~~~n--~~--se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           82 ECGVINN--TL--NEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHTT--CC--CHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhc--ch--HHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            7766654  23  5566777888889999999999999987777888899999999999999999999999999999984

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.62  E-value=0.12  Score=57.00  Aligned_cols=99  Identities=9%  Similarity=0.027  Sum_probs=65.1

Q ss_pred             HHhcCCHHHHHH-HHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 039695          275 YAKCGSVNYSDK-VFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQH  353 (605)
Q Consensus       275 y~~~g~~~~A~~-~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~  353 (605)
                      ....+++++|.+ ++..++  +......++..+.+.|..++|+++.+.       |+ .-|    ......|++++|.++
T Consensus       609 ~~~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-~~f----~~~l~~~~~~~A~~~  674 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPD-------QD-QKF----ELALKVGQLTLARDL  674 (814)
T ss_dssp             HHHTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-HHH----HHHHHHTCHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCC-------cc-hhe----ehhhhcCCHHHHHHH
Confidence            345688888887 654443  111226667777788888888876532       11 112    223456888888776


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 039695          354 LDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ  394 (605)
Q Consensus       354 ~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  394 (605)
                      .+.+       .+...|..+.+++.+.|+++.|.+.|.++.
T Consensus       675 ~~~~-------~~~~~W~~la~~al~~~~~~~A~~~y~~~~  708 (814)
T 3mkq_A          675 LTDE-------SAEMKWRALGDASLQRFNFKLAIEAFTNAH  708 (814)
T ss_dssp             HTTC-------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHhh-------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc
Confidence            5432       456788888888888888888888888765

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.55  E-value=0.066  Score=40.59  Aligned_cols=78  Identities=18%  Similarity=0.149  Sum_probs=56.9

Q ss_pred             CcHHHHHHHHHHHhhcCC---HHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHH
Q 039695          365 PDAKHYTCVVDMLGRTGR---LDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVT  440 (605)
Q Consensus       365 p~~~~~~~li~~~~~~g~---~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  440 (605)
                      ++...+..+..++...+.   .++|..++++. ...|+ ++..+..+...+.+.|++++|+..|+++++.+|+ ......
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~~~~~~   81 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-NLDRVT   81 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-TCCHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CccHHH
Confidence            456777777777765444   68888888774 34554 3677888888999999999999999999999988 333444


Q ss_pred             HHHH
Q 039695          441 LSNT  444 (605)
Q Consensus       441 l~~~  444 (605)
                      +...
T Consensus        82 i~~~   85 (93)
T 3bee_A           82 IIES   85 (93)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.51  E-value=0.066  Score=41.54  Aligned_cols=76  Identities=13%  Similarity=0.001  Sum_probs=55.6

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHhCC----CC---CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchH
Q 039695          366 DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ----VD---PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       366 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~---p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                      +..-+..|...+.+.|+++.|...++...    ..   ......++..|..++.+.|+++.|...+++++++.|++..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            34445566777777777777777776532    01   112366889999999999999999999999999999987654


Q ss_pred             HHH
Q 039695          439 VTL  441 (605)
Q Consensus       439 ~~l  441 (605)
                      ..+
T Consensus        84 ~n~   86 (104)
T 2v5f_A           84 GNL   86 (104)
T ss_dssp             HHH
T ss_pred             hhH
Confidence            443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.34  E-value=0.067  Score=44.42  Aligned_cols=90  Identities=11%  Similarity=-0.040  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcC---CHHHHHHHHHhCC-CC-CCchhhHHHHHHHHHHHcCChHHHH
Q 039695          347 VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTG---RLDEAYKLAKSIQ-VD-PDGGPLLWGTLLSASRLHGRVDIAV  421 (605)
Q Consensus       347 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~-~~-p~~~~~~~~~ll~~~~~~g~~~~a~  421 (605)
                      +..+++-|.+.... + .++..+...+..++.+.+   +.++++.++++.- .. |+.....+-.|.-++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHH
Confidence            34444555544222 2 256666666777777776   5557777776643 22 3223556777888889999999999


Q ss_pred             HHHHHHHhcCCCCCchH
Q 039695          422 EASNQLIESNQQVANAY  438 (605)
Q Consensus       422 ~~~~~~~~~~p~~~~~~  438 (605)
                      +.++.+++.+|++..+.
T Consensus        92 ~y~~~lL~ieP~n~QA~  108 (152)
T 1pc2_A           92 KYVRGLLQTEPQNNQAK  108 (152)
T ss_dssp             HHHHHHHHHCTTCHHHH
T ss_pred             HHHHHHHhcCCCCHHHH
Confidence            99999999999886543

>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=95.25  E-value=0.059  Score=49.94  Aligned_cols=89  Identities=11%  Similarity=0.118  Sum_probs=69.1

Q ss_pred             HHHHHHHHHhC-CCCCCc-hhhHHHHHHHHHHH-----cCChHHHHHHHHHHHhcCCCC-CchHHHHHHHHHhc-CChhH
Q 039695          383 LDEAYKLAKSI-QVDPDG-GPLLWGTLLSASRL-----HGRVDIAVEASNQLIESNQQV-ANAYVTLSNTYALA-GEWEN  453 (605)
Q Consensus       383 ~~~A~~~~~~m-~~~p~~-~~~~~~~ll~~~~~-----~g~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~y~~~-g~~~~  453 (605)
                      ..+|...+++. ...|+- +...|..|...|.+     -|+.+.|++.|+++++++|+. ..+++.++..|+.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            34555555542 234441 24578888888888     499999999999999999975 99999999999985 99999


Q ss_pred             HHHHHHHHHhCCCccCCc
Q 039695          454 VHSLRSEMKRTGIHKEPG  471 (605)
Q Consensus       454 a~~~~~~m~~~~~~~~~~  471 (605)
                      +.+.+++.........|+
T Consensus       259 a~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          259 FDEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHHcCCCCCCCC
Confidence            999999999877764454

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.98  E-value=1.3  Score=37.61  Aligned_cols=130  Identities=11%  Similarity=0.120  Sum_probs=92.4

Q ss_pred             HHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHH
Q 039695           69 INCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGK  148 (605)
Q Consensus        69 i~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~  148 (605)
                      .+...++|+++.|.++-+++  .+...|..|-....+.|+++-|.+.|.+...         |..+.-.|...|+.+.-.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHH
Confidence            34456789999999998876  4678899999999999999999999988744         555555666778888777


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          149 QIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREF  220 (605)
Q Consensus       149 ~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  220 (605)
                      ++-+.....| .     +|.-...+.-.|+++++.++|.+......     -+......|..+.|.++..++
T Consensus        81 kla~iA~~~g-~-----~n~af~~~l~lGdv~~~i~lL~~~~r~~e-----A~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           81 KMQNIAQTRE-D-----FGSMLLNTFYNNSTKERSSIFAEGGSLPL-----AYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHTT-C-----HHHHHHHHHHHTCHHHHHHHHHHTTCHHH-----HHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHCc-c-----HHHHHHHHHHcCCHHHHHHHHHHCCChHH-----HHHHHHHcCcHHHHHHHHHHh
Confidence            7766666655 2     34444556677999999999987754211     111122356677777777665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.00  E-value=1  Score=35.83  Aligned_cols=91  Identities=13%  Similarity=-0.045  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHH---HHHHHHhCCCC--CCchhhHHHHHHHHHHHcCChHHHH
Q 039695          347 VDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDE---AYKLAKSIQVD--PDGGPLLWGTLLSASRLHGRVDIAV  421 (605)
Q Consensus       347 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~--p~~~~~~~~~ll~~~~~~g~~~~a~  421 (605)
                      +..+.+-|...... +. |+..+-..+..++.+.....+   ++.+++.+-..  |.......-.|.-++.+.|+++.|.
T Consensus        17 l~~~~~~y~~e~~~-~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           17 LLKFEKKFQSEKAA-GS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHH-SC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcc-CC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            33444445444232 22 666666667777777776665   77777765422  2122445566778899999999999


Q ss_pred             HHHHHHHhcCCCCCchHH
Q 039695          422 EASNQLIESNQQVANAYV  439 (605)
Q Consensus       422 ~~~~~~~~~~p~~~~~~~  439 (605)
                      +.++.+++.+|++..+..
T Consensus        95 ~~~~~lL~~eP~n~QA~~  112 (126)
T 1nzn_A           95 KYVRGLLQTEPQNNQAKE  112 (126)
T ss_dssp             HHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHH
Confidence            999999999998865433

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.98  E-value=0.24  Score=39.49  Aligned_cols=65  Identities=9%  Similarity=-0.078  Sum_probs=51.7

Q ss_pred             hhHHHHHHHHHHHcCChHH---HHHHHHHHHhcC-C-CCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          401 PLLWGTLLSASRLHGRVDI---AVEASNQLIESN-Q-QVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~-p-~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ..+--.+..++.+..+...   ++.+++.+...+ | ........|+-++.+.|++++|.+..+.+.+..
T Consensus        35 ~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~e  104 (126)
T 1nzn_A           35 KSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTE  104 (126)
T ss_dssp             HHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            6666667777777776555   999999998876 5 344577789999999999999999999998743

>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=93.94  E-value=0.081  Score=49.03  Aligned_cols=83  Identities=11%  Similarity=0.113  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHHHhcCCCCc---HHHHHHHHHHHhh-----cCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHH-cCCh
Q 039695          348 DEGIQHLDSMYRKYGIIPD---AKHYTCVVDMLGR-----TGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRL-HGRV  417 (605)
Q Consensus       348 ~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~-----~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~-~g~~  417 (605)
                      ..|...+++.+   .+.|+   ...|..|...|.+     -|+.++|.+.|++. ...|+.+..++......++. .|+.
T Consensus       180 ~~A~a~lerAl---eLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          180 HAAVMMLERAC---DLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHH---HHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHH---HhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            34444444443   45666   4567777777777     37888888888763 35565346667777777766 4788


Q ss_pred             HHHHHHHHHHHhcCCC
Q 039695          418 DIAVEASNQLIESNQQ  433 (605)
Q Consensus       418 ~~a~~~~~~~~~~~p~  433 (605)
                      +.+.+.+++++...|.
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            8888888888887665

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.64  E-value=0.28  Score=52.51  Aligned_cols=55  Identities=16%  Similarity=0.112  Sum_probs=50.7

Q ss_pred             HHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          408 LSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       408 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      ..-|...|+++.|+.+.++++..-|.+..+|..|+.+|...|+|+.|.-.++.+.
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            3456778999999999999999999999999999999999999999999998874

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=93.38  E-value=2.5  Score=35.94  Aligned_cols=46  Identities=11%  Similarity=0.198  Sum_probs=28.0

Q ss_pred             HHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 039695          173 YGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREF  220 (605)
Q Consensus       173 y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  220 (605)
                      ...+|+++.|.++.+.+  .+...|..|.....+.|+++-|.+.|.+.
T Consensus        15 AL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            34566666666665554  34556666666666666666666666554

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.33  E-value=0.0027  Score=62.77  Aligned_cols=237  Identities=14%  Similarity=0.117  Sum_probs=134.1

Q ss_pred             hHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhccc
Q 039695          164 VVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASL  243 (605)
Q Consensus       164 ~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~  243 (605)
                      .+|..|..++.+.|.+.+|.+.|  ++..|+..|..+|....+.|.+++-+..+...++.. -  ++..=+.++-+|++.
T Consensus        55 ~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~-k--e~~IDteLi~ayAk~  129 (624)
T 3lvg_A           55 AVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA-R--ESYVETELIFALAKT  129 (624)
T ss_dssp             CCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC-C--STTTTHHHHHHHHTS
T ss_pred             cHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-c--ccccHHHHHHHHHhh
Confidence            34555555555555555444433  222344445555555555555555555554433322 2  222223455555555


Q ss_pred             CchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccC------------------------CCCcchH
Q 039695          244 GRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRIS------------------------NPSVVTY  299 (605)
Q Consensus       244 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~------------------------~~~~~~~  299 (605)
                      +++.+-++++.       .||..-...+.+-+...|.++.|.-+|..+.                        ..++.||
T Consensus       130 ~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktW  202 (624)
T 3lvg_A          130 NRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTW  202 (624)
T ss_dssp             CSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSH
T ss_pred             CcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHH
Confidence            55444332221       2333333444455555555555555554443                        1577899


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHHh
Q 039695          300 TSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDMLG  378 (605)
Q Consensus       300 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~  378 (605)
                      -.+-.+|...+.+.-|.-.--.++   +.||.  ...++.-|...|.+++-+.+++.-.   |++- ....++-|.-+|+
T Consensus       203 KeV~~ACvd~~EfrLAqicGLniI---vhade--L~elv~~YE~~G~f~ELIsLlEagl---glErAHmGmFTELaILYs  274 (624)
T 3lvg_A          203 KEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEELITMLEAAL---GLERAHMGMFTELAILYS  274 (624)
T ss_dssp             HHHTHHHHHSCTTTTTTHHHHHHH---CCSSC--CSGGGSSSSTTCCCTTSTTTHHHHT---TSTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHhCchHHHHHHHhcchhc---ccHHH--HHHHHHHHHhCCCHHHHHHHHHHHh---CCCchhHHHHHHHHHHHH
Confidence            999999999998887766655555   33332  2246667888899999888888654   6543 4788888888888


Q ss_pred             hcCCHHHHHHHHHhCCC---CCC-----chhhHHHHHHHHHHHcCChHHHH
Q 039695          379 RTGRLDEAYKLAKSIQV---DPD-----GGPLLWGTLLSASRLHGRVDIAV  421 (605)
Q Consensus       379 ~~g~~~~A~~~~~~m~~---~p~-----~~~~~~~~ll~~~~~~g~~~~a~  421 (605)
                      +- ++++-++.++..-.   -|.     .....|.-+.-.|....+++.|.
T Consensus       275 KY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          275 KF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             SS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             hc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            75 45555555443211   121     01446888888888888887664

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.32  E-value=0.26  Score=38.03  Aligned_cols=65  Identities=9%  Similarity=-0.098  Sum_probs=55.0

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcC-------CCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESN-------QQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ..-+-.|...+...|+++.|..-++++++..       +..+.++..|+.+|.+.|+++.|...+++..+..
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            4556688899999999999999999999753       2345578999999999999999999999987743

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.17  E-value=2.5  Score=33.89  Aligned_cols=139  Identities=12%  Similarity=0.048  Sum_probs=90.5

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHH
Q 039695          105 NMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARR  184 (605)
Q Consensus       105 ~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~  184 (605)
                      -.|..++..++..+.....   +..-||.++--....-+-+...++++.+=+   -.|.          .+||++.....
T Consensus        19 ldG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDi----------s~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDL----------DKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCG----------GGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhh---hcCc----------HhhhcHHHHHH
Confidence            3566677777777665532   445566666555555555544444443322   1121          24555555555


Q ss_pred             HHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCC
Q 039695          185 VFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE  262 (605)
Q Consensus       185 ~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~  262 (605)
                      .+-.+.. +....+.-+......|.-++-.+++.++...  .+|++.....+..||.+.|+..++..++.++-+.|++
T Consensus        83 C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~n--~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           83 CGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKN--NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc--CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            5554432 3334556677888899999988888885443  5788899999999999999999999999988888854

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=92.83  E-value=3.2  Score=33.69  Aligned_cols=64  Identities=6%  Similarity=-0.066  Sum_probs=39.1

Q ss_pred             hhHHHHHHHHHHHcCC---hHHHHHHHHHHHhcCCCC-CchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          401 PLLWGTLLSASRLHGR---VDIAVEASNQLIESNQQV-ANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~-~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      ..+--.+..++.+..+   ..+++.+++.+....|.. ......|+-+|.+.|++++|.+..+.+.+.
T Consensus        39 ~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           39 IQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             HHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            4443344444444443   446777777777766643 335556777777777777777777777664

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.98  E-value=6.8  Score=39.28  Aligned_cols=163  Identities=7%  Similarity=-0.034  Sum_probs=83.7

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHh--CCCCc---hhHHHHHHHHHHhCCCHHHHHHHHhhcCC--------CC--hhhHH
Q 039695          134 VIKACSMLADLITGKQIHTHIETF--GFQYN---LVVCSSLVDMYGKCNDVDGARRVFDLMGC--------RN--VVSWT  198 (605)
Q Consensus       134 ll~a~~~~~~~~~a~~~~~~~~~~--g~~~~---~~~~~~Li~~y~~~g~~~~A~~~~~~m~~--------~~--~~~~~  198 (605)
                      |.+.+...|++.+|..++..+...  |..+.   ...+...+..|...+++..|..++.++..        |+  ...+.
T Consensus       143 La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~  222 (445)
T 4b4t_P          143 LVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYN  222 (445)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHH
Confidence            444555566666666666655432  11111   23455556666677777777666655421        11  12345


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHH----hhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHH
Q 039695          199 SIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVIN----ACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDM  274 (605)
Q Consensus       199 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~----a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  274 (605)
                      .++..+...+++.+|-+.|.+.........|...+..++.    ...-.+....-..+.....+...-++...+..|+.+
T Consensus       223 ~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~  302 (445)
T 4b4t_P          223 LLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKL  302 (445)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHH
Confidence            5566666777777777766666432111223222211111    111111112222233333333334567788889999


Q ss_pred             HHhc--CCHHHHHHHHhccCCCCc
Q 039695          275 YAKC--GSVNYSDKVFNRISNPSV  296 (605)
Q Consensus       275 y~~~--g~~~~A~~~~~~~~~~~~  296 (605)
                      |...  .+++.+.+.|.....++.
T Consensus       303 f~~~~L~~~~~~~~~~~~~L~~~~  326 (445)
T 4b4t_P          303 FTTNELMRWPIVQKTYEPVLNEDD  326 (445)
T ss_dssp             HHHCCSSSHHHHHHHTCSSTTTCC
T ss_pred             HHhchHhhhHHHHHHHHHHhcccc
Confidence            8764  457788888877665443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=91.06  E-value=19  Score=39.49  Aligned_cols=303  Identities=10%  Similarity=-0.014  Sum_probs=133.1

Q ss_pred             HHHHHHHHcCCChhHH-HHHH-hcCC-CCChhhHHH-HHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHH--Hh
Q 039695           66 NHLINCYVRLKKTQVA-RQLF-DEML-EPNVVSYTS-LMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKA--CS  139 (605)
Q Consensus        66 ~~li~~~~~~g~~~~A-~~~f-~~m~-~~~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a--~~  139 (605)
                      .++.+++..+|--.+. .+.. +.+. ..+..-+.+ .--|....|+.++++.++...+..+-..+.++-...+-+  ..
T Consensus       343 ~~f~Naf~naG~~~D~~l~~~~~Wl~k~~~~~k~sA~aSLGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli  422 (963)
T 4ady_A          343 VSVANGFMHAGTTDNSFIKANLPWLGKAQNWAKFTATASLGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLI  422 (963)
T ss_dssp             HHHHHHHHTTTTCCCHHHHHCHHHHHHCCTHHHHHHHHHHHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCcchhhhcchhhhhccchHHHHHHHHHhhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHh
Confidence            3556777777643332 1111 1121 123323333 233556677777777776655442111233333322222  23


Q ss_pred             ccCChHHHHHHHHHHHHhCC-------CCchhHHHHHH--HHHHhCCCHHHHHHHHhhcCCCChh-hH-HH--HHHHHHH
Q 039695          140 MLADLITGKQIHTHIETFGF-------QYNLVVCSSLV--DMYGKCNDVDGARRVFDLMGCRNVV-SW-TS--IIVAHAQ  206 (605)
Q Consensus       140 ~~~~~~~a~~~~~~~~~~g~-------~~~~~~~~~Li--~~y~~~g~~~~A~~~~~~m~~~~~~-~~-~~--li~~~~~  206 (605)
                      ..|..+++..++...+...-       .+......+|.  -+|.-.++-+-...+..-+...+.. .+ .+  |...|+-
T Consensus       423 ~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vG  502 (963)
T 4ady_A          423 YAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLG  502 (963)
T ss_dssp             TTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTT
T ss_pred             cCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcc
Confidence            44444456665555544321       01122222222  2333344433333333333333322 11 11  2222344


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCChhHHHhHHH--hhcccCchhhHHHHHHHHHHhCCCCcHhHHH--HHHHHHHhcCCHH
Q 039695          207 NAQGHEALEMFREFNYQSRDRPNQHMLASVIN--ACASLGRLVSGKVAHGVVVRSGCEFNDVVAS--ALVDMYAKCGSVN  282 (605)
Q Consensus       207 ~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~--a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~--~li~~y~~~g~~~  282 (605)
                      .|+.+-...++..+.+..    +......+.-  ++...|+.+.+..+.+.+.... .|......  ++.-+|+..|+..
T Consensus       503 Tgn~~ai~~LL~~~~e~~----~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~  577 (963)
T 4ady_A          503 TGKPEAIHDMFTYSQETQ----HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNS  577 (963)
T ss_dssp             CCCHHHHHHHHHHHHHCS----CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHH
T ss_pred             cCCHHHHHHHHHHHhccC----cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHH
Confidence            555555555555554321    2222222333  3335677777777776666532 33333222  3344566777776


Q ss_pred             HHHHHHhccCC-C--CcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcH-HHHHHHHHHHH
Q 039695          283 YSDKVFNRISN-P--SVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLV-DEGIQHLDSMY  358 (605)
Q Consensus       283 ~A~~~~~~~~~-~--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~-~~a~~~~~~m~  358 (605)
                      ...+++..+.+ +  ++.....+.-|+...|+.+.+..++..+.+.+ .|....-..+.-+....|.. .++...+..+.
T Consensus       578 aIq~LL~~~~~d~~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          578 AVKRLLHVAVSDSNDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             HHHHHHHHHHHCSCHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCcHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            66667766542 2  22222223334444666666666666555432 34333322333333333332 45666666663


Q ss_pred             HhcCCCCcHHHHHHHHHHHh
Q 039695          359 RKYGIIPDAKHYTCVVDMLG  378 (605)
Q Consensus       359 ~~~~~~p~~~~~~~li~~~~  378 (605)
                      .    .++..+-..-+.+++
T Consensus       657 ~----D~d~~Vrq~Ai~ALG  672 (963)
T 4ady_A          657 K----DPVDFVRQAAMIALS  672 (963)
T ss_dssp             T----CSSHHHHHHHHHHHH
T ss_pred             c----CCCHHHHHHHHHHHH
Confidence            2    445444433444444

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=90.80  E-value=11  Score=35.46  Aligned_cols=169  Identities=8%  Similarity=0.026  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHH----HHHHHHcCCCCCChhHHHhHHHhh
Q 039695          165 VCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEM----FREFNYQSRDRPNQHMLASVINAC  240 (605)
Q Consensus       165 ~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~~~~~p~~~t~~~ll~a~  240 (605)
                      .|-++..=|.+.+++++|.+++..-           ...+.+.|+...|-++    .+-..+.+ +++|......++..+
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~-~~~~~~~~~rl~~l~  102 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAE-VKVDDISVARLVRLI  102 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTT-CCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHH
Confidence            3445555678888888888876542           3345566776655543    33344455 778877777776665


Q ss_pred             cccCchh-hHHHHHHHHH----HhCC--CCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHc---C
Q 039695          241 ASLGRLV-SGKVAHGVVV----RSGC--EFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKY---G  310 (605)
Q Consensus       241 ~~~~~~~-~a~~~~~~~~----~~g~--~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---g  310 (605)
                      .....-+ .-..+...++    +.|-  .-++.....+...|.+.|++.+|+..|-.-...|...+..|+.-+...   |
T Consensus       103 ~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~  182 (312)
T 2wpv_A          103 AELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDI  182 (312)
T ss_dssp             TTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCC
Confidence            5432211 1223333333    3331  236788888999999999999999887633323455555555444443   4


Q ss_pred             ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHh
Q 039695          311 LGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRK  360 (605)
Q Consensus       311 ~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  360 (605)
                      ...++--+              .-.+++ -|...+++..|..+|+...++
T Consensus       183 ~~~e~dlf--------------~~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          183 EDSTVAEF--------------FSRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             CHHHHHHH--------------HHHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             CcchHHHH--------------HHHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence            33332111              112222 233567888888888876543

>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=89.37  E-value=1.5  Score=36.02  Aligned_cols=55  Identities=11%  Similarity=0.004  Sum_probs=44.2

Q ss_pred             HcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          413 LHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       413 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                      ..+|+++|.++|+.++.....=+..|...+..-.+.|+.+.|.+++.+....+.+
T Consensus        72 ei~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           72 AIQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HHHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HhcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            3478999999999998874333557777788888999999999999998886654

>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=88.90  E-value=5.6  Score=29.80  Aligned_cols=87  Identities=9%  Similarity=0.034  Sum_probs=63.5

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHH
Q 039695          142 ADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFN  221 (605)
Q Consensus       142 ~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  221 (605)
                      ...++|.-+-+.+...+-  ...+--.-+..+...|++++|..+.+.+..||..+|-+|-.  .+.|..+++..-+.++.
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   96 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLA   96 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            356777777777776653  33333344456778999999999999999999999988755  46788888888887887


Q ss_pred             HcCCCCCChhHHH
Q 039695          222 YQSRDRPNQHMLA  234 (605)
Q Consensus       222 ~~~~~~p~~~t~~  234 (605)
                      ..|  .|....|.
T Consensus        97 ~sg--~p~~q~Fa  107 (116)
T 2p58_C           97 RSQ--DPRIQTFV  107 (116)
T ss_dssp             TCC--CHHHHHHH
T ss_pred             hCC--CHHHHHHH
Confidence            766  45544443

>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=88.41  E-value=1  Score=44.50  Aligned_cols=70  Identities=17%  Similarity=0.180  Sum_probs=57.8

Q ss_pred             hHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh-----CCCccCCc
Q 039695          402 LLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR-----TGIHKEPG  471 (605)
Q Consensus       402 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~-----~~~~~~~~  471 (605)
                      .....++.++...|+.+++...+..++..+|-+...|..|+.+|.+.|+..+|.+.|+...+     .|+.|.+.
T Consensus       172 ~a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~  246 (388)
T 2ff4_A          172 LAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  246 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            34555677778889999999999999999998888999999999999999999998888754     57776654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=88.26  E-value=4.3  Score=43.41  Aligned_cols=125  Identities=8%  Similarity=-0.014  Sum_probs=76.9

Q ss_pred             HHHHHHHHHcCCC-hhHHHHHHhcCCC--CChhh--HHHHHHHHHhcCC-hhHHHHHHHHHHhC------CCCCChh---
Q 039695           65 LNHLINCYVRLKK-TQVARQLFDEMLE--PNVVS--YTSLMAGYINMGQ-PQIALLLFQKMLGN------LVWPNEF---  129 (605)
Q Consensus        65 ~~~li~~~~~~g~-~~~A~~~f~~m~~--~~~~~--~~~li~~~~~~g~-~~~a~~~~~~m~~~------g~~pd~~---  129 (605)
                      ...|+..+.-.|+ .+.|..+|+++..  |...+  ..++|..+.+.++ --+|+.++.+..+.      ...+...   
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            3445555555666 5778889988744  32222  2233333333332 22455555554321      1222111   


Q ss_pred             --------hHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcC
Q 039695          130 --------TFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMG  190 (605)
Q Consensus       130 --------t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~  190 (605)
                              ....-.+.|...|+++.|+++-.+.+... +.+-.+|..|...|.+.|+++.|+-.+..+|
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                    11111234567889999999999888874 5667889999999999999999999999887

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.95  E-value=5.3  Score=29.89  Aligned_cols=87  Identities=10%  Similarity=-0.020  Sum_probs=64.0

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHH
Q 039695          142 ADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFN  221 (605)
Q Consensus       142 ~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  221 (605)
                      ...++|.-+-+.+...+-  ...+--.-+..+...|++++|..+.+....||..+|-+|-.  .+.|..+++..-+.++.
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   95 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLG   95 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            356777777777776653  33333344456778999999999999999999999987754  47888888888888887


Q ss_pred             HcCCCCCChhHHH
Q 039695          222 YQSRDRPNQHMLA  234 (605)
Q Consensus       222 ~~~~~~p~~~t~~  234 (605)
                      ..|  .|....|.
T Consensus        96 ~sg--~p~~q~Fa  106 (115)
T 2uwj_G           96 GSS--DPALADFA  106 (115)
T ss_dssp             TCS--SHHHHHHH
T ss_pred             hCC--CHHHHHHH
Confidence            776  45554444

>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=87.37  E-value=31  Score=36.09  Aligned_cols=437  Identities=9%  Similarity=-0.037  Sum_probs=227.8

Q ss_pred             hhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChhHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCChhHHH
Q 039695            4 SLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLISLASVHSEILKSG-FLSNTFTLNHLINCYVRLKKTQVAR   82 (605)
Q Consensus         4 ~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~g-~~~~~~~~~~li~~~~~~g~~~~A~   82 (605)
                      ...+.|++..+.++...+...++. ....|..+....... ...++...+.+.. .+.....-+.-+..+++.+++....
T Consensus        15 ~a~~~~~~~~~~~l~~~l~~~pL~-~yl~y~~l~~~l~~~-~~~ev~~Fl~~~~~~p~~~~Lr~~~l~~l~~~~~w~~~l   92 (618)
T 1qsa_A           15 QAWDNRQMDVVEQMMPGLKDYPLY-PYLEYRQITDDLMNQ-PAVTVTNFVRANPTLPPARTLQSRFVNELARREDWRGLL   92 (618)
T ss_dssp             HHHHTTCHHHHHHHSGGGTTSTTH-HHHHHHHHHHTGGGC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHCCCHHHHHHHHHhhcCCCcH-HHHHHHHHHhCcccC-CHHHHHHHHHHCCCChhHHHHHHHHHHHHHhCCCHHHHH
Confidence            345678888887777777554442 223454444433321 2356666666653 2222344455677788889999999


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHH--HHHHHHHHHHhC--
Q 039695           83 QLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLIT--GKQIHTHIETFG--  158 (605)
Q Consensus        83 ~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~--a~~~~~~~~~~g--  158 (605)
                      ..+.. +..+...-.....+....|+..+|......+=..|-. .......++..+.+.|.+..  ..+=+..+...|  
T Consensus        93 ~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~-~p~~c~~l~~~~~~~g~lt~~~~~~R~~~al~~~~~  170 (618)
T 1qsa_A           93 AFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACDKLFSVWRASGKQDPLAYLERIRLAMKAGNT  170 (618)
T ss_dssp             HHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTCH
T ss_pred             HhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCC-CcHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCH
Confidence            87776 4335554555667777889988888877777655532 44556667777665554322  222222222222  


Q ss_pred             ---------CCCch-hHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhh---HHHHHHHHHHcCChhHHHHHHHHHHHcCC
Q 039695          159 ---------FQYNL-VVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVS---WTSIIVAHAQNAQGHEALEMFREFNYQSR  225 (605)
Q Consensus       159 ---------~~~~~-~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~~~  225 (605)
                               ++++. .....++..+.+-..+   ....... .++...   ...-+.-+.+ .+++.|..+|........
T Consensus       171 ~~a~~l~~~l~~~~~~~a~~~~al~~~p~~~---~~~~~~~-~~~~~~~~~~~~~~~rlar-~d~~~A~~~~~~~~~~~~  245 (618)
T 1qsa_A          171 GLVTVLAGQMPADYQTIASAIISLANNPNTV---LTFARTT-GATDFTRQMAAVAFASVAR-QDAENARLMIPSLAQAQQ  245 (618)
T ss_dssp             HHHHHHHHTCCGGGHHHHHHHHHHHHCGGGH---HHHHHHS-CCCHHHHHHHHHHHHHHHH-HCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHhChHhH---HHHHhcc-CCChhhHHHHHHHHHHHHh-cCHHHHHHHHHhhhhccC
Confidence                     11111 1122222222222122   2222221 111111   1112223333 378999999988876542


Q ss_pred             CCCChh--HHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc--ch-HH
Q 039695          226 DRPNQH--MLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV--VT-YT  300 (605)
Q Consensus       226 ~~p~~~--t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~--~~-~~  300 (605)
                      ..+...  ....+.......+...++...+.......  .+.....-.+....+.|+++.|.+.|+.|.....  .- .-
T Consensus       246 ~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~~~~~r~~Y  323 (618)
T 1qsa_A          246 LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRY  323 (618)
T ss_dssp             CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHHHHHHHccccccccHhHHH
Confidence            322222  12233334445553445555555544333  2333344444555678999999999999986322  21 22


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc---H-H--HHHHHH
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD---A-K--HYTCVV  374 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~---~-~--~~~~li  374 (605)
                      =+..++...|+.++|..+|.++...   .   +|-.++.+ .+.|..-.       + ......+.   . .  ....-+
T Consensus       324 W~~ra~~~~g~~~~a~~~~~~~a~~---~---~fYg~lAa-~~Lg~~~~-------~-~~~~~~~~~~~~~~~~~~~~r~  388 (618)
T 1qsa_A          324 WQADLLLERGREAEAKEILHQLMQQ---R---GFYPMVAA-QRIGEEYE-------L-KIDKAPQNVDSALTQGPEMARV  388 (618)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTS---C---SHHHHHHH-HHTTCCCC-------C-CCCCCCSCCCCHHHHSHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHhcC---C---ChHHHHHH-HHcCCCCC-------C-CCCCCChhHHhhhccChHHHHH
Confidence            2445677889999999999998742   2   34343322 22221100       0 00001110   0 0  112234


Q ss_pred             HHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCC---CCCchHHHHHHHHHhcCCh
Q 039695          375 DMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQ---QVANAYVTLSNTYALAGEW  451 (605)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p---~~~~~~~~l~~~y~~~g~~  451 (605)
                      ..+...|...+|...+..+....+  ......+.......|..+.++....+....+.   .-|..|..++.-+++.-.+
T Consensus       389 ~~L~~~g~~~~a~~ew~~~~~~~~--~~~~~~la~~a~~~~~~~~~v~~~~~~~~~~~~~~~~P~~y~~~i~~~a~~~gv  466 (618)
T 1qsa_A          389 RELMYWNLDNTARSEWANLVKSKS--KTEQAQLARYAFNNQWWDLSVQATIAGKLWDHLEERFPLAYNDLFKRYTSGKEI  466 (618)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTCC--HHHHHHHHHHHHHTTCHHHHHHHHHHTTCTTCHHHHSCCTTHHHHHHHHTTSSS
T ss_pred             HHHHHCCChhhHHHHHHHHHhcCC--HHHHHHHHHHHHHCCChHHHHHHHHHHHhhcchhhhCCcchHHHHHHHHHHcCC
Confidence            567788999999888776543334  44444555556678888888766654332220   1123566667777766666


Q ss_pred             hHHHHHHHHHHhCCCcc
Q 039695          452 ENVHSLRSEMKRTGIHK  468 (605)
Q Consensus       452 ~~a~~~~~~m~~~~~~~  468 (605)
                      +...-.---..+.+..|
T Consensus       467 ~~~ll~Ai~~~ES~f~p  483 (618)
T 1qsa_A          467 PQSYAMAIARQESAWNP  483 (618)
T ss_dssp             CHHHHHHHHHHHHTTCT
T ss_pred             CHHHHHHHHHHhCCCCC
Confidence            65443322333445544

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=86.99  E-value=21  Score=33.81  Aligned_cols=167  Identities=11%  Similarity=-0.008  Sum_probs=96.1

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHH----HHHHHcCCCCCChhHHHhHHHhhc
Q 039695          166 CSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMF----REFNYQSRDRPNQHMLASVINACA  241 (605)
Q Consensus       166 ~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~~~~~p~~~t~~~ll~a~~  241 (605)
                      |-++..=|.+.+++++|.+++-+-           ...+.+.|+...|-++-    +-..+.+ +++|..+...++..+.
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~-~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAG-QRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHT-CCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHH
Confidence            344555578888888888876542           33455566665544433    4444555 7788777777766665


Q ss_pred             ccCchh-hHHHHHHH----HHHhC--CCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhH
Q 039695          242 SLGRLV-SGKVAHGV----VVRSG--CEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRF  314 (605)
Q Consensus       242 ~~~~~~-~a~~~~~~----~~~~g--~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  314 (605)
                      ....-+ .-..+...    -.+.|  ..-|+.....+...|.+.+++.+|+..|-.-.++++..+..|+.-+...+...+
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e  185 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHT  185 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc
Confidence            544321 11222333    33333  234677788889999999999999998853333334566555554444433222


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 039695          315 SLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYR  359 (605)
Q Consensus       315 A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  359 (605)
                      +              |...-.+++. |...+++..|..+++...+
T Consensus       186 ~--------------dlfiaRaVL~-yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          186 A--------------PLYCARAVLP-YLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             H--------------HHHHHHHHHH-HHHTTCHHHHHHHHHHHHH
T ss_pred             H--------------HHHHHHHHHH-HHHhCCHHHHHHHHHHHHH
Confidence            2              2222223332 4445788888777766643

>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=86.03  E-value=5  Score=32.11  Aligned_cols=45  Identities=9%  Similarity=0.106  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHhcCCCC-CchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          419 IAVEASNQLIESNQQV-ANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~-~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      +|+.+++.+.+.+|.. ...+..|+-++.+.|++++|.+..+.+.+
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            4444444444444422 22344445555555555555555554443

>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=85.53  E-value=3.6  Score=30.95  Aligned_cols=62  Identities=16%  Similarity=0.213  Sum_probs=45.7

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 039695          312 GRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVD  375 (605)
Q Consensus       312 ~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  375 (605)
                      .-++.+-++.+....+.|++....+.|.||.+.+++..|.++|+.+..+.+-.  ..+|..+++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lq   87 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHH
Confidence            33555666666667788999999999999999999999999999886554333  445666654

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=84.41  E-value=21  Score=37.51  Aligned_cols=80  Identities=10%  Similarity=0.010  Sum_probs=38.7

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHh--
Q 039695          200 IIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAK--  277 (605)
Q Consensus       200 li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~--  277 (605)
                      ....+.-.|+++.|++.+.+.     ...|.+.+...+.-+.-.+-   ...++..-  .+ .| ..-+..||..|.+  
T Consensus       300 Yf~vLlLtgqFE~AI~~L~~~-----~~vdAVH~AIaL~~~gLL~~---~~~lls~~--~~-~~-~lN~arLI~~Yt~~F  367 (661)
T 2qx5_A          300 YLQTLLLSGLYGLAIDYTYTF-----SEMDAVHLAIGLASLKLFKI---DSSTRLTK--KP-KR-DIRFANILANYTKSF  367 (661)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTT-----CHHHHHHHHHHHHHTTC------------------------CHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhHHHHHHHHHhc-----CchhHHHHHHHHHHcCCccC---CCcccccC--CC-cc-cccHHHHHHHHHHHh
Confidence            445556678888888877643     24566666666655443332   11111110  00 11 2224556666654  


Q ss_pred             -cCCHHHHHHHHhcc
Q 039695          278 -CGSVNYSDKVFNRI  291 (605)
Q Consensus       278 -~g~~~~A~~~~~~~  291 (605)
                       ..+..+|.+.|--+
T Consensus       368 ~~td~~~Al~Y~~li  382 (661)
T 2qx5_A          368 RYSDPRVAVEYLVLI  382 (661)
T ss_dssp             TTTCHHHHHHHHHGG
T ss_pred             hcCCHHHHHHHHHHH
Confidence             45666666665554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=84.31  E-value=18  Score=41.24  Aligned_cols=126  Identities=11%  Similarity=-0.054  Sum_probs=82.5

Q ss_pred             HHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCC--C-----------------
Q 039695          336 GVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQV--D-----------------  396 (605)
Q Consensus       336 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-----------------  396 (605)
                      .++..+...+..+.+.++....      +.+....-.+..+|..+|++++|.+.|++...  .                 
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~------~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWL------NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHS------CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhc------cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccc
Confidence            3445555566666555543322      22333334456677778888888888876420  0                 


Q ss_pred             ----CCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc-----hHHHHHHHHHhcCChhHHHHHHHHHHhCCCc
Q 039695          397 ----PDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN-----AYVTLSNTYALAGEWENVHSLRSEMKRTGIH  467 (605)
Q Consensus       397 ----p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~~  467 (605)
                          .+..+.-|.-++..+.+++.++.+.++.+.+++..+.+..     .|..+...+...|++++|...+-.+.+...+
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r  970 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK  970 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH
Confidence                0101234666778888999999999999998876543322     5677788889999999999998888766554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=83.91  E-value=7.3  Score=32.55  Aligned_cols=31  Identities=6%  Similarity=-0.003  Sum_probs=21.6

Q ss_pred             cHHHHHHHHHHHhhcCCHHHHHHHHHhCCCC
Q 039695          366 DAKHYTCVVDMLGRTGRLDEAYKLAKSIQVD  396 (605)
Q Consensus       366 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  396 (605)
                      +.+.---+..+|.+.|++++|+.+++.+|.+
T Consensus       121 e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k  151 (167)
T 3ffl_A          121 EIEVKYKLAECYTVLKQDKDAIAILDGIPSR  151 (167)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHTSCGG
T ss_pred             hHHHHHHHHHHHHHHCCHHHHHHHHhcCCch
Confidence            3444455667777888888888888887633

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=83.83  E-value=0.97  Score=37.81  Aligned_cols=27  Identities=7%  Similarity=0.155  Sum_probs=22.3

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHH
Q 039695          436 NAYVTLSNTYALAGEWENVHSLRSEMK  462 (605)
Q Consensus       436 ~~~~~l~~~y~~~g~~~~a~~~~~~m~  462 (605)
                      ..-.-+..+|.+.|++++|..+++.+.
T Consensus       123 Elkykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          123 EVKYKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHhcCC
Confidence            355678899999999999999987653

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=83.07  E-value=14  Score=33.76  Aligned_cols=208  Identities=11%  Similarity=0.054  Sum_probs=89.8

Q ss_pred             HHHHHHHcCCChhHHHHHHhcCCCCChh----hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhh--HHHHHHHHhc
Q 039695           67 HLINCYVRLKKTQVARQLFDEMLEPNVV----SYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFT--FATVIKACSM  140 (605)
Q Consensus        67 ~li~~~~~~g~~~~A~~~f~~m~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t--~~~ll~a~~~  140 (605)
                      ..+...++.|+++....+++.-..++..    -++ .+...+..|+.    ++++.+.+.|..|+...  -.+.+...+.
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~t-~L~~A~~~g~~----~~v~~Ll~~g~~~~~~~~~g~t~L~~A~~   81 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGWT-PLHNAVQMSRE----DIVELLLRHGADPVLRKKNGATPFLLAAI   81 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCCC-HHHHHHHTTCH----HHHHHHHHTTCCTTCCCTTCCCHHHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCCc-HHHHHHHcCCH----HHHHHHHHcCCCCcccCCCCCCHHHHHHH
Confidence            3444455666766666666654332211    122 33333445554    34444445555443321  1122333334


Q ss_pred             cCChHHHHHHHHHHHHhCCCCchhH--HHHHHHHHHhCCCHHHHHHHHhhcCCCChh-------------hHHHHHHHHH
Q 039695          141 LADLITGKQIHTHIETFGFQYNLVV--CSSLVDMYGKCNDVDGARRVFDLMGCRNVV-------------SWTSIIVAHA  205 (605)
Q Consensus       141 ~~~~~~a~~~~~~~~~~g~~~~~~~--~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~-------------~~~~li~~~~  205 (605)
                      .|+.+    +.+.+.+.|..++...  ..+.+...++.|+.+-...+++.-..++..             .++ .+...+
T Consensus        82 ~~~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~~~~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~t-~L~~A~  156 (285)
T 1wdy_A           82 AGSVK----LLKLFLSKGADVNECDFYGFTAFMEAAVYGKVKALKFLYKRGANVNLRRKTKEDQERLRKGGAT-ALMDAA  156 (285)
T ss_dssp             HTCHH----HHHHHHHTTCCTTCBCTTCCBHHHHHHHTTCHHHHHHHHHTTCCTTCCCCCCHHHHHTTCCCCC-HHHHHH
T ss_pred             cCCHH----HHHHHHHcCCCCCccCcccCCHHHHHHHhCCHHHHHHHHHhCCCcccccccHHHHHhhccCCCc-HHHHHH
Confidence            45544    3334444554433211  112334445667776666666654332211             112 223334


Q ss_pred             HcCChhHHHHHHHHHHHcCCCCCC---hhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHh--HHHHHHHHHHhcCC
Q 039695          206 QNAQGHEALEMFREFNYQSRDRPN---QHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDV--VASALVDMYAKCGS  280 (605)
Q Consensus       206 ~~g~~~~A~~~~~~m~~~~~~~p~---~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~li~~y~~~g~  280 (605)
                      ..|+.+-+..+++..   | ..++   ....+.+.. .+..+.......+...+.+.|..++..  ...+.+...++.|+
T Consensus       157 ~~~~~~~v~~Ll~~~---~-~~~~~~~~~g~t~l~~-a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~  231 (285)
T 1wdy_A          157 EKGHVEVLKILLDEM---G-ADVNACDNMGRNALIH-ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKH  231 (285)
T ss_dssp             HHTCHHHHHHHHHTS---C-CCTTCCCTTSCCHHHH-HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTTC
T ss_pred             HcCCHHHHHHHHHhc---C-CCCCccCCCCCCHHHH-HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCC
Confidence            455544333333221   2 3332   222222222 233444444456666666666554432  11223344445566


Q ss_pred             HHHHHHHHh
Q 039695          281 VNYSDKVFN  289 (605)
Q Consensus       281 ~~~A~~~~~  289 (605)
                      .+-+..+++
T Consensus       232 ~~~v~~Ll~  240 (285)
T 1wdy_A          232 LGLVQRLLE  240 (285)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            666555555

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=82.87  E-value=31  Score=32.32  Aligned_cols=135  Identities=16%  Similarity=0.112  Sum_probs=85.5

Q ss_pred             hHHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHH----HHHHHhCCCCCChhhHHHHHHH
Q 039695           62 TFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLL----FQKMLGNLVWPNEFTFATVIKA  137 (605)
Q Consensus        62 ~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~----~~~m~~~g~~pd~~t~~~ll~a  137 (605)
                      ...|.++..-|.+.+++++|.+++..-           ...+.+.|+...|-++    .+-..+.++++|..+...++..
T Consensus        33 hQ~~Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l  101 (312)
T 2wpv_A           33 HQTLRTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRL  101 (312)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            345677778888889999999886542           3345566776655554    4555667888888888877777


Q ss_pred             HhccCChH-HHHHHHHHHH----HhC--CCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHc
Q 039695          138 CSMLADLI-TGKQIHTHIE----TFG--FQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQN  207 (605)
Q Consensus       138 ~~~~~~~~-~a~~~~~~~~----~~g--~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~  207 (605)
                      +.....-+ .=.++...++    +.|  ...++.....+...|.+.|++.+|+.-|-.-...|...+..++.-+.+.
T Consensus       102 ~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~  178 (312)
T 2wpv_A          102 IAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQ  178 (312)
T ss_dssp             HTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHh
Confidence            65532111 1123333333    333  2247788888999999999999999877633222455555555544443

>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=82.50  E-value=13  Score=30.46  Aligned_cols=62  Identities=16%  Similarity=0.006  Sum_probs=35.8

Q ss_pred             CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHH
Q 039695          107 GQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSL  169 (605)
Q Consensus       107 g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~L  169 (605)
                      +++++|.++|+.++..+-+. ...|..-...-.+.|++..|++++...+..+..|....-.++
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~  135 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIAL  135 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHH
Confidence            67777777777776542221 222222223335677788888888877777655544433333

>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=82.38  E-value=9.1  Score=37.52  Aligned_cols=68  Identities=9%  Similarity=0.058  Sum_probs=47.2

Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH----hcCCCCcHHHH
Q 039695          302 MIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYR----KYGIIPDAKHY  370 (605)
Q Consensus       302 li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~----~~~~~p~~~~~  370 (605)
                      ++..+...|++++|+..+..+... -+-+...+..++.++...|+..+|.+.|+.+.+    +.|+.|...+-
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            455666677777777777777654 334667788888888888888888877776533    45788876553

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=80.72  E-value=39  Score=31.97  Aligned_cols=134  Identities=8%  Similarity=-0.000  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHH----HHHHhCCCCCChhhHHHHHHHH
Q 039695           63 FTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLF----QKMLGNLVWPNEFTFATVIKAC  138 (605)
Q Consensus        63 ~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~----~~m~~~g~~pd~~t~~~ll~a~  138 (605)
                      ..|.++..-|.+.+++++|.+++-.-           ...+.+.|+...|-++-    +-..+.++++|..+...++..+
T Consensus        36 Q~~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~  104 (336)
T 3lpz_A           36 QETRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCL  104 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            35667777788899999999876442           33455667766555443    5556678888888887777777


Q ss_pred             hccCChH-HHHHHHHHHH----HhC--CCCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHc
Q 039695          139 SMLADLI-TGKQIHTHIE----TFG--FQYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQN  207 (605)
Q Consensus       139 ~~~~~~~-~a~~~~~~~~----~~g--~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~  207 (605)
                      .....-+ .=..+...++    +.|  ..-|+.....+...|.+.+++.+|+.-|=--..+++..+..|+.-+.+.
T Consensus       105 ~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~  180 (336)
T 3lpz_A          105 RLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQ  180 (336)
T ss_dssp             TTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHT
T ss_pred             HhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHh
Confidence            6554321 1122333333    233  3446677788888888888888888887432222335555554444433

---

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	605
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	1e-06

>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 = 48.9 bits (115), Expect = 1e-06
 Identities = 52/390 (13%), Positives = 110/390 (28%), Gaps = 23/390 (5%)

Query: 68  LINCYVRLKKTQVARQLFDEMLE--P-NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLV 124
           L +   +    + A +   ++    P N      L + +    +   +       +    
Sbjct: 5   LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAI--KQ 62

Query: 125 WPNE----FTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVD 180
            P           V K    L + I   +    ++       + + ++LV        V 
Sbjct: 63  NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQ 122

Query: 181 GARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINAC 240
                         V      +  A            +    Q         L       
Sbjct: 123 AYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLG---CVF 179

Query: 241 ASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYT 300
            + G +          V     F D     L ++  +    + +   + R  + S     
Sbjct: 180 NAQGEIWLAIHHFEKAVTLDPNFLDA-YINLGNVLKEARIFDRAVAAYLRALSLSPNHAV 238

Query: 301 SMI-VGAAKYGLGRF--SLDLFNEMISRGIKPNDVTFVGVL-HACSHSGLVDEGIQHLDS 356
               +    Y  G    ++D +   I   ++P+       L +A    G V E     ++
Sbjct: 239 VHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNT 296

Query: 357 MYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYK-LAKSIQVDPDGGPLLWGTLLSASRLHG 415
             R      D      + ++    G ++EA +   K+++V P+        L S  +  G
Sbjct: 297 ALRLCPTHAD--SLNNLANIKREQGNIEEAVRLYRKALEVFPEF-AAAHSNLASVLQQQG 353

Query: 416 RVDIAVEASNQLIESNQQVANAYVTLSNTY 445
           ++  A+    + I  +   A+AY  + NT 
Sbjct: 354 KLQEALMHYKEAIRISPTFADAYSNMGNTL 383

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	605
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.52
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.52
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.07
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.97
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.94
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.94
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.89
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.88
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.88
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.81
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.8
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.63
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.51
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.5
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.49
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.41
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.4
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.36
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.32
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.3
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.3
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.3
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.23
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.2
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.12
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.99
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.98
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.92
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.91
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.91
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.9
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.85
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.83
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.81
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.78
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.78
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.74
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.73
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.7
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.65
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.64
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.55
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.29
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.26
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.25
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.2
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.17
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.12
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.95
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.73
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.72
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.64
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.62
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.56
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.64
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.22
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.09
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.9
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.7
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.25
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	80.58

>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=99.90  E-value=2.1e-20  Score=186.55  Aligned_cols=372  Identities=12%  Similarity=0.053  Sum_probs=289.5

Q ss_pred             HHHHHcCCChhHHHHHHhcCC--CC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChH
Q 039695           69 INCYVRLKKTQVARQLFDEML--EP-NVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLI  145 (605)
Q Consensus        69 i~~~~~~g~~~~A~~~f~~m~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~  145 (605)
                      ...+-+.|++++|.+.|+++.  .| ++.+|..+...|.+.|++++|+..|++..+.... +..++..+...+...|+++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcccc
Confidence            345667899999999998873  23 5778888888999999999999999988875322 4567888888889999999


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhc---CCCChhhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 039695          146 TGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLM---GCRNVVSWTSIIVAHAQNAQGHEALEMFREFNY  222 (605)
Q Consensus       146 ~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  222 (605)
                      +|...+....+.. +.+..........+...+....+.......   .......+..........+....+...+.....
T Consensus        85 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          85 EAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhc
Confidence            9999999888875 334444444444444444444443333322   234455566666777778888888888887776


Q ss_pred             cCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchH
Q 039695          223 QSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTY  299 (605)
Q Consensus       223 ~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~  299 (605)
                      ..  +.+...+..+...+...+..+.|...+...++.. +.+...+..+...|...|++++|...|+....   .+...|
T Consensus       164 ~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  240 (388)
T d1w3ba_         164 TQ--PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVH  240 (388)
T ss_dssp             HC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHH
T ss_pred             cC--cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHH
Confidence            53  3456667777788888899999999998888765 45677888899999999999999999887653   455677


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHh
Q 039695          300 TSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLG  378 (605)
Q Consensus       300 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  378 (605)
                      ..+...+.+.|++++|+..|++..+.  .| +..++..+..++...|++++|.+.++.....  .+.+...+..+...+.
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHH
Confidence            88888999999999999999998874  34 4667888888999999999999999988543  3445778888999999


Q ss_pred             hcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          379 RTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       379 ~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      +.|++++|++.+++. ...|+ ++.+|..+..++...|++++|+..++++++++|+++.+|..|+.+|.+.|+
T Consensus       317 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         317 EQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            999999999999884 45565 367888999999999999999999999999999999999999999988875

>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=99.89  E-value=6.1e-20  Score=183.16  Aligned_cols=354  Identities=14%  Similarity=0.084  Sum_probs=292.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCC-ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCC
Q 039695          100 MAGYINMGQPQIALLLFQKMLGNLVWP-NEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCND  178 (605)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~p-d~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  178 (605)
                      ...+.+.|++++|++.|+++.+..  | +...+..+...+...|++++|...++.+++.. +.+..++..+..+|.+.|+
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE--PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            345678899999999999998853  4 56678888889999999999999999999875 5567889999999999999


Q ss_pred             HHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHH
Q 039695          179 VDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGV  255 (605)
Q Consensus       179 ~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~  255 (605)
                      +++|...+.....   .+...+..........+....+...........  .................+....+......
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLK  160 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccc--cccccccccccccccccchhhhhHHHHHH
Confidence            9999999988754   344555556666667777777777777666554  34444555555566667777777777777


Q ss_pred             HHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH
Q 039695          256 VVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDV  332 (605)
Q Consensus       256 ~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  332 (605)
                      ..... +.+...+..+...+...|+.++|...+++..+   .+..+|..+...+...|++++|+..|++..... +.+..
T Consensus       161 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  238 (388)
T d1w3ba_         161 AIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAV  238 (388)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHH
T ss_pred             hhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHH
Confidence            76654 45677888899999999999999999987653   445688889999999999999999999998863 34567


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSA  410 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~  410 (605)
                      .+..+...+...|++++|...|++..+   +.|+ ...+..+...|...|++++|.+.++... ..|+ ....+..+...
T Consensus       239 ~~~~l~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~  314 (388)
T d1w3ba_         239 VHGNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPT-HADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCc-cchhhhHHHHH
Confidence            778888899999999999999998863   4565 7889999999999999999999998754 2232 27789999999


Q ss_pred             HHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          411 SRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       411 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +...|++++|+..++++++..|+++.++..++.+|.+.|++++|.+.+++..+.
T Consensus       315 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         315 KREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999998764

>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=99.52  E-value=6.7e-13  Score=128.34  Aligned_cols=265  Identities=12%  Similarity=0.038  Sum_probs=158.4

Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCc
Q 039695          169 LVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGR  245 (605)
Q Consensus       169 Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~  245 (605)
                      ....|.+.|++++|...|++..+   .+..+|..+...|...|++++|+..|.+..+..  +-+...+..+...+...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK--PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc--ccccccccccccccccccc
Confidence            34455666666666666666532   234556666666666666666666666655532  2234444445555555555


Q ss_pred             hhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHc
Q 039695          246 LVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISR  325 (605)
Q Consensus       246 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  325 (605)
                      +++|.+.+..+....... ...........                ...+.......+..+...+...+|...|.+....
T Consensus       103 ~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~  165 (323)
T d1fcha_         103 QRQACEILRDWLRYTPAY-AHLVTPAEEGA----------------GGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL  165 (323)
T ss_dssp             HHHHHHHHHHHHHTSTTT-GGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhccch-HHHHHhhhhhh----------------hhcccccchhhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            555555555554432110 00000000000                0001111111223344556677888888877663


Q ss_pred             C-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhh
Q 039695          326 G-IKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPL  402 (605)
Q Consensus       326 g-~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~  402 (605)
                      . -.++..++..+...+...|++++|...|+.....   .|+ ...|..+...|.+.|++++|.+.+++. ...|+ ++.
T Consensus       166 ~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~  241 (323)
T d1fcha_         166 DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIR  241 (323)
T ss_dssp             STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH
T ss_pred             hhcccccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHHHHhhc-cHH
Confidence            2 2335667777778888889999999998887543   454 777888888899999999999888874 34454 266


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCch-----------HHHHHHHHHhcCChhHHHH
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA-----------YVTLSNTYALAGEWENVHS  456 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----------~~~l~~~y~~~g~~~~a~~  456 (605)
                      +|..+..+|...|++++|+..|++++++.|++...           |..+..++...|+.+.+..
T Consensus       242 a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         242 SRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            88888999999999999999999999887776543           3445556666666665543

>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=99.52  E-value=2.8e-13  Score=131.07  Aligned_cols=242  Identities=14%  Similarity=0.022  Sum_probs=168.0

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhc
Q 039695          199 SIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKC  278 (605)
Q Consensus       199 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~  278 (605)
                      .....+.+.|++++|+..|++..+..  +-+..++..+..++...|+++.|...+..+++.. +.+...+..+...|...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccc
Confidence            35566778888888888888887653  3345566667777777777777777777776654 33455666666666666


Q ss_pred             CCHHHHHHHHhccCC--CCcchH-HHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 039695          279 GSVNYSDKVFNRISN--PSVVTY-TSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLD  355 (605)
Q Consensus       279 g~~~~A~~~~~~~~~--~~~~~~-~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~  355 (605)
                      |++++|.+.++....  |+.... .......                    ...+.......+..+...+...++...+.
T Consensus       101 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPAYAHLVTPAEEGA--------------------GGAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHhccchHHHHHhhhhhh--------------------hhcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            666666666665432  111100 0000000                    00000011111222334466778888888


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 039695          356 SMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       356 ~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      .......-.++...+..+...+.+.|++++|+..+++.. ..|+ +...|..+..++...|++++|++.++++++.+|++
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  239 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQPGY  239 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHhhcc
Confidence            776543334567888899999999999999999998843 3444 37789999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          435 ANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       435 ~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                      +.+|..++.+|.+.|++++|.+.+++..+.
T Consensus       240 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         240 IRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999998774

>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=99.07  E-value=2.1e-08  Score=96.88  Aligned_cols=197  Identities=11%  Similarity=-0.002  Sum_probs=134.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhccC-------CCCc----chHHHHHHHHHHcCChhHHHHHHHHHHHcC----CCCCH
Q 039695          267 VASALVDMYAKCGSVNYSDKVFNRIS-------NPSV----VTYTSMIVGAAKYGLGRFSLDLFNEMISRG----IKPND  331 (605)
Q Consensus       267 ~~~~li~~y~~~g~~~~A~~~~~~~~-------~~~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~pd~  331 (605)
                      .+..+...|...|++..|...+....       .+..    ..+..+...+...|+++.+...+.+.....    .....
T Consensus        93 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  172 (366)
T d1hz4a_          93 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL  172 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHH
Confidence            33445555666666666666655432       1111    234455667778888888888888776532    22233


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCC---Cc--HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCC---Cchhh
Q 039695          332 VTFVGVLHACSHSGLVDEGIQHLDSMYRKYGII---PD--AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDP---DGGPL  402 (605)
Q Consensus       332 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~---p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p---~~~~~  402 (605)
                      .++......+...+....+...+........-.   +.  ...+..+...+...|++++|...++... ..|   .....
T Consensus       173 ~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  252 (366)
T d1hz4a_         173 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG  252 (366)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHH
Confidence            455556666777888888887777654332221   11  3445666778889999999999998753 222   11234


Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhc------CCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039695          403 LWGTLLSASRLHGRVDIAVEASNQLIES------NQQVANAYVTLSNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       403 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~------~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      .+..+..++...|+++.|...+++++..      .|....++..++.+|.+.|++++|.+.+++..+
T Consensus       253 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         253 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5677888999999999999999998743      345556888999999999999999999988765

>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=98.97  E-value=4.5e-08  Score=94.39  Aligned_cols=287  Identities=7%  Similarity=-0.095  Sum_probs=162.3

Q ss_pred             HHhccCChHHHHHHHHHHHHhCCCCc----hhHHHHHHHHHHhCCCHHHHHHHHhhcCC-----CC----hhhHHHHHHH
Q 039695          137 ACSMLADLITGKQIHTHIETFGFQYN----LVVCSSLVDMYGKCNDVDGARRVFDLMGC-----RN----VVSWTSIIVA  203 (605)
Q Consensus       137 a~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~Li~~y~~~g~~~~A~~~~~~m~~-----~~----~~~~~~li~~  203 (605)
                      .+...|++++|.++++..++.....+    ...++.+...|...|++++|...|++...     ++    ..++..+...
T Consensus        21 ~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  100 (366)
T d1hz4a_          21 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  100 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHH
Confidence            34566777777777777665431111    12445555666666666666666665432     11    1233344445


Q ss_pred             HHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCC---CcHhHHHHHHHHHHhcCC
Q 039695          204 HAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE---FNDVVASALVDMYAKCGS  280 (605)
Q Consensus       204 ~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~---~~~~~~~~li~~y~~~g~  280 (605)
                      +...|++..+...+.+.....                                ...+.+   .....+..+...|...|+
T Consensus       101 ~~~~~~~~~a~~~~~~al~~~--------------------------------~~~~~~~~~~~~~~~~~la~~~~~~~~  148 (366)
T d1hz4a_         101 LFAQGFLQTAWETQEKAFQLI--------------------------------NEQHLEQLPMHEFLVRIRAQLLWAWAR  148 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH--------------------------------HHTTCTTSTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHh--------------------------------HhcccchhhHHHHHHHHHHHHHHHhcc
Confidence            555566665555555443210                                000001   111233445555666666


Q ss_pred             HHHHHHHHhccCC--------CCcchHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCCC--HHHHHHHHHHHhccCc
Q 039695          281 VNYSDKVFNRISN--------PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISR----GIKPN--DVTFVGVLHACSHSGL  346 (605)
Q Consensus       281 ~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~pd--~~t~~~ll~a~~~~g~  346 (605)
                      ++.+...+.....        ....++..+...+...++..++...+.+....    +..+.  ...+..+...+...|+
T Consensus       149 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (366)
T d1hz4a_         149 LDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGD  228 (366)
T ss_dssp             HHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhccc
Confidence            6666666654431        11223444555666777777777777665441    11111  2234455566777888


Q ss_pred             HHHHHHHHHHHHHhcCCCC--cHHHHHHHHHHHhhcCCHHHHHHHHHhCC-------CCCCchhhHHHHHHHHHHHcCCh
Q 039695          347 VDEGIQHLDSMYRKYGIIP--DAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-------VDPDGGPLLWGTLLSASRLHGRV  417 (605)
Q Consensus       347 ~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~-------~~p~~~~~~~~~ll~~~~~~g~~  417 (605)
                      +++|...+........-.+  ....+..+...+...|++++|...+++..       ..|+ ....|..+...+...|++
T Consensus       229 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~-~~~~~~~la~~~~~~g~~  307 (366)
T d1hz4a_         229 KAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSD-LNRNLLLLNQLYWQAGRK  307 (366)
T ss_dssp             HHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH-HHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChH-HHHHHHHHHHHHHHCCCH
Confidence            9999888886642211111  24556677888889999999988887642       1222 245788888999999999


Q ss_pred             HHHHHHHHHHHhcCCCCC---------chHHHHHHHHHhcCChhHHHH
Q 039695          418 DIAVEASNQLIESNQQVA---------NAYVTLSNTYALAGEWENVHS  456 (605)
Q Consensus       418 ~~a~~~~~~~~~~~p~~~---------~~~~~l~~~y~~~g~~~~a~~  456 (605)
                      ++|.+.+++++++.+...         ..+..++..+...++.+++.+
T Consensus       308 ~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         308 SDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            999999999887643211         123334445555666666554

>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=98.94  E-value=7.2e-09  Score=95.69  Aligned_cols=200  Identities=10%  Similarity=-0.079  Sum_probs=114.4

Q ss_pred             HHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHc
Q 039695          233 LASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKY  309 (605)
Q Consensus       233 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  309 (605)
                      +..+..++...|++++|...+...++.. +.++.+++.+..+|.+.|++++|.+.|+++.+   .+..+|..+...|...
T Consensus        40 ~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  118 (259)
T d1xnfa_          40 LYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYG  118 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHHH
Confidence            3334445555556666666665555543 44566677777777777777777777777653   3345677777788888


Q ss_pred             CChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCC----HHH
Q 039695          310 GLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGR----LDE  385 (605)
Q Consensus       310 g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~----~~~  385 (605)
                      |++++|+..|++..+.. +.+......+..++...+..+....+.... ..  ..++...++ ++..+.....    .+.
T Consensus       119 g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~~~~-~~~~~~~~~~~~~~~~~  193 (259)
T d1xnfa_         119 GRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF-EK--SDKEQWGWN-IVEFYLGNISEQTLMER  193 (259)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH-HH--SCCCSTHHH-HHHHHTTSSCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHh-hc--cchhhhhhh-HHHHHHHHHHHHHHHHH
Confidence            88888888888877742 223333333334444445544444444444 22  222222222 2222222212    222


Q ss_pred             HHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHH
Q 039695          386 AYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYV  439 (605)
Q Consensus       386 A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  439 (605)
                      +...+.... ..|+ ...+|..+...+...|+++.|...|++++..+|++...|.
T Consensus       194 ~~~~~~~~~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         194 LKADATDNTSLAEH-LSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             HHHHCCSHHHHHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             HHHHHHHhhhcCcc-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            222211110 1121 1346777888889999999999999999999988765443

>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=98.94  E-value=9.2e-08  Score=90.68  Aligned_cols=188  Identities=10%  Similarity=0.053  Sum_probs=129.6

Q ss_pred             chhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCC--C-C-cchHHHHHHHHHHcCChhHHHHHHH
Q 039695          245 RLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISN--P-S-VVTYTSMIVGAAKYGLGRFSLDLFN  320 (605)
Q Consensus       245 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~~~~A~~l~~  320 (605)
                      ..+.+..+++..++...+.+...+...+..+.+.|+.+.|..+|+++.+  | + ...|...+....+.|+.++|.++|+
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            4566777777777665566677778888888888888888888887653  2 2 2357778888888888888888888


Q ss_pred             HHHHcCCCCCHHHHHHHHH-HHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC----C
Q 039695          321 EMISRGIKPNDVTFVGVLH-ACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ----V  395 (605)
Q Consensus       321 ~m~~~g~~pd~~t~~~ll~-a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~  395 (605)
                      ++.+.+.. +...|..... -+...|+.+.|..+|+.+.+..  +.+...+...++.+.+.|+++.|..+|++..    .
T Consensus       159 ~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            88775433 2233332222 2344577888888888886542  2336677778888888888888888887631    2


Q ss_pred             CCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCC
Q 039695          396 DPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVA  435 (605)
Q Consensus       396 ~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  435 (605)
                      .|+.....|...+.--..+|+.+.+..+.+++.+..|...
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            2222245788777777788888888888888877776653

>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=98.89  E-value=1.1e-08  Score=97.40  Aligned_cols=193  Identities=7%  Similarity=-0.010  Sum_probs=129.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhccCC--C-CcchHHHHHHHHHHcC-ChhHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 039695          266 VVASALVDMYAKCGSVNYSDKVFNRISN--P-SVVTYTSMIVGAAKYG-LGRFSLDLFNEMISRGIKPNDVTFVGVLHAC  341 (605)
Q Consensus       266 ~~~~~li~~y~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g-~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~  341 (605)
                      .+++.+...+.+.+..++|.++++++.+  | +...|+.....+...| +.++|+..+++..+... -+..+|..+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhHHH
Confidence            3455555666677777777777777653  2 3346666666666655 46777777777766422 2456677777777


Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCC---
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGR---  416 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~---  416 (605)
                      ...|++++|+..++.+.+   +.|+ ...|..+...+.+.|++++|++.++++. ..|+ +...|+.+...+...+.   
T Consensus       123 ~~l~~~~eAl~~~~kal~---~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILN---QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HhhccHHHHHHHHhhhhh---hhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccch
Confidence            777788888887777753   3554 7777777777778888888877777643 3343 25567766666655554   


Q ss_pred             ---hHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          417 ---VDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       417 ---~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                         +++|+..+.++++.+|.+..+|..+...+...| .+++.+.++...+.
T Consensus       199 ~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDL  248 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHh
Confidence               467777888888888888877777777665544 46677777666554

>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=98.88  E-value=1.8e-09  Score=104.25  Aligned_cols=231  Identities=7%  Similarity=-0.157  Sum_probs=156.3

Q ss_pred             HcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhccc--CchhhHHHHHHHHHHhCCCCcHhHH-HHHHHHHHhcCCHH
Q 039695          206 QNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASL--GRLVSGKVAHGVVVRSGCEFNDVVA-SALVDMYAKCGSVN  282 (605)
Q Consensus       206 ~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~--~~~~~a~~~~~~~~~~g~~~~~~~~-~~li~~y~~~g~~~  282 (605)
                      ..|++++|+..++......  +-+...+.....++...  ++++++...+..+.+... .+...+ ..+...+...|..+
T Consensus        85 ~~~~~~~al~~~~~~l~~~--pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN--PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHhC--CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccH
Confidence            3445667777777776643  22444444444444443  346777777777777653 334433 44556777889999


Q ss_pred             HHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH
Q 039695          283 YSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYR  359 (605)
Q Consensus       283 ~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  359 (605)
                      +|...++...+   .+..+|+.+...+.+.|++++|...+.+....  .|+..   .....+...+..+++...+.....
T Consensus       162 ~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~  236 (334)
T d1dcea1         162 EELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLL  236 (334)
T ss_dssp             HHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHH
Confidence            99999988875   34567888888888999888887666554432  22221   122333444556667766666543


Q ss_pred             hcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchH
Q 039695          360 KYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAY  438 (605)
Q Consensus       360 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  438 (605)
                      .  -.++...+..+...+...|+.++|.+.+.+.. ..|+ +..+|..+..++...|+.++|.+.++++++++|.+...|
T Consensus       237 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~  313 (334)
T d1dcea1         237 G--RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYL  313 (334)
T ss_dssp             S--CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             h--CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHH
Confidence            2  22335556667778888899999999988754 4443 366888899999999999999999999999999988888


Q ss_pred             HHHHHHHHh
Q 039695          439 VTLSNTYAL  447 (605)
Q Consensus       439 ~~l~~~y~~  447 (605)
                      ..|...+.-
T Consensus       314 ~~L~~~~~~  322 (334)
T d1dcea1         314 DDLRSKFLL  322 (334)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhH
Confidence            877766653

>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=98.88  E-value=3.8e-08  Score=93.60  Aligned_cols=191  Identities=12%  Similarity=0.076  Sum_probs=113.1

Q ss_pred             cHhHHHHHHHHHHhcC-CHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 039695          264 NDVVASALVDMYAKCG-SVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLH  339 (605)
Q Consensus       264 ~~~~~~~li~~y~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~  339 (605)
                      +...|+.....+...| ++++|...++...+   .+..+|+.+...+.+.|++++|++.|+++.+.. +-+...|..+..
T Consensus        76 ~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~  154 (315)
T d2h6fa1          76 NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQW  154 (315)
T ss_dssp             CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHH
Confidence            3334444444444443 35555555555432   344566666666666777777777777776642 224566666666


Q ss_pred             HHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCC------HHHHHHHHHh-CCCCCCchhhHHHHHHHHH
Q 039695          340 ACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGR------LDEAYKLAKS-IQVDPDGGPLLWGTLLSAS  411 (605)
Q Consensus       340 a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~------~~~A~~~~~~-m~~~p~~~~~~~~~ll~~~  411 (605)
                      .+...|++++|.+.++.+++   +.|+ ...|+.+..++.+.+.      +++|++.+.+ +...|+ +...|..+...+
T Consensus       155 ~~~~~~~~~~Al~~~~~al~---~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll  230 (315)
T d2h6fa1         155 VIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPH-NESAWNYLKGIL  230 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHH---HCCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHH
Confidence            77777777777777776653   3443 5556655555555444      5677777665 334454 267777776665


Q ss_pred             HHcCChHHHHHHHHHHHhcCCCCCc--hHHHHHHHHHhc--CChhHHHHHHHH
Q 039695          412 RLHGRVDIAVEASNQLIESNQQVAN--AYVTLSNTYALA--GEWENVHSLRSE  460 (605)
Q Consensus       412 ~~~g~~~~a~~~~~~~~~~~p~~~~--~~~~l~~~y~~~--g~~~~a~~~~~~  460 (605)
                      .. ...+++.+.++.++++.|....  .+..++.+|...  +..+.+...+++
T Consensus       231 ~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~k  282 (315)
T d2h6fa1         231 QD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNK  282 (315)
T ss_dssp             TT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHH
T ss_pred             Hh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            44 4467888888888888876544  345666676543  444444444443

>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=98.81  E-value=1.4e-08  Score=93.67  Aligned_cols=215  Identities=8%  Similarity=0.026  Sum_probs=145.9

Q ss_pred             chhhHHHHHHHHHHhCCCC---cHhHHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHH
Q 039695          245 RLVSGKVAHGVVVRSGCEF---NDVVASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDL  318 (605)
Q Consensus       245 ~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l  318 (605)
                      +.+.+..-+.+++......   ...++..+...|.+.|++++|...|++..+   .++.+|+.+..+|.+.|++++|+..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            3344444455555432111   234677788999999999999999998863   5667899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CC
Q 039695          319 FNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VD  396 (605)
Q Consensus       319 ~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~  396 (605)
                      |++..+... -+..++..+..++...|++++|...|+...+.   .|+ ......+...+.+.+..+.+..+..... ..
T Consensus        94 ~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (259)
T d1xnfa_          94 FDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD  169 (259)
T ss_dssp             HHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC
T ss_pred             hhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh---ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc
Confidence            999998532 24567888889999999999999999988654   443 4444444555556666555555444322 11


Q ss_pred             CCchhhHHHHHHHHHH----HcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          397 PDGGPLLWGTLLSASR----LHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       397 p~~~~~~~~~ll~~~~----~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      +.  ...++. +..+.    ..+..+.+...+.......|....+|..++.+|...|++++|.+.+++..+..+
T Consensus       170 ~~--~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         170 KE--QWGWNI-VEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             CC--STHHHH-HHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             hh--hhhhhH-HHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            22  222222 12111    112233334444444445566667888999999999999999999999887544

>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=98.80  E-value=2.3e-07  Score=87.85  Aligned_cols=183  Identities=7%  Similarity=-0.021  Sum_probs=142.9

Q ss_pred             CCHHHHHHHHhccCC----CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 039695          279 GSVNYSDKVFNRISN----PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHL  354 (605)
Q Consensus       279 g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~  354 (605)
                      +..++|..+|++..+    .+...|...+..+...|+.++|..+|+++...........|...+..+.+.|.++.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            445778888887542    3456788888999999999999999999987533333457888899999999999999999


Q ss_pred             HHHHHhcCCCC-cHHHHHHHHHH-HhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Q 039695          355 DSMYRKYGIIP-DAKHYTCVVDM-LGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESN  431 (605)
Q Consensus       355 ~~m~~~~~~~p-~~~~~~~li~~-~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  431 (605)
                      +.+.+   ..| +...|...... +...|+.+.|..+|+.+. ..|+ ++..|...+..+...|+++.|..+|+++++..
T Consensus       158 ~~al~---~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~  233 (308)
T d2onda1         158 KKARE---DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             HHHHT---STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             HHHHH---hCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC
Confidence            99864   333 34455444444 344689999999998854 2233 27899999999999999999999999999987


Q ss_pred             CCCCc----hHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          432 QQVAN----AYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       432 p~~~~----~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      |.++.    .|...+......|+.+.+.++.+++.+.-
T Consensus       234 ~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         234 SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             SSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             CCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            65543    67777887788999999999999887643

>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=2.7e-07  Score=88.53  Aligned_cols=267  Identities=9%  Similarity=-0.062  Sum_probs=140.6

Q ss_pred             HHHHHHHHcCCChhHHHHHHhcCC--CCC-hhhHHHHHHHH----------HhcCChhHHHHHHHHHHhCCCCCChhhHH
Q 039695           66 NHLINCYVRLKKTQVARQLFDEML--EPN-VVSYTSLMAGY----------INMGQPQIALLLFQKMLGNLVWPNEFTFA  132 (605)
Q Consensus        66 ~~li~~~~~~g~~~~A~~~f~~m~--~~~-~~~~~~li~~~----------~~~g~~~~a~~~~~~m~~~g~~pd~~t~~  132 (605)
                      ..++....+.+..++|++++++..  .|+ ...|+..-..+          ...|++++|+.+++...+...+ +...|.
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~pk-~~~~~~  111 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWH  111 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhCCC-cHHHHH
Confidence            334444444444578888888763  343 33454432222          2233467788888887764322 444555


Q ss_pred             HHHHHHhccC--ChHHHHHHHHHHHHhCCCCchhHHH-HHHHHHHhCCCHHHHHHHHhhcCC---CChhhHHHHHHHHHH
Q 039695          133 TVIKACSMLA--DLITGKQIHTHIETFGFQYNLVVCS-SLVDMYGKCNDVDGARRVFDLMGC---RNVVSWTSIIVAHAQ  206 (605)
Q Consensus       133 ~ll~a~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~~-~Li~~y~~~g~~~~A~~~~~~m~~---~~~~~~~~li~~~~~  206 (605)
                      .+..++...+  +++++...+..+++.. +++...+. .+...+...|..++|...++....   .+..+|+.+...+.+
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~  190 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQ  190 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            5555554444  4778888888887764 33444443 344667777888888888887765   355677777777888


Q ss_pred             cCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHH
Q 039695          207 NAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDK  286 (605)
Q Consensus       207 ~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~  286 (605)
                      .|++++|...+.......   |+.   ......+...+..+.+...+....... +                        
T Consensus       191 ~~~~~~A~~~~~~~~~~~---~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~-~------------------------  239 (334)
T d1dcea1         191 LHPQPDSGPQGRLPENVL---LKE---LELVQNAFFTDPNDQSAWFYHRWLLGR-A------------------------  239 (334)
T ss_dssp             HSCCCCSSSCCSSCHHHH---HHH---HHHHHHHHHHCSSCSHHHHHHHHHHSC-C------------------------
T ss_pred             hcCHHHHHHHHHHhHHhH---HHH---HHHHHHHHHhcchhHHHHHHHHHHHhC-c------------------------
Confidence            887777655544333211   111   111122223333334443333333322 1                        


Q ss_pred             HHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC
Q 039695          287 VFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKP-NDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP  365 (605)
Q Consensus       287 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-d~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p  365 (605)
                             ++...+..+...+...|+.++|...+.+....  .| +..++..+..++...|+.++|.+.++...   .+.|
T Consensus       240 -------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai---~ldP  307 (334)
T d1dcea1         240 -------EPLFRCELSVEKSTVLQSELESCKELQELEPE--NKWCLLTIILLMRALDPLLYEKETLQYFSTLK---AVDP  307 (334)
T ss_dssp             -------CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHH---HHCG
T ss_pred             -------chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHH---HHCc
Confidence                   23333444444455555555555555554432  22 23444555555666666666666666554   2345


Q ss_pred             c-HHHHHHHHHHH
Q 039695          366 D-AKHYTCVVDML  377 (605)
Q Consensus       366 ~-~~~~~~li~~~  377 (605)
                      + ...|..|...+
T Consensus       308 ~~~~y~~~L~~~~  320 (334)
T d1dcea1         308 MRAAYLDDLRSKF  320 (334)
T ss_dssp             GGHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHH
Confidence            4 33444443333

>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=98.51  E-value=2.3e-07  Score=81.57  Aligned_cols=98  Identities=11%  Similarity=0.003  Sum_probs=68.9

Q ss_pred             CcHHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHH
Q 039695          365 PDAKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSN  443 (605)
Q Consensus       365 p~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  443 (605)
                      |+...+......|.+.|++++|+..|++. ...|+ ++..|..+..+|...|+++.|+..++++++++|+++.+|..++.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~   80 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHH
Confidence            55555556666777777777777777653 33443 26677777777777777777777777777777777777777777


Q ss_pred             HHHhcCChhHHHHHHHHHHh
Q 039695          444 TYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       444 ~y~~~g~~~~a~~~~~~m~~  463 (605)
                      +|.+.|++++|...+++..+
T Consensus        81 ~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            77777777777777776654

>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=98.50  E-value=9.1e-07  Score=82.74  Aligned_cols=191  Identities=10%  Similarity=-0.016  Sum_probs=125.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhccCC-----CC----cchHHHHHHHHHHcCChhHHHHHHHHHHHc----CCC-CCHHHHH
Q 039695          270 ALVDMYAKCGSVNYSDKVFNRISN-----PS----VVTYTSMIVGAAKYGLGRFSLDLFNEMISR----GIK-PNDVTFV  335 (605)
Q Consensus       270 ~li~~y~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~-pd~~t~~  335 (605)
                      ...+.|...|++++|.+.|.+..+     .+    ..+|+.+...|.+.|++++|++.+++..+.    |-. ....++.
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  121 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHH
Confidence            345667777788877777776642     12    246778888888899999999888876542    111 1134555


Q ss_pred             HHHHHHh-ccCcHHHHHHHHHHHHHhc---CCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCc------hhhH
Q 039695          336 GVLHACS-HSGLVDEGIQHLDSMYRKY---GIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDG------GPLL  403 (605)
Q Consensus       336 ~ll~a~~-~~g~~~~a~~~~~~m~~~~---~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~------~~~~  403 (605)
                      .+...|. ..|++++|.+.+.....-.   +-.+. ..++..+...|...|++++|.+.++++. ..|+.      ....
T Consensus       122 ~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~  201 (290)
T d1qqea_         122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDY  201 (290)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHH
T ss_pred             HHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHH
Confidence            6666664 4699999999998774322   22222 5567888999999999999999998743 11111      0123


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc-----hHHHHHHHHHh--cCChhHHHHHHHH
Q 039695          404 WGTLLSASRLHGRVDIAVEASNQLIESNQQVAN-----AYVTLSNTYAL--AGEWENVHSLRSE  460 (605)
Q Consensus       404 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~~y~~--~g~~~~a~~~~~~  460 (605)
                      +...+..+...|+++.|...+++..+.+|..+.     ....|+.+|..  .+++++|.+.|+.
T Consensus       202 ~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~  265 (290)
T d1qqea_         202 FLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDN  265 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            445566777899999999999999999875443     33456666655  3457777777653

>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=98.49  E-value=4.2e-07  Score=71.93  Aligned_cols=93  Identities=14%  Similarity=0.188  Sum_probs=75.9

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh
Q 039695          373 VVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEW  451 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~  451 (605)
                      -...+.+.|++++|+..|++. ...|+ ++..|..+..++...|++++|+..++++++++|+++.+|..++.+|...|++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCH
Confidence            356677888888888888874 33444 3778888888899999999999999999999999988999999999999999


Q ss_pred             hHHHHHHHHHHhCCC
Q 039695          452 ENVHSLRSEMKRTGI  466 (605)
Q Consensus       452 ~~a~~~~~~m~~~~~  466 (605)
                      ++|...+++..+...
T Consensus        88 ~~A~~~~~~a~~~~p  102 (117)
T d1elwa_          88 EEAKRTYEEGLKHEA  102 (117)
T ss_dssp             HHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHhCC
Confidence            999999888876543

>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=98.41  E-value=8.4e-07  Score=70.12  Aligned_cols=104  Identities=14%  Similarity=0.135  Sum_probs=85.6

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcC
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHG  415 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g  415 (605)
                      ...+...|++++|...|...++.   .|+ ...|..+..+|.+.|++++|++.++... ..|+ ++..|..+..++...|
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc---CCcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHcc
Confidence            45567788999999999888643   554 7788889999999999999999988743 3444 3778999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCCchHHHHHHHH
Q 039695          416 RVDIAVEASNQLIESNQQVANAYVTLSNTY  445 (605)
Q Consensus       416 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y  445 (605)
                      ++++|+..++++++.+|+++.++..+.++-
T Consensus        86 ~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             CHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHh
Confidence            999999999999999999988777776654

>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=98.40  E-value=4.1e-07  Score=71.35  Aligned_cols=89  Identities=11%  Similarity=-0.001  Sum_probs=79.8

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          372 CVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       372 ~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      .+...+.+.|++++|+..|++.. ..|+ ++..|..+..++...|++++|+..++++++++|+++.++..|+.+|...|+
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            35667888999999999998853 4554 378999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHH
Q 039695          451 WENVHSLRSEM  461 (605)
Q Consensus       451 ~~~a~~~~~~m  461 (605)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999875

>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=98.36  E-value=1e-05  Score=70.04  Aligned_cols=141  Identities=11%  Similarity=-0.059  Sum_probs=82.9

Q ss_pred             HHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 039695          273 DMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQ  352 (605)
Q Consensus       273 ~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~  352 (605)
                      ..+...|+++.|.+.|+++..++..+|..+...|...|++++|++.|++.++.. +-+...|..+..++.+.|++++|..
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~~   91 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAIK   91 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHHH
Confidence            345566777777777777666666666666777777777777777777666642 1234556666666666666666666


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCC
Q 039695          353 HLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQ  432 (605)
Q Consensus       353 ~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  432 (605)
                      .|+......  .++...      .+...|           +..... ...++..+..++...|+++.|.+.+++++++.|
T Consensus        92 ~~~kAl~~~--~~n~~~------~~~~~~-----------~~~~~~-~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          92 DLKEALIQL--RGNQLI------DYKILG-----------LQFKLF-ACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHTT--TTCSEE------ECGGGT-----------BCCEEE-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHhC--ccCchH------HHHHhh-----------hhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            666553211  111000      000000           000111 124566677788888888888888888888877


Q ss_pred             CC
Q 039695          433 QV  434 (605)
Q Consensus       433 ~~  434 (605)
                      ..
T Consensus       152 ~~  153 (192)
T d1hh8a_         152 EP  153 (192)
T ss_dssp             SG
T ss_pred             Cc
Confidence            64

>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=98.32  E-value=9.7e-07  Score=77.36  Aligned_cols=115  Identities=10%  Similarity=-0.075  Sum_probs=84.8

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHH
Q 039695          329 PNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGT  406 (605)
Q Consensus       329 pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~  406 (605)
                      |+...+......+...|++++|+..|...+..   .|+ ...|..+..+|.+.|++++|+..|++. ...|+ +..+|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~---~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHH
Confidence            55666666677777888888888888777533   454 777888888888888888888888774 34554 3668888


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Q 039695          407 LLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYAL  447 (605)
Q Consensus       407 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~  447 (605)
                      +..++...|++++|+..+++++++.|++...+...+..+..
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~  118 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALR  118 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            88999999999999999999888887665554444444443

>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=98.30  E-value=3.1e-06  Score=73.42  Aligned_cols=88  Identities=14%  Similarity=0.075  Sum_probs=80.8

Q ss_pred             HHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhH
Q 039695          374 VDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWEN  453 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~  453 (605)
                      ...+...|++++|++.|+++. .|+  +.+|..+..++...|+++.|+..|+++++++|+++.+|..++.+|.+.|++++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~-~~~--~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ-DPH--SRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS-SCC--HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC-CCC--HHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHH
Confidence            455778999999999999875 556  88999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhC
Q 039695          454 VHSLRSEMKRT  464 (605)
Q Consensus       454 a~~~~~~m~~~  464 (605)
                      |.+.|++....
T Consensus        89 A~~~~~kAl~~   99 (192)
T d1hh8a_          89 AIKDLKEALIQ   99 (192)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999988764

>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=98.30  E-value=1.6e-06  Score=72.80  Aligned_cols=92  Identities=11%  Similarity=0.127  Sum_probs=71.9

Q ss_pred             HHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCCh
Q 039695          373 VVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEW  451 (605)
Q Consensus       373 li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~  451 (605)
                      ....|.+.|++++|+..|++.. ..|+ +...|..+..++...|+++.|...|+++++++|.++.+|..++.+|...|++
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCH
Confidence            3456778888888888887643 3443 3678888888888888888888888888888888888888888888888888


Q ss_pred             hHHHHHHHHHHhCC
Q 039695          452 ENVHSLRSEMKRTG  465 (605)
Q Consensus       452 ~~a~~~~~~m~~~~  465 (605)
                      ++|.+.+++.....
T Consensus        95 ~eA~~~~~~a~~~~  108 (159)
T d1a17a_          95 RAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcC
Confidence            88888888877654

>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=98.30  E-value=2.5e-06  Score=71.52  Aligned_cols=116  Identities=11%  Similarity=0.023  Sum_probs=91.8

Q ss_pred             HHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcC
Q 039695          338 LHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHG  415 (605)
Q Consensus       338 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g  415 (605)
                      ...|.+.|++++|...|.+.++   +.|+ ...|..+..+|...|++++|.+.|++. ...|+ +..+|..+..++...|
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIE---LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHhhhccc---cchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcC
Confidence            4466788899999999888864   3565 888888999999999999999999874 34454 2678999999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCCchHHHHHHHHH--hcCChhHHHHH
Q 039695          416 RVDIAVEASNQLIESNQQVANAYVTLSNTYA--LAGEWENVHSL  457 (605)
Q Consensus       416 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~--~~g~~~~a~~~  457 (605)
                      ++++|...++++++++|+++.++..+..+..  ..+.+++|...
T Consensus        93 ~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          93 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999888777765543  33445555543

>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=98.23  E-value=3e-06  Score=67.13  Aligned_cols=107  Identities=11%  Similarity=-0.124  Sum_probs=82.2

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCH---HHHHHHHHhCC-CCCCch-hhHHHHHH
Q 039695          335 VGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRL---DEAYKLAKSIQ-VDPDGG-PLLWGTLL  408 (605)
Q Consensus       335 ~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~---~~A~~~~~~m~-~~p~~~-~~~~~~ll  408 (605)
                      ..+++.+...+++++|.+.|+....   +.|+ ..++..+..++.+.++.   ++|+++++++. ..|++. ..+|..|.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~---~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg   79 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKA---AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLA   79 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHH
Confidence            3567777788899999999998863   3454 78888888888876554   56999998854 334311 23788899


Q ss_pred             HHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHH
Q 039695          409 SASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNT  444 (605)
Q Consensus       409 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  444 (605)
                      .+|...|++++|++.|+++++++|++..+...+..+
T Consensus        80 ~~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I  115 (122)
T d1nzna_          80 VGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLI  115 (122)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHH
Confidence            999999999999999999999999998766554433

>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=98.20  E-value=1.2e-05  Score=74.79  Aligned_cols=175  Identities=10%  Similarity=-0.018  Sum_probs=128.9

Q ss_pred             CHHHHHHHHhccCCCCcchHHHHHHHHHHcCChhHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhccCcHHHHHHHH
Q 039695          280 SVNYSDKVFNRISNPSVVTYTSMIVGAAKYGLGRFSLDLFNEMISR----GIKPN-DVTFVGVLHACSHSGLVDEGIQHL  354 (605)
Q Consensus       280 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~pd-~~t~~~ll~a~~~~g~~~~a~~~~  354 (605)
                      ++++|..+|.           .....|...|++++|.+.|.+..+.    +-+|+ ..+|..+..+|...|++++|.+.+
T Consensus        32 ~~~~Aa~~y~-----------~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCV-----------QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHH-----------HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHH-----------HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            3566665544           4567889999999999999988752    22222 357888899999999999999999


Q ss_pred             HHHHHhcCCCCc----HHHHHHHHHHHhh-cCCHHHHHHHHHhCC------CCCCchhhHHHHHHHHHHHcCChHHHHHH
Q 039695          355 DSMYRKYGIIPD----AKHYTCVVDMLGR-TGRLDEAYKLAKSIQ------VDPDGGPLLWGTLLSASRLHGRVDIAVEA  423 (605)
Q Consensus       355 ~~m~~~~~~~p~----~~~~~~li~~~~~-~g~~~~A~~~~~~m~------~~p~~~~~~~~~ll~~~~~~g~~~~a~~~  423 (605)
                      +....-+.-..+    ...+..+...|-. .|++++|++.+++..      ..|.....+|..+...+...|++++|...
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            876543211111    4556666777744 699999999987642      11111234688899999999999999999


Q ss_pred             HHHHHhcCCCCCc-------hHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          424 SNQLIESNQQVAN-------AYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       424 ~~~~~~~~p~~~~-------~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ++++....|.+..       .+...+.+|...|+++.|.+.+++..+..
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            9999998876643       34566778888999999999998876654

>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=98.12  E-value=1.9e-05  Score=66.73  Aligned_cols=134  Identities=9%  Similarity=-0.068  Sum_probs=95.9

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 039695          298 TYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDML  377 (605)
Q Consensus       298 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  377 (605)
                      .+......+.+.|++++|+..|.+.+..-.....             -..... .....+        ....|+.+..+|
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~-------------~~~~~~-~~~~~~--------~~~~~~nla~~y   72 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS-------------FSNEEA-QKAQAL--------RLASHLNLAMCH   72 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC-------------CCSHHH-HHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc-------------cchHHH-hhhchh--------HHHHHHHHHHHH
Confidence            3445566788888888888888887763110000             000010 111111        123567788899


Q ss_pred             hhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHH
Q 039695          378 GRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENV  454 (605)
Q Consensus       378 ~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a  454 (605)
                      .+.|++++|+..++.. ...|+ ++..|..+..++...|+++.|+..|+++++++|+++.+...+..+..+.+...+.
T Consensus        73 ~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          73 LKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             Hhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999874 34564 3789999999999999999999999999999999999988888887776655543

>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=97.99  E-value=0.0013  Score=59.31  Aligned_cols=227  Identities=6%  Similarity=-0.114  Sum_probs=132.1

Q ss_pred             ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcc----cCchhhHHHHHHHHHHhCCCCcHhHH
Q 039695          193 NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACAS----LGRLVSGKVAHGVVVRSGCEFNDVVA  268 (605)
Q Consensus       193 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~  268 (605)
                      |+..+..|...+.+.+++++|++.|++..+.|    |...+..+-..+..    ..+...+...+....+.+        
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g----~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~--------   68 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN--------   68 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc--------
Confidence            34456666666777788888888888776655    22222222222222    223444444444444333        


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhccCCCCcchHHHHHHHHHH----cCChhHHHHHHHHHHHcCCCCCHHHHHHHHHH--Hh
Q 039695          269 SALVDMYAKCGSVNYSDKVFNRISNPSVVTYTSMIVGAAK----YGLGRFSLDLFNEMISRGIKPNDVTFVGVLHA--CS  342 (605)
Q Consensus       269 ~~li~~y~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a--~~  342 (605)
                                                +...+..+...+..    ..+.+.|...+++....|..+....+ .....  ..
T Consensus        69 --------------------------~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l-~~~~~~~~~  121 (265)
T d1ouva_          69 --------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASL-GGIYHDGKV  121 (265)
T ss_dssp             --------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHH-HHHHHHCSS
T ss_pred             --------------------------ccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhh-cccccCCCc
Confidence                                      11122222222221    34556677777776665543222111 11111  12


Q ss_pred             ccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHH----c
Q 039695          343 HSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGR----TGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRL----H  414 (605)
Q Consensus       343 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~----~  414 (605)
                      .......+...+.....    ..+...+..|...|..    ..+...+...++......+  +..+..|...+..    .
T Consensus       122 ~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~--~~A~~~lg~~y~~g~~~~  195 (265)
T d1ouva_         122 VTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKD--SPGCFNAGNMYHHGEGAT  195 (265)
T ss_dssp             SCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHTCSSC
T ss_pred             ccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccc--cccccchhhhcccCcccc
Confidence            24456666666665422    2345566666666664    4566677777766543445  6666667666665    5


Q ss_pred             CChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChhHHHHHHHHHHhCCC
Q 039695          415 GRVDIAVEASNQLIESNQQVANAYVTLSNTYAL----AGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       415 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~a~~~~~~m~~~~~  466 (605)
                      .+++.|+..|+++.+.+  ++.++..|+.+|.+    ..+.++|.+.|++..+.|.
T Consensus       196 ~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         196 KNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             cchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            68999999999998876  45688889999986    3489999999999988775

>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=97.98  E-value=4.5e-05  Score=64.29  Aligned_cols=66  Identities=9%  Similarity=-0.024  Sum_probs=60.8

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..+|+.+..+|.+.|++++|+..++++++++|.++.+|..++.+|...|++++|...+++..+..+
T Consensus        62 ~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          62 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            346777888999999999999999999999999999999999999999999999999999987543

>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=97.92  E-value=1.2e-05  Score=63.44  Aligned_cols=94  Identities=11%  Similarity=-0.044  Sum_probs=77.0

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcC---ChHHHHHHHHHHHhcCCCC--CchHHHHHHH
Q 039695          371 TCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHG---RVDIAVEASNQLIESNQQV--ANAYVTLSNT  444 (605)
Q Consensus       371 ~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~  444 (605)
                      ..+++.+...+++++|.+.|++.. ..|+ ++.++..+..++.+.+   ++++|+.+++++++.+|.+  ..++..|+.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            457788889999999999999853 3444 2778888888887644   4567999999999988755  3478899999


Q ss_pred             HHhcCChhHHHHHHHHHHhCC
Q 039695          445 YALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       445 y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      |.+.|++++|.+.++++.+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhHHHHHHHHHHHHhC
Confidence            999999999999999998854

>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=97.91  E-value=7.1e-05  Score=62.92  Aligned_cols=94  Identities=13%  Similarity=-0.003  Sum_probs=75.1

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039695          368 KHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYA  446 (605)
Q Consensus       368 ~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  446 (605)
                      ..|+.+..+|.+.|++++|+..++... ..|+ +..+|..+..++...|++++|+..|+++++++|+++.+...+..+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  143 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            456678888999999999999998743 3454 37789999999999999999999999999999999988888888877


Q ss_pred             hcCChhH-HHHHHHHHH
Q 039695          447 LAGEWEN-VHSLRSEMK  462 (605)
Q Consensus       447 ~~g~~~~-a~~~~~~m~  462 (605)
                      +.+...+ ..+++..|-
T Consensus       144 ~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         144 KAKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHH
Confidence            7665543 445555543

>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=97.91  E-value=0.00012  Score=60.43  Aligned_cols=65  Identities=9%  Similarity=0.005  Sum_probs=58.3

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ..+|..+..++.+.|++++|+..++++++++|.+..+|..++.+|...|++++|...|++..+..
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            34677788899999999999999999999999999999999999999999999999999887754

>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=97.90  E-value=5.1e-05  Score=63.93  Aligned_cols=131  Identities=7%  Similarity=-0.050  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCC-cHHHHHHHHHHH
Q 039695          299 YTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIP-DAKHYTCVVDML  377 (605)
Q Consensus       299 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~  377 (605)
                      +......+.+.|++++|+..|.+..+.            +...........          ...+.| ....|..+..+|
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~~----------~~~~~~~~~~~~~nla~~~   87 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDAD----------GAKLQPVALSCVLNIGACK   87 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHHH----------HGGGHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhHH----------HHHhChhhHHHHHHHHHHH
Confidence            444556677788888888888776541            000000000000          011223 356777888899


Q ss_pred             hhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChh
Q 039695          378 GRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWE  452 (605)
Q Consensus       378 ~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~  452 (605)
                      .+.|++++|+..+++. ...|+ ++..|..+..++...|+++.|+..|+++++++|++..++..+..++.+.....
T Consensus        88 ~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~  162 (169)
T d1ihga1          88 LKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQK  162 (169)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             Hhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999874 45554 47789999999999999999999999999999999888888877765544333

>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=97.85  E-value=2.8e-05  Score=62.14  Aligned_cols=93  Identities=14%  Similarity=0.141  Sum_probs=75.8

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCc-------hHHHH
Q 039695          370 YTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVAN-------AYVTL  441 (605)
Q Consensus       370 ~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~l  441 (605)
                      +-.+.+.|.+.|++++|++.|++.. ..|+ +..+|..+..+|.+.|+++.|+..++++++++|.++.       +|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3456778889999999999997743 4454 3789999999999999999999999999999888765       45556


Q ss_pred             HHHHHhcCChhHHHHHHHHHHh
Q 039695          442 SNTYALAGEWENVHSLRSEMKR  463 (605)
Q Consensus       442 ~~~y~~~g~~~~a~~~~~~m~~  463 (605)
                      +..+...+++++|.+.+++...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            6777888899999999887654

>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=97.83  E-value=9.5e-05  Score=62.18  Aligned_cols=65  Identities=8%  Similarity=-0.035  Sum_probs=61.1

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ...|..+..++.+.|++++|+..+.++++++|+++.+|..++.+|.+.|++++|.+.+++..+..
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            55788899999999999999999999999999999999999999999999999999999998754

>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=97.81  E-value=0.013  Score=54.17  Aligned_cols=218  Identities=12%  Similarity=0.091  Sum_probs=122.0

Q ss_pred             CchHHHHHHHHHHHcCCChhHHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHh
Q 039695           60 SNTFTLNHLINCYVRLKKTQVARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACS  139 (605)
Q Consensus        60 ~~~~~~~~li~~~~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~  139 (605)
                      ||..--..+.+.|-+.|.++.|..+|..+.     -|..++..+.+.++++.|.+++.+.      -+..+|..+..+|.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHH
Confidence            455445556677778888888888888664     4777888888888888888887654      14567888888887


Q ss_pred             ccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHHHHhhcC---CCChhhHHHHHHHHHHcCChhHHHHH
Q 039695          140 MLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARRVFDLMG---CRNVVSWTSIIVAHAQNAQGHEALEM  216 (605)
Q Consensus       140 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~---~~~~~~~~~li~~~~~~g~~~~A~~~  216 (605)
                      .......+.     +.......++.....++..|-..|.+++...+++...   ..+...++.++..|++.+ .++-++.
T Consensus        81 ~~~e~~la~-----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~  154 (336)
T d1b89a_          81 DGKEFRLAQ-----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREH  154 (336)
T ss_dssp             HTTCHHHHH-----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHH
T ss_pred             hCcHHHHHH-----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHH
Confidence            766554432     2222333455555678888888888888888888643   356667788888888754 3444444


Q ss_pred             HHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCCCcHhHHHHHHHHHHhcCCHHHHHHHHhccCCCCc
Q 039695          217 FREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCEFNDVVASALVDMYAKCGSVNYSDKVFNRISNPSV  296 (605)
Q Consensus       217 ~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~~~g~~~~A~~~~~~~~~~~~  296 (605)
                      +...   + ..-|   ...++..|.+.+-+                      .-++-.|.+.|.+++|..+.-.-. +++
T Consensus       155 l~~~---s-~~y~---~~k~~~~c~~~~l~----------------------~elv~Ly~~~~~~~~A~~~~i~~~-~~~  204 (336)
T d1b89a_         155 LELF---W-SRVN---IPKVLRAAEQAHLW----------------------AELVFLYDKYEEYDNAIITMMNHP-TDA  204 (336)
T ss_dssp             HHHH---S-TTSC---HHHHHHHHHTTTCH----------------------HHHHHHHHHTTCHHHHHHHHHHST-TTT
T ss_pred             HHhc---c-ccCC---HHHHHHHHHHcCCh----------------------HHHHHHHHhcCCHHHHHHHHHHcc-hhh
Confidence            3332   1 1112   22334444333333                      335566777777777765543321 233


Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHH
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMIS  324 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~  324 (605)
                      ......+..+.+..+++...++.....+
T Consensus       205 ~~~~~f~e~~~k~~N~e~~~~~i~~yL~  232 (336)
T d1b89a_         205 WKEGQFKDIITKVANVELYYRAIQFYLE  232 (336)
T ss_dssp             CCHHHHHHHHHHCSSTHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHH
Confidence            3344455566666666655555444443

>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=97.78  E-value=3e-06  Score=85.62  Aligned_cols=114  Identities=11%  Similarity=-0.017  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHH
Q 039695          331 DVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLS  409 (605)
Q Consensus       331 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~  409 (605)
                      ...+..+...+.+.|+.++|...+......   .| ...+..+.+++...|++++|...|++.. ..|+ +...|+.|..
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~  194 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSY---IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAI  194 (497)
T ss_dssp             -----------------------CCHHHHH---HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCC---CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHH
Confidence            345555666666677777776666544321   11 3456667777777888888888777632 3444 2567778888


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcC
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAG  449 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g  449 (605)
                      .+...|+..+|...|.+++...|+.+.++..|...|.+..
T Consensus       195 ~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         195 LASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence            8888888888888888888877777777777777665543

>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=97.78  E-value=9.3e-05  Score=61.03  Aligned_cols=128  Identities=9%  Similarity=-0.076  Sum_probs=91.2

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDM  376 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  376 (605)
                      ..+......+.+.|++.+|+..|.+....  -|..           ....-.........        ....+|+.+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~-----------~~~~~~~~~~~~~~--------~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHT-----------EEWDDQILLDKKKN--------IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTC-----------TTCCCHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccch-----------hhhhhHHHHHhhhh--------HHHHHHhhHHHH
Confidence            35666677888899999999999887763  1100           00000000000011        123567788999


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039695          377 LGRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYA  446 (605)
Q Consensus       377 ~~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  446 (605)
                      |.+.|++++|++.++.. ...|+ +..+|..+..++...|+++.|+..|+++++++|+++.+...+..+..
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  146 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  146 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999999874 34554 37899999999999999999999999999999999887766655443

>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=97.74  E-value=0.0048  Score=55.47  Aligned_cols=91  Identities=11%  Similarity=-0.014  Sum_probs=45.7

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc----cCChHHHHHHHHHHHHhCCCCchhHHHH
Q 039695           93 VVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSM----LADLITGKQIHTHIETFGFQYNLVVCSS  168 (605)
Q Consensus        93 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~  168 (605)
                      +..+..|-..+-+.+++++|++.|++..+.|   |...+..|-..+..    ..+...+...+....+.+   +......
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhc
Confidence            4455555555556666666666666666554   33444444444432    345666666666655544   2222333


Q ss_pred             HHHHHHh----CCCHHHHHHHHhhc
Q 039695          169 LVDMYGK----CNDVDGARRVFDLM  189 (605)
Q Consensus       169 Li~~y~~----~g~~~~A~~~~~~m  189 (605)
                      |...+..    ..+.+.|...++..
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a  100 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKA  100 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhh
Confidence            3333332    23445555555443

>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=97.73  E-value=0.00014  Score=61.66  Aligned_cols=117  Identities=15%  Similarity=0.097  Sum_probs=82.2

Q ss_pred             HHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCchhhHHHHHHHHHHHcCChH
Q 039695          339 HACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLAKSIQVDPDGGPLLWGTLLSASRLHGRVD  418 (605)
Q Consensus       339 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~  418 (605)
                      ......|++++|.+.|...+.   +.+....     ..+....-......-++..      ....+..+..++...|+++
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~---l~rG~~l-----~~~~~~~w~~~~r~~l~~~------~~~a~~~la~~~~~~g~~~   84 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALR---EWRGPVL-----DDLRDFQFVEPFATALVED------KVLAHTAKAEAEIACGRAS   84 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHT---TCCSSTT-----GGGTTSTTHHHHHHHHHHH------HHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHh---hCccccc-----ccCcchHHHHHHHHHHHHH------HHHHHHHHHHHHHHCCCch
Confidence            456677888888888887753   3332100     0000000111111111111      1567888999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHh-----CCCccC
Q 039695          419 IAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKR-----TGIHKE  469 (605)
Q Consensus       419 ~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~-----~~~~~~  469 (605)
                      +|+..++++++.+|.+...|..++.+|.+.|++++|.+.|+++.+     .|+.|.
T Consensus        85 ~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          85 AVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             HHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence            999999999999999999999999999999999999999999854     577553

>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=97.70  E-value=0.00065  Score=56.72  Aligned_cols=65  Identities=11%  Similarity=0.029  Sum_probs=60.0

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      ..+|..+..++...|++++|+..++++++++|.+..+|..++.+|...|++++|.+.+++..+..
T Consensus        64 ~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          64 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            34577788889999999999999999999999999999999999999999999999999988754

>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=97.65  E-value=0.023  Score=52.45  Aligned_cols=134  Identities=10%  Similarity=0.025  Sum_probs=50.0

Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 039695           91 PNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLV  170 (605)
Q Consensus        91 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li  170 (605)
                      ||..--..+..-|.+.|.++.|..+|..+..         |..++..+.+.++++.|.++....      .+..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHH
Confidence            3333333344444455555555555554322         444455555555555544443321      1334455555


Q ss_pred             HHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcc
Q 039695          171 DMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACAS  242 (605)
Q Consensus       171 ~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~  242 (605)
                      ..+.+......|..+ ......+......++..|-..|.+++.+.++......  -.++...++.++..+++
T Consensus        77 ~~l~~~~e~~la~i~-~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~--~~~~~~~~~~L~~lyak  145 (336)
T d1b89a_          77 FACVDGKEFRLAQMC-GLHIVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSK  145 (336)
T ss_dssp             HHHHHTTCHHHHHHT-TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--TTCCHHHHHHHHHHHHT
T ss_pred             HHHHhCcHHHHHHHH-HHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC--CccchHHHHHHHHHHHH
Confidence            555544444333211 1111122223334455555555555555555543321  12333344444444443

>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=97.64  E-value=0.00013  Score=56.44  Aligned_cols=87  Identities=9%  Similarity=-0.018  Sum_probs=43.7

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCH
Q 039695          100 MAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDV  179 (605)
Q Consensus       100 i~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~  179 (605)
                      ...+.+.|++++|+..|++..+.... +..+|..+..++...|++++|...++.+++.. +.+..++..|...|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCH
Confidence            33444555555555555555543211 33445555555555555555555555555543 33444555555555555555


Q ss_pred             HHHHHHHhh
Q 039695          180 DGARRVFDL  188 (605)
Q Consensus       180 ~~A~~~~~~  188 (605)
                      ++|.+.|++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555543

>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=97.55  E-value=7.6e-05  Score=60.90  Aligned_cols=76  Identities=17%  Similarity=0.184  Sum_probs=48.0

Q ss_pred             HHHHHHHHHhC-CCCCCchhhHHHHHHHHHHHcC-----------ChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCC
Q 039695          383 LDEAYKLAKSI-QVDPDGGPLLWGTLLSASRLHG-----------RVDIAVEASNQLIESNQQVANAYVTLSNTYALAGE  450 (605)
Q Consensus       383 ~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g-----------~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~  450 (605)
                      +++|+..|++. ...|+ +..+|..+..++...|           +++.|.+.|+++++++|++...+..|...      
T Consensus        57 ~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~------  129 (145)
T d1zu2a1          57 IQEAITKFEEALLIDPK-KDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT------  129 (145)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHhcch-hhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHH------
Confidence            34555555542 23343 2455666666655443           36889999999999999987666555444      


Q ss_pred             hhHHHHHHHHHHhCCC
Q 039695          451 WENVHSLRSEMKRTGI  466 (605)
Q Consensus       451 ~~~a~~~~~~m~~~~~  466 (605)
                       ..|.+++.+..++|+
T Consensus       130 -~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         130 -AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             -HTHHHHHHHHHHSSS
T ss_pred             -HHHHHHHHHHHHHhc
Confidence             456677777766664

>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=97.29  E-value=0.0015  Score=51.52  Aligned_cols=91  Identities=10%  Similarity=-0.022  Sum_probs=45.8

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-----HHHHHHHHH
Q 039695          301 SMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-----AKHYTCVVD  375 (605)
Q Consensus       301 ~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~  375 (605)
                      .+...|.+.|++++|+..|.+.++.. +.+...+..+..+|.+.|++++|.+.++.++.-..-.+.     ..+|..+..
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            34455666666666666666666542 124555555666666666666666666655421100000     123444444


Q ss_pred             HHhhcCCHHHHHHHHHh
Q 039695          376 MLGRTGRLDEAYKLAKS  392 (605)
Q Consensus       376 ~~~~~g~~~~A~~~~~~  392 (605)
                      .+...+++++|++.|++
T Consensus        88 ~~~~~~~~~~A~~~~~k  104 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNK  104 (128)
T ss_dssp             HHHHTTCHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHH
Confidence            44445555555555443

>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=97.26  E-value=0.00082  Score=49.84  Aligned_cols=75  Identities=12%  Similarity=-0.029  Sum_probs=56.9

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC----CCC---CchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHH
Q 039695          369 HYTCVVDMLGRTGRLDEAYKLAKSIQ----VDP---DGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTL  441 (605)
Q Consensus       369 ~~~~li~~~~~~g~~~~A~~~~~~m~----~~p---~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  441 (605)
                      -+..+...+.+.|++++|...|++..    ..+   .....++..|..++.+.|++++|+..++++++++|+++.++..+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            34456777778888888877776531    111   11245889999999999999999999999999999998887776


Q ss_pred             HH
Q 039695          442 SN  443 (605)
Q Consensus       442 ~~  443 (605)
                      ..
T Consensus        87 ~~   88 (95)
T d1tjca_          87 KY   88 (95)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=97.25  E-value=0.00039  Score=57.30  Aligned_cols=91  Identities=12%  Similarity=0.015  Sum_probs=66.6

Q ss_pred             HHHHhhcCCHHHHHHHHHhCC----CCCCc--------hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------
Q 039695          374 VDMLGRTGRLDEAYKLAKSIQ----VDPDG--------GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV-------  434 (605)
Q Consensus       374 i~~~~~~g~~~~A~~~~~~m~----~~p~~--------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------  434 (605)
                      ...+.+.|++++|++.|++..    ..|+.        ....|+.+..++...|++++|...+++.+++.|..       
T Consensus        16 g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~   95 (156)
T d2hr2a1          16 AQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDE   95 (156)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccc
Confidence            444556677777777766531    11210        13578889999999999999999999988754321       


Q ss_pred             ----CchHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039695          435 ----ANAYVTLSNTYALAGEWENVHSLRSEMKRT  464 (605)
Q Consensus       435 ----~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~  464 (605)
                          ..+|..++.+|...|++++|...|++..+.
T Consensus        96 ~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          96 GKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence                225778999999999999999999998764

>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=97.20  E-value=0.00018  Score=72.22  Aligned_cols=259  Identities=10%  Similarity=-0.011  Sum_probs=132.8

Q ss_pred             HHHHHHhhcCC--C-ChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHH
Q 039695          181 GARRVFDLMGC--R-NVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVV  257 (605)
Q Consensus       181 ~A~~~~~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~  257 (605)
                      +|.+.|++...  | ...+|..+...|...|++++|   |+++....   |+-..--.+...+- ...+..+.+.+....
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d---p~~a~~~~~e~~Lw-~~~y~~~ie~~r~~~   76 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD---LEYALDKKVEQDLW-NHAFKNQITTLQGQA   76 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC---HHHHHHHTHHHHHH-HHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC---hhhHHHHhHHHHHH-HHHHHHHHHHHHHhc
Confidence            45666666543  2 344566677777777777776   56655432   32111000100000 111233444444444


Q ss_pred             HhCCCCcHh--HHHHHHHHHHhcCCHHHHHHHHhccCC---CCcchHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHH
Q 039695          258 RSGCEFNDV--VASALVDMYAKCGSVNYSDKVFNRISN---PSVVTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDV  332 (605)
Q Consensus       258 ~~g~~~~~~--~~~~li~~y~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~  332 (605)
                      +....++..  ....+...+...|.++.|...+....+   ++...|..+...+.+.|+.++|...+.+....  .| ..
T Consensus        77 k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~  153 (497)
T d1ya0a1          77 KNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QH  153 (497)
T ss_dssp             SCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------CCHHHHH--HH-HH
T ss_pred             ccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HH
Confidence            433222222  112222333445667777777766543   45567788888888999999999888776542  12 35


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCchhhHHHHHHH
Q 039695          333 TFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSI-QV-DPDGGPLLWGTLLS  409 (605)
Q Consensus       333 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m-~~-~p~~~~~~~~~ll~  409 (605)
                      ++..+...+...|++++|...|.+..   .+.|+ ...|+.|...+...|+..+|...|.+. .. .|-  +.++..|..
T Consensus       154 ~~~~LG~l~~~~~~~~~A~~~y~~A~---~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~--~~a~~nL~~  228 (497)
T d1ya0a1         154 CLVHLGDIARYRNQTSQAESYYRHAA---QLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPF--PAASTNLQK  228 (497)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH---HHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCC--HHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHH---HHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC--HHHHHHHHH
Confidence            67778888889999999999999886   45676 789999999999999999999998773 33 344  778888887


Q ss_pred             HHHHcCChHHHHHHHHHHHhcCCCC---CchHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          410 ASRLHGRVDIAVEASNQLIESNQQV---ANAYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       410 ~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      .+.+..+...+.       ...+..   ...+..+...+...+.+++..++.+++
T Consensus       229 ~~~~~~~~~~~~-------~~~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~  276 (497)
T d1ya0a1         229 ALSKALESRDEV-------KTKWGVSDFIKAFIKFHGHVYLSKSLEKLSPLREKL  276 (497)
T ss_dssp             HHHHHTTSCCCC-------CSSCCHHHHHHHHHHHHHHHHHTCCGGGHHHHHHHH
T ss_pred             HHHHhhhhhhhh-------ccccccchHHHHHHHHHHHHHhCCchhhHHHHHHHH
Confidence            776543322110       001111   124455555666677777766665544

>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=97.17  E-value=0.00012  Score=59.75  Aligned_cols=88  Identities=8%  Similarity=-0.012  Sum_probs=61.9

Q ss_pred             hhcCCHHHHHHHHHhC-CCCCCchhhHHHHHHHHHHH----------cCChHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Q 039695          378 GRTGRLDEAYKLAKSI-QVDPDGGPLLWGTLLSASRL----------HGRVDIAVEASNQLIESNQQVANAYVTLSNTYA  446 (605)
Q Consensus       378 ~~~g~~~~A~~~~~~m-~~~p~~~~~~~~~ll~~~~~----------~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~  446 (605)
                      -|.+.+++|.+.|+.. ...|+ ++.+|..+..++..          .+.+++|+..++++++++|+++.+|..++.+|.
T Consensus         8 ~r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHH
Confidence            3445566666666653 23343 24555555555543          244678999999999999999999999999998


Q ss_pred             hcCC-----------hhHHHHHHHHHHhCCC
Q 039695          447 LAGE-----------WENVHSLRSEMKRTGI  466 (605)
Q Consensus       447 ~~g~-----------~~~a~~~~~~m~~~~~  466 (605)
                      ..|+           +++|.+.|++..+...
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P  117 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDEQP  117 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccccCC
Confidence            8764           5778888888776543

>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=97.12  E-value=0.00087  Score=60.37  Aligned_cols=127  Identities=11%  Similarity=0.015  Sum_probs=76.9

Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHH
Q 039695          307 AKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDE  385 (605)
Q Consensus       307 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~  385 (605)
                      .+.|++++|+..+++.++. -+-|...+..+...++..|++++|.+.++...   .+.|+ ...+..+..++...+..++
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 LSEGQLQQALELLIEAIKA-SPKDASLRSSFIELLCIDGDFERADEQLMQSI---KLFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHT-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH---HHCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---HhCCCcHHHHHHHHHHHHhccccHH
Confidence            3467778888888877774 22355677777777888888888888887775   34565 4444445555544444444


Q ss_pred             HHHHHHhC-CCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCch
Q 039695          386 AYKLAKSI-QVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       386 A~~~~~~m-~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  437 (605)
                      +..-.... ...++.....+......+...|+.++|...++++.+..|..+..
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~  135 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFL  135 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEE
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcc
Confidence            43322221 11112113344444566677788888888888888877776543

>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=96.95  E-value=0.0049  Score=51.62  Aligned_cols=72  Identities=10%  Similarity=0.080  Sum_probs=56.9

Q ss_pred             chHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHH----hcCCCCcHHH
Q 039695          297 VTYTSMIVGAAKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYR----KYGIIPDAKH  369 (605)
Q Consensus       297 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~----~~~~~p~~~~  369 (605)
                      ..+..+...+...|++++|+..++++... -+-+...|..++.++...|+.++|.+.|+.+.+    +.|+.|...+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~-~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHh-CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            45677788888899999999999988875 233677888889999999999999888887633    4588888665

>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=96.73  E-value=0.0056  Score=49.97  Aligned_cols=67  Identities=16%  Similarity=0.018  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHhCC--------CCCCc---hhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC
Q 039695          368 KHYTCVVDMLGRTGRLDEAYKLAKSIQ--------VDPDG---GPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV  434 (605)
Q Consensus       368 ~~~~~li~~~~~~g~~~~A~~~~~~m~--------~~p~~---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  434 (605)
                      ..|+.+..+|...|++++|.+.+++..        ..++.   ....+..+..++...|++++|+..|++++++.|..
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence            455666666677777766666554421        12221   12256778899999999999999999999876543

>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=96.72  E-value=0.29  Score=47.14  Aligned_cols=55  Identities=15%  Similarity=0.048  Sum_probs=30.3

Q ss_pred             HHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcC
Q 039695          169 LVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQS  224 (605)
Q Consensus       169 Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  224 (605)
                      .+..+++.++++.....+..-+ .+...--....+..+.|+..+|...+...-..|
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~  132 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG  132 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS
T ss_pred             HHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            3455566667666555443321 223322344555666777777777666665555

>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=96.64  E-value=0.0035  Score=46.19  Aligned_cols=66  Identities=9%  Similarity=-0.111  Sum_probs=55.3

Q ss_pred             hhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCC-------CchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          401 PLLWGTLLSASRLHGRVDIAVEASNQLIESNQQV-------ANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       401 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ...+-.+...+.+.|+++.|+..|+++++..|.+       ..++..|+.+|.+.|++++|.+.+++..+..+
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            3345578889999999999999999999875443       34688999999999999999999999987543

>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=96.62  E-value=0.00057  Score=61.63  Aligned_cols=120  Identities=11%  Similarity=0.080  Sum_probs=83.2

Q ss_pred             hccCcHHHHHHHHHHHHHhcCCCCc-HHHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHH
Q 039695          342 SHSGLVDEGIQHLDSMYRKYGIIPD-AKHYTCVVDMLGRTGRLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDI  419 (605)
Q Consensus       342 ~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~  419 (605)
                      .+.|++++|+..+++.++   ..|+ ...+..+...|+..|++++|...++... ..|+ ....+..+...+...+..++
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 LSEGQLQQALELLIEAIK---ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHH---TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHH
Confidence            467999999999998874   4565 8999999999999999999999998853 4554 24455555555443333332


Q ss_pred             HHHHHHHHHh-cCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039695          420 AVEASNQLIE-SNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTG  465 (605)
Q Consensus       420 a~~~~~~~~~-~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~  465 (605)
                      +......... ..|+....+...+..+...|++++|.+.+++..+..
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            2221111111 124334455667788899999999999999987754

>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=96.56  E-value=0.37  Score=46.35  Aligned_cols=412  Identities=11%  Similarity=-0.013  Sum_probs=209.0

Q ss_pred             hhhhhccchHHHHHHHHHhhhCCCCCChhhHHHHHHHhhChh--HHHHHHHHHHHhCCCC-chHHHHHHHHHHHcCCChh
Q 039695            3 KSLTRNLIFTLAASSLTRQNKRSSCHTKAHFIQQLQECKHLI--SLASVHSEILKSGFLS-NTFTLNHLINCYVRLKKTQ   79 (605)
Q Consensus         3 ~~l~~~~~~~~a~~~l~~m~~~g~~~~~~~~~~~l~~~~~~~--~~~~~~~~~~~~g~~~-~~~~~~~li~~~~~~g~~~   79 (605)
                      ....++|+...+.++...+...+.    ..|...-..-.+..  ....+...+.+..-.| ....-..-+..+.+.++++
T Consensus        14 ~~a~~~~~~~~~~~~~~~L~dypL----~pYl~~~~l~~~~~~~~~~~i~~Fl~~~p~~P~~~~lr~~~l~~L~~~~~w~   89 (450)
T d1qsaa1          14 KQAWDNRQMDVVEQMMPGLKDYPL----YPYLEYRQITDDLMNQPAVTVTNFVRANPTLPPARTLQSRFVNELARREDWR   89 (450)
T ss_dssp             HHHHHTTCHHHHHHHSGGGTTSTT----HHHHHHHHHHHTGGGCCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHhhhcCCCC----HHHHHHHHHHhccccCCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhccCHH
Confidence            345678888888888888754332    22333222222222  3356666665542222 1122334456778889988


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCC
Q 039695           80 VARQLFDEMLEPNVVSYTSLMAGYINMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGF  159 (605)
Q Consensus        80 ~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  159 (605)
                      .....+..-+ +++..-.....+....|+..+|...+...-..|.. ......                .++..+.+.| 
T Consensus        90 ~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~p~~c~----------------~l~~~~~~~~-  150 (450)
T d1qsaa1          90 GLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-QPNACD----------------KLFSVWRASG-  150 (450)
T ss_dssp             HHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-CCTHHH----------------HHHHHHHHTT-
T ss_pred             HHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-CchHHH----------------HHHHHHHhcC-
Confidence            8777665432 34554556777888899999998888777555422 122222                2344444444 


Q ss_pred             CCchhHHHHHHHHHHhCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHh
Q 039695          160 QYNLVVCSSLVDMYGKCNDVDGARRVFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINA  239 (605)
Q Consensus       160 ~~~~~~~~~Li~~y~~~g~~~~A~~~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a  239 (605)
                      ..+...+-.-+......|+...|..+...++..........+....+   +..+......      ..++......+..+
T Consensus       151 ~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~------~~~~~~~~~~~~~~  221 (450)
T d1qsaa1         151 KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFART------TGATDFTRQMAAVA  221 (450)
T ss_dssp             CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH------SCCCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc------CCCChhhhHHHHHH
Confidence            23344444455566667888888888877765444444444444322   2222222211      12233332223333


Q ss_pred             hccc--CchhhHHHHHHHHHHhCCCCcHh---HHHHHHHHHHhcCCHHHHHHHHhccCC--CCcchHHHHHHHHHHcCCh
Q 039695          240 CASL--GRLVSGKVAHGVVVRSGCEFNDV---VASALVDMYAKCGSVNYSDKVFNRISN--PSVVTYTSMIVGAAKYGLG  312 (605)
Q Consensus       240 ~~~~--~~~~~a~~~~~~~~~~g~~~~~~---~~~~li~~y~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~  312 (605)
                      ..+.  .+.+.+..++.............   ....+.......+..+.+...+.....  .+.....-.+......+++
T Consensus       222 l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~  301 (450)
T d1qsaa1         222 FASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDR  301 (450)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCCh
Confidence            3222  34555555555554433221111   111222223334555556555544331  2222222233344556777


Q ss_pred             hHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHHHHHH-H
Q 039695          313 RFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEAYKLA-K  391 (605)
Q Consensus       313 ~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~-~  391 (605)
                      ..+...|..|... ..-...-.--+..+....|+.+.|..+|..+. .   .++  -|.-|..  .+.|..-   .+- .
T Consensus       302 ~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a-~---~~~--fYG~LAa--~~Lg~~~---~~~~~  369 (450)
T d1qsaa1         302 RGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLM-Q---QRG--FYPMVAA--QRIGEEY---ELKID  369 (450)
T ss_dssp             HHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHH-T---SCS--HHHHHHH--HHTTCCC---CCCCC
T ss_pred             HHHHHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHh-c---CCC--hHHHHHH--HHcCCCC---CCCcC
Confidence            7777777766432 11123333445667777788888888887763 1   233  2332221  1111100   000 0


Q ss_pred             hCCCCCCchhh---HHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHH
Q 039695          392 SIQVDPDGGPL---LWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEM  461 (605)
Q Consensus       392 ~m~~~p~~~~~---~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m  461 (605)
                      ..+..+.. ..   .-..-+..+...|....|...+..+.+..  ++.-...++....+.|.++.|+....+.
T Consensus       370 ~~~~~~~~-~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         370 KAPQNVDS-ALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             CCCSCCCC-HHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             CCCccHHH-hhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHHHH
Confidence            01111110 10   01123455667888888888888777543  3446667778888888888888766554

>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=93.64  E-value=0.91  Score=33.90  Aligned_cols=139  Identities=12%  Similarity=0.072  Sum_probs=87.1

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhCCCHHHHHH
Q 039695          105 NMGQPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGKCNDVDGARR  184 (605)
Q Consensus       105 ~~g~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~  184 (605)
                      -.|..++..+++.+....   .+..-||.++--....-+-+...++++.+=+. +  |.          .+|+++.....
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~-F--Dl----------s~C~Nlk~vv~   77 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY-F--DL----------DKCQNLKSVVE   77 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-S--CG----------GGCSCTHHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh-c--Cc----------hhhhcHHHHHH
Confidence            346666666766666553   24445666655555555555544444433221 1  11          23444444444


Q ss_pred             HHhhcCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHcCCCCCChhHHHhHHHhhcccCchhhHHHHHHHHHHhCCC
Q 039695          185 VFDLMGCRNVVSWTSIIVAHAQNAQGHEALEMFREFNYQSRDRPNQHMLASVINACASLGRLVSGKVAHGVVVRSGCE  262 (605)
Q Consensus       185 ~~~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~  262 (605)
                      .+-.+.. +....+.-++...++|+-++-.++++++.+.+  +|++.....+..||.+.|...++..++.++-+.|+.
T Consensus        78 C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~--~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          78 CGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKNN--EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            4443322 23345556777888899888888888877654  788888888999999999999999888888888754

>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=93.22  E-value=0.65  Score=35.64  Aligned_cols=50  Identities=10%  Similarity=-0.033  Sum_probs=34.3

Q ss_pred             CChHHHHHHHHHHHhcCCCCCchHHHHHHHHHh----cCChhHHHHHHHHHHhCCC
Q 039695          415 GRVDIAVEASNQLIESNQQVANAYVTLSNTYAL----AGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       415 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~----~g~~~~a~~~~~~m~~~~~  466 (605)
                      .+.+.|.+.|++..+.+  ++.+...|+.+|..    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            34677777777777654  34566677777766    3567778888887777665

>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=93.09  E-value=1.2  Score=33.20  Aligned_cols=140  Identities=14%  Similarity=0.099  Sum_probs=93.8

Q ss_pred             HHcCChhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHhhcCCHHHH
Q 039695          307 AKYGLGRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVDMLGRTGRLDEA  386 (605)
Q Consensus       307 ~~~g~~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  386 (605)
                      .-.|..++..++..+....   .+..-|+.++--....-+-+-..+.++.+-+-+.+              ..++++...
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl--------------s~C~Nlk~v   75 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSV   75 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCc--------------hhhhcHHHH
Confidence            3456777777777777653   13344455554444444555555566655332222              345555555


Q ss_pred             HHHHHhCCCCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCchHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          387 YKLAKSIQVDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       387 ~~~~~~m~~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..-+-.+.  .+  ..-.+-.++...++|+-+.-.++++.+++.+..++....-++++|-+.|...++.+++.+.-++|+
T Consensus        76 v~C~~~~n--~~--se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          76 VECGVINN--TL--NEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHTT--CC--CHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhc--ch--HHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            55554443  22  455666778888899999989999998887777788888999999999999999999999999887


Q ss_pred             c
Q 039695          467 H  467 (605)
Q Consensus       467 ~  467 (605)
                      +
T Consensus       152 K  152 (161)
T d1wy6a1         152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=92.90  E-value=0.88  Score=34.85  Aligned_cols=109  Identities=11%  Similarity=0.029  Sum_probs=56.5

Q ss_pred             ChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----CCCHHHHH
Q 039695          108 QPQIALLLFQKMLGNLVWPNEFTFATVIKACSMLADLITGKQIHTHIETFGFQYNLVVCSSLVDMYGK----CNDVDGAR  183 (605)
Q Consensus       108 ~~~~a~~~~~~m~~~g~~pd~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~----~g~~~~A~  183 (605)
                      ++++|+++|++..+.|-   ......+.  .....+.++|.+.+....+.|   ++.....|..+|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            45677777777766652   22222222  233456677777777776665   34444555555543    34456666


Q ss_pred             HHHhhcCC-CChhhHHHHHHHHHH----cCChhHHHHHHHHHHHcC
Q 039695          184 RVFDLMGC-RNVVSWTSIIVAHAQ----NAQGHEALEMFREFNYQS  224 (605)
Q Consensus       184 ~~~~~m~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  224 (605)
                      +.|++..+ .++.+...|...|..    ..+.++|+++|++..+.|
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            66655433 333344444444433    234555555555544444

>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=92.70  E-value=0.61  Score=35.11  Aligned_cols=73  Identities=11%  Similarity=-0.056  Sum_probs=49.7

Q ss_pred             CcHHHHHHHHHHHhhcC---CHHHHHHHHHhCC-CCCCchhhHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCCch
Q 039695          365 PDAKHYTCVVDMLGRTG---RLDEAYKLAKSIQ-VDPDGGPLLWGTLLSASRLHGRVDIAVEASNQLIESNQQVANA  437 (605)
Q Consensus       365 p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~-~~p~~~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  437 (605)
                      |+..+-....-++.+..   +.++++.+++++- ..|......|-.|.-+|.+.|+++.|.+.++++++.+|++..+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            44555555555666553   3456777776643 2343223567778888899999999999999999999988654

>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=92.25  E-value=0.53  Score=35.46  Aligned_cols=66  Identities=6%  Similarity=-0.073  Sum_probs=52.6

Q ss_pred             hhHHHHHHHHHHHc---CChHHHHHHHHHHHhcCCCCC-chHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039695          401 PLLWGTLLSASRLH---GRVDIAVEASNQLIESNQQVA-NAYVTLSNTYALAGEWENVHSLRSEMKRTGI  466 (605)
Q Consensus       401 ~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~y~~~g~~~~a~~~~~~m~~~~~  466 (605)
                      ..+.-....++.+.   .+.++|+.+++++.+.+|.+. ..+..|+-+|.+.|++++|.+.++.+.+...
T Consensus        35 ~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP  104 (124)
T d2pqrb1          35 IQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  104 (124)
T ss_dssp             HHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             cchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            44555555566554   456789999999999888764 5788999999999999999999999987543

>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=80.58  E-value=3.9  Score=28.77  Aligned_cols=62  Identities=18%  Similarity=0.281  Sum_probs=44.6

Q ss_pred             hhHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 039695          312 GRFSLDLFNEMISRGIKPNDVTFVGVLHACSHSGLVDEGIQHLDSMYRKYGIIPDAKHYTCVVD  375 (605)
Q Consensus       312 ~~~A~~l~~~m~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  375 (605)
                      .-++.+-++.+....+.|++....+.|.||.+.+++..|.++|+....+.|  ++...|..+++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            345556666666677888888888999999999999999999888755543  33445655543